Search results for the GEO ID: GSE28497  |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM705467 | GPL96 |
|
SJPHALL024
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 5_Ph
day 19: pos
day 46: pos
|
BCR-ABL1 B-precursor ALL
|
| Sample_geo_accession | GSM705467
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705467/suppl/GSM705467.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705468 | GPL96 |
|
SJPHALL004
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 5_Ph
day 19: pos
day 46: pos
|
BCR-ABL1 B-precursor ALL
|
| Sample_geo_accession | GSM705468
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705468/suppl/GSM705468.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705469 | GPL96 |
|
SJPHALL005
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 5_Ph
day 19: pos
day 46: neg
|
BCR-ABL1 B-precursor ALL
|
| Sample_geo_accession | GSM705469
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705469/suppl/GSM705469.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705470 | GPL96 |
|
SJPHALL010
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 5_Ph
day 19: pos
day 46: pos
|
BCR-ABL1 B-precursor ALL
|
| Sample_geo_accession | GSM705470
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705470/suppl/GSM705470.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705471 | GPL96 |
|
SJPHALL006
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 5_Ph
day 19: pos
day 46: pos
|
BCR-ABL1 B-precursor ALL
|
| Sample_geo_accession | GSM705471
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705471/suppl/GSM705471.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705472 | GPL96 |
|
SJPHALL007
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 5_Ph
day 19: pos
day 46: pos
|
BCR-ABL1 B-precursor ALL
|
| Sample_geo_accession | GSM705472
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705472/suppl/GSM705472.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705473 | GPL96 |
|
SJPHALL008
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 5_Ph
day 19: pos
day 46: neg
|
BCR-ABL1 B-precursor ALL
|
| Sample_geo_accession | GSM705473
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705473/suppl/GSM705473.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705475 | GPL96 |
|
SJPHALL011
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 5_Ph
day 19: NA
day 46: pos
|
BCR-ABL1 B-precursor ALL
|
| Sample_geo_accession | GSM705475
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705475/suppl/GSM705475.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705476 | GPL96 |
|
SJHYPO121
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 5_Ph
day 19: pos
day 46: pos
|
BCR-ABL1 B-precursor ALL
|
| Sample_geo_accession | GSM705476
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705476/suppl/GSM705476.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705482 | GPL96 |
|
SJPHALL017
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 5_Ph
day 19: NA
day 46: NA
|
BCR-ABL1 B-precursor ALL
|
| Sample_geo_accession | GSM705482
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705482/suppl/GSM705482.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705483 | GPL96 |
|
SJPHALL019
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 5_Ph
day 19: NA
day 46: pos
|
BCR-ABL1 B-precursor ALL
|
| Sample_geo_accession | GSM705483
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705483/suppl/GSM705483.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705484 | GPL96 |
|
SJPHALL020
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 5_Ph
day 19: NA
day 46: NA
|
BCR-ABL1 B-precursor ALL
|
| Sample_geo_accession | GSM705484
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705484/suppl/GSM705484.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705485 | GPL96 |
|
SJPHALL001
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 5_Ph
day 19: NA
day 46: NA
|
BCR-ABL1 B-precursor ALL
|
| Sample_geo_accession | GSM705485
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705485/suppl/GSM705485.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705486 | GPL96 |
|
SJPHALL002
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 5_Ph
day 19: pos
day 46: pos
|
BCR-ABL1 B-precursor ALL
|
| Sample_geo_accession | GSM705486
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705486/suppl/GSM705486.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705487 | GPL96 |
|
SJPHALL003
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 5_Ph
day 19: pos
day 46: pos
|
BCR-ABL1 B-precursor ALL
|
| Sample_geo_accession | GSM705487
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705487/suppl/GSM705487.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705488 | GPL96 |
|
SJPHALL021
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 5_Ph
day 19: pos
day 46: pos
|
BCR-ABL1 B-precursor ALL
|
| Sample_geo_accession | GSM705488
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705488/suppl/GSM705488.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705498 | GPL96 |
|
SJE2A042
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 2_TCF3-PBX1
day 19: NA
day 46: NA
|
TCF3-PBX1 B-precursor ALL
|
| Sample_geo_accession | GSM705498
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705498/suppl/GSM705498.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705499 | GPL96 |
|
SJE2A043
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 2_TCF3-PBX1
day 19: NA
day 46: NA
|
TCF3-PBX1 B-precursor ALL
|
| Sample_geo_accession | GSM705499
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705499/suppl/GSM705499.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705500 | GPL96 |
|
SJE2A037
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 2_TCF3-PBX1
day 19: NA
day 46: NA
|
TCF3-PBX1 B-precursor ALL
|
| Sample_geo_accession | GSM705500
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705500/suppl/GSM705500.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705501 | GPL96 |
|
SJE2A038
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 2_TCF3-PBX1
day 19: NA
day 46: NA
|
TCF3-PBX1 B-precursor ALL
|
| Sample_geo_accession | GSM705501
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705501/suppl/GSM705501.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705502 | GPL96 |
|
SJE2A001
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 2_TCF3-PBX1
day 19: pos
day 46: pos
|
TCF3-PBX1 B-precursor ALL
|
| Sample_geo_accession | GSM705502
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705502/suppl/GSM705502.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705503 | GPL96 |
|
SJE2A002
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 2_TCF3-PBX1
day 19: neg
day 46: neg
|
TCF3-PBX1 B-precursor ALL
|
| Sample_geo_accession | GSM705503
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705503/suppl/GSM705503.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705504 | GPL96 |
|
SJE2A003
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 2_TCF3-PBX1
day 19: pos
day 46: neg
|
TCF3-PBX1 B-precursor ALL
|
| Sample_geo_accession | GSM705504
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705504/suppl/GSM705504.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705505 | GPL96 |
|
SJE2A004
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 2_TCF3-PBX1
day 19: neg
day 46: neg
|
TCF3-PBX1 B-precursor ALL
|
| Sample_geo_accession | GSM705505
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705505/suppl/GSM705505.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705506 | GPL96 |
|
SJE2A005
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 2_TCF3-PBX1
day 19: pos
day 46: neg
|
TCF3-PBX1 B-precursor ALL
|
| Sample_geo_accession | GSM705506
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705506/suppl/GSM705506.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705507 | GPL96 |
|
SJE2A006
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 2_TCF3-PBX1
day 19: neg
day 46: neg
|
TCF3-PBX1 B-precursor ALL
|
| Sample_geo_accession | GSM705507
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705507/suppl/GSM705507.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705508 | GPL96 |
|
SJE2A007
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 2_TCF3-PBX1
day 19: neg
day 46: neg
|
TCF3-PBX1 B-precursor ALL
|
| Sample_geo_accession | GSM705508
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705508/suppl/GSM705508.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705510 | GPL96 |
|
SJE2A010
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 2_TCF3-PBX1
day 19: NA
day 46: NA
|
TCF3-PBX1 B-precursor ALL
|
| Sample_geo_accession | GSM705510
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705510/suppl/GSM705510.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705511 | GPL96 |
|
SJE2A011
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 2_TCF3-PBX1
day 19: NA
day 46: NA
|
TCF3-PBX1 B-precursor ALL
|
| Sample_geo_accession | GSM705511
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705511/suppl/GSM705511.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705512 | GPL96 |
|
SJE2A012
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 2_TCF3-PBX1
day 19: NA
day 46: NA
|
TCF3-PBX1 B-precursor ALL
|
| Sample_geo_accession | GSM705512
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705512/suppl/GSM705512.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705513 | GPL96 |
|
SJE2A013
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 2_TCF3-PBX1
day 19: NA
day 46: neg
|
TCF3-PBX1 B-precursor ALL
|
| Sample_geo_accession | GSM705513
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705513/suppl/GSM705513.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705514 | GPL96 |
|
SJE2A014
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 2_TCF3-PBX1
day 19: NA
day 46: NA
|
TCF3-PBX1 B-precursor ALL
|
| Sample_geo_accession | GSM705514
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705514/suppl/GSM705514.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705515 | GPL96 |
|
SJE2A015
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 2_TCF3-PBX1
day 19: NA
day 46: NA
|
TCF3-PBX1 B-precursor ALL
|
| Sample_geo_accession | GSM705515
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705515/suppl/GSM705515.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705516 | GPL96 |
|
SJE2A016
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 2_TCF3-PBX1
day 19: NA
day 46: NA
|
TCF3-PBX1 B-precursor ALL
|
| Sample_geo_accession | GSM705516
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705516/suppl/GSM705516.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705517 | GPL96 |
|
SJE2A017
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 2_TCF3-PBX1
day 19: NA
day 46: NA
|
TCF3-PBX1 B-precursor ALL
|
| Sample_geo_accession | GSM705517
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705517/suppl/GSM705517.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705518 | GPL96 |
|
SJE2A019
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 2_TCF3-PBX1
day 19: neg
day 46: neg
|
TCF3-PBX1 B-precursor ALL
|
| Sample_geo_accession | GSM705518
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705518/suppl/GSM705518.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705519 | GPL96 |
|
SJE2A020
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 2_TCF3-PBX1
day 19: pos
day 46: neg
|
TCF3-PBX1 B-precursor ALL
|
| Sample_geo_accession | GSM705519
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705519/suppl/GSM705519.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705520 | GPL96 |
|
SJE2A021
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 2_TCF3-PBX1
day 19: pos
day 46: neg
|
TCF3-PBX1 B-precursor ALL
|
| Sample_geo_accession | GSM705520
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705520/suppl/GSM705520.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705536 | GPL96 |
|
SJHYPER157
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 1_Hyperdiploid
day 19: NA
day 46: NA
|
High hyperdiploid B-precursor ALL
|
| Sample_geo_accession | GSM705536
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705536/suppl/GSM705536.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705537 | GPL96 |
|
SJHYPER159
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 1_Hyperdiploid
day 19: NA
day 46: NA
|
High hyperdiploid B-precursor ALL
|
| Sample_geo_accession | GSM705537
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705537/suppl/GSM705537.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705538 | GPL96 |
|
SJHYPER160
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 1_Hyperdiploid
day 19: NA
day 46: NA
|
High hyperdiploid B-precursor ALL
|
| Sample_geo_accession | GSM705538
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705538/suppl/GSM705538.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705539 | GPL96 |
|
SJHYPER161
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 1_Hyperdiploid
day 19: NA
day 46: NA
|
High hyperdiploid B-precursor ALL
|
| Sample_geo_accession | GSM705539
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705539/suppl/GSM705539.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705540 | GPL96 |
|
SJHYPER154
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 1_Hyperdiploid
day 19: NA
day 46: neg
|
High hyperdiploid B-precursor ALL
|
| Sample_geo_accession | GSM705540
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705540/suppl/GSM705540.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705541 | GPL96 |
|
SJHYPER155
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 1_Hyperdiploid
day 19: neg
day 46: neg
|
High hyperdiploid B-precursor ALL
|
| Sample_geo_accession | GSM705541
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705541/suppl/GSM705541.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705542 | GPL96 |
|
SJHYPER156
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 1_Hyperdiploid
day 19: pos
day 46: neg
|
High hyperdiploid B-precursor ALL
|
| Sample_geo_accession | GSM705542
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705542/suppl/GSM705542.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705543 | GPL96 |
|
SJHYPER158
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 1_Hyperdiploid
day 19: NA
day 46: NA
|
High hyperdiploid B-precursor ALL
|
| Sample_geo_accession | GSM705543
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705543/suppl/GSM705543.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705544 | GPL96 |
|
SJHYPER162
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 1_Hyperdiploid
day 19: NA
day 46: NA
|
High hyperdiploid B-precursor ALL
|
| Sample_geo_accession | GSM705544
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705544/suppl/GSM705544.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705545 | GPL96 |
|
SJHYPER163
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 1_Hyperdiploid
day 19: NA
day 46: NA
|
High hyperdiploid B-precursor ALL
|
| Sample_geo_accession | GSM705545
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705545/suppl/GSM705545.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705546 | GPL96 |
|
SJHYPER001
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 1_Hyperdiploid
day 19: pos
day 46: neg
|
High hyperdiploid B-precursor ALL
|
| Sample_geo_accession | GSM705546
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705546/suppl/GSM705546.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705547 | GPL96 |
|
SJHYPER002
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 1_Hyperdiploid
day 19: pos
day 46: neg
|
High hyperdiploid B-precursor ALL
|
| Sample_geo_accession | GSM705547
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705547/suppl/GSM705547.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705548 | GPL96 |
|
SJHYPER003
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 1_Hyperdiploid
day 19: pos
day 46: pos
|
High hyperdiploid B-precursor ALL
|
| Sample_geo_accession | GSM705548
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705548/suppl/GSM705548.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705549 | GPL96 |
|
SJHYPER004
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 1_Hyperdiploid
day 19: neg
day 46: neg
|
High hyperdiploid B-precursor ALL
|
| Sample_geo_accession | GSM705549
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705549/suppl/GSM705549.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705550 | GPL96 |
|
SJHYPER005
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 1_Hyperdiploid
day 19: neg
day 46: neg
|
High hyperdiploid B-precursor ALL
|
| Sample_geo_accession | GSM705550
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705550/suppl/GSM705550.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705551 | GPL96 |
|
SJHYPER006
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 1_Hyperdiploid
day 19: neg
day 46: neg
|
High hyperdiploid B-precursor ALL
|
| Sample_geo_accession | GSM705551
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705551/suppl/GSM705551.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705552 | GPL96 |
|
SJHYPER007
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 1_Hyperdiploid
day 19: neg
day 46: neg
|
High hyperdiploid B-precursor ALL
|
| Sample_geo_accession | GSM705552
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705552/suppl/GSM705552.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705553 | GPL96 |
|
SJHYPER008
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 1_Hyperdiploid
day 19: neg
day 46: neg
|
High hyperdiploid B-precursor ALL
|
| Sample_geo_accession | GSM705553
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705553/suppl/GSM705553.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705554 | GPL96 |
|
SJHYPER009
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 1_Hyperdiploid
day 19: pos
day 46: neg
|
High hyperdiploid B-precursor ALL
|
| Sample_geo_accession | GSM705554
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705554/suppl/GSM705554.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705564 | GPL96 |
|
SJHYPER011
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 1_Hyperdiploid
day 19: pos
day 46: neg
|
High hyperdiploid B-precursor ALL
|
| Sample_geo_accession | GSM705564
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705564/suppl/GSM705564.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705573 | GPL96 |
|
SJHYPER012
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 1_Hyperdiploid
day 19: neg
day 46: neg
|
High hyperdiploid B-precursor ALL
|
| Sample_geo_accession | GSM705573
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705573/suppl/GSM705573.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705582 | GPL96 |
|
SJHYPER013
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 1_Hyperdiploid
day 19: pos
day 46: neg
|
High hyperdiploid B-precursor ALL
|
| Sample_geo_accession | GSM705582
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705582/suppl/GSM705582.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705593 | GPL96 |
|
SJHYPER014
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 1_Hyperdiploid
day 19: neg
day 46: neg
|
High hyperdiploid B-precursor ALL
|
| Sample_geo_accession | GSM705593
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705593/suppl/GSM705593.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705600 | GPL96 |
|
SJHYPER134
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 1_Hyperdiploid
day 19: pos
day 46: neg
|
High hyperdiploid B-precursor ALL
|
| Sample_geo_accession | GSM705600
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705600/suppl/GSM705600.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705601 | GPL96 |
|
SJHYPER015
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 1_Hyperdiploid
day 19: pos
day 46: pos
|
High hyperdiploid B-precursor ALL
|
| Sample_geo_accession | GSM705601
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705601/suppl/GSM705601.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705606 | GPL96 |
|
SJHYPER016
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 1_Hyperdiploid
day 19: pos
day 46: pos
|
High hyperdiploid B-precursor ALL
|
| Sample_geo_accession | GSM705606
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705606/suppl/GSM705606.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705614 | GPL96 |
|
SJHYPER017
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 1_Hyperdiploid
day 19: neg
day 46: neg
|
High hyperdiploid B-precursor ALL
|
| Sample_geo_accession | GSM705614
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705614/suppl/GSM705614.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705616 | GPL96 |
|
SJHYPER018
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 1_Hyperdiploid
day 19: neg
day 46: neg
|
High hyperdiploid B-precursor ALL
|
| Sample_geo_accession | GSM705616
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705616/suppl/GSM705616.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705617 | GPL96 |
|
SJHYPER019
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 1_Hyperdiploid
day 19: pos
day 46: pos
|
High hyperdiploid B-precursor ALL
|
| Sample_geo_accession | GSM705617
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705617/suppl/GSM705617.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705619 | GPL96 |
|
SJHYPER021
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 1_Hyperdiploid
day 19: neg
day 46: neg
|
High hyperdiploid B-precursor ALL
|
| Sample_geo_accession | GSM705619
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705619/suppl/GSM705619.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705622 | GPL96 |
|
SJHYPER024
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 1_Hyperdiploid
day 19: NA
day 46: NA
|
High hyperdiploid B-precursor ALL
|
| Sample_geo_accession | GSM705622
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705622/suppl/GSM705622.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705623 | GPL96 |
|
SJHYPER027
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 1_Hyperdiploid
day 19: pos
day 46: neg
|
High hyperdiploid B-precursor ALL
|
| Sample_geo_accession | GSM705623
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705623/suppl/GSM705623.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705624 | GPL96 |
|
SJHYPER029
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 1_Hyperdiploid
day 19: neg
day 46: neg
|
High hyperdiploid B-precursor ALL
|
| Sample_geo_accession | GSM705624
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705624/suppl/GSM705624.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705625 | GPL96 |
|
SJHYPER030
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 1_Hyperdiploid
day 19: neg
day 46: neg
|
High hyperdiploid B-precursor ALL
|
| Sample_geo_accession | GSM705625
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705625/suppl/GSM705625.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705626 | GPL96 |
|
SJERG027
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 1_Hyperdiploid
day 19: neg
day 46: neg
|
High hyperdiploid B-precursor ALL
|
| Sample_geo_accession | GSM705626
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705626/suppl/GSM705626.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705627 | GPL96 |
|
SJHYPER047
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 1_Hyperdiploid
day 19: neg
day 46: neg
|
High hyperdiploid B-precursor ALL
|
| Sample_geo_accession | GSM705627
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705627/suppl/GSM705627.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705629 | GPL96 |
|
SJHYPER051
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 1_Hyperdiploid
day 19: neg
day 46: neg
|
High hyperdiploid B-precursor ALL
|
| Sample_geo_accession | GSM705629
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705629/suppl/GSM705629.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705630 | GPL96 |
|
SJHYPER052
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 1_Hyperdiploid
day 19: pos
day 46: neg
|
High hyperdiploid B-precursor ALL
|
| Sample_geo_accession | GSM705630
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705630/suppl/GSM705630.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705631 | GPL96 |
|
SJHYPER053
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 1_Hyperdiploid
day 19: pos
day 46: pos
|
High hyperdiploid B-precursor ALL
|
| Sample_geo_accession | GSM705631
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705631/suppl/GSM705631.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705632 | GPL96 |
|
SJHYPER054
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 1_Hyperdiploid
day 19: neg
day 46: neg
|
High hyperdiploid B-precursor ALL
|
| Sample_geo_accession | GSM705632
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705632/suppl/GSM705632.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705633 | GPL96 |
|
SJHYPER055
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 1_Hyperdiploid
day 19: pos
day 46: pos
|
High hyperdiploid B-precursor ALL
|
| Sample_geo_accession | GSM705633
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705633/suppl/GSM705633.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705634 | GPL96 |
|
SJHYPER056
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 1_Hyperdiploid
day 19: pos
day 46: neg
|
High hyperdiploid B-precursor ALL
|
| Sample_geo_accession | GSM705634
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705634/suppl/GSM705634.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705635 | GPL96 |
|
SJHYPER057
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 1_Hyperdiploid
day 19: neg
day 46: neg
|
High hyperdiploid B-precursor ALL
|
| Sample_geo_accession | GSM705635
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705635/suppl/GSM705635.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705637 | GPL96 |
|
SJHYPER064
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 1_Hyperdiploid
day 19: pos
day 46: pos
|
High hyperdiploid B-precursor ALL
|
| Sample_geo_accession | GSM705637
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705637/suppl/GSM705637.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705639 | GPL96 |
|
SJHYPER069
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 1_Hyperdiploid
day 19: pos
day 46: neg
|
High hyperdiploid B-precursor ALL
|
| Sample_geo_accession | GSM705639
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705639/suppl/GSM705639.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705640 | GPL96 |
|
SJHYPER070
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 1_Hyperdiploid
day 19: neg
day 46: neg
|
High hyperdiploid B-precursor ALL
|
| Sample_geo_accession | GSM705640
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705640/suppl/GSM705640.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705641 | GPL96 |
|
SJHYPER075
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 1_Hyperdiploid
day 19: neg
day 46: neg
|
High hyperdiploid B-precursor ALL
|
| Sample_geo_accession | GSM705641
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705641/suppl/GSM705641.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705642 | GPL96 |
|
SJHYPER076
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 1_Hyperdiploid
day 19: pos
day 46: neg
|
High hyperdiploid B-precursor ALL
|
| Sample_geo_accession | GSM705642
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705642/suppl/GSM705642.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705643 | GPL96 |
|
SJHYPER078
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 1_Hyperdiploid
day 19: neg
day 46: neg
|
High hyperdiploid B-precursor ALL
|
| Sample_geo_accession | GSM705643
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705643/suppl/GSM705643.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705644 | GPL96 |
|
SJHYPER080
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 1_Hyperdiploid
day 19: neg
day 46: neg
|
High hyperdiploid B-precursor ALL
|
| Sample_geo_accession | GSM705644
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705644/suppl/GSM705644.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705645 | GPL96 |
|
SJHYPER082
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 1_Hyperdiploid
day 19: pos
day 46: neg
|
High hyperdiploid B-precursor ALL
|
| Sample_geo_accession | GSM705645
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705645/suppl/GSM705645.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705646 | GPL96 |
|
SJHYPER084
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 1_Hyperdiploid
day 19: pos
day 46: neg
|
High hyperdiploid B-precursor ALL
|
| Sample_geo_accession | GSM705646
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705646/suppl/GSM705646.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705648 | GPL96 |
|
SJBALL190
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 7_Other
day 19: pos
day 46: neg
|
B-precursor ALL with miscellaneous karyotype
|
| Sample_geo_accession | GSM705648
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705648/suppl/GSM705648.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705649 | GPL96 |
|
SJBALL191
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 7_Other
day 19: neg
day 46: neg
|
B-precursor ALL with miscellaneous karyotype
|
| Sample_geo_accession | GSM705649
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705649/suppl/GSM705649.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705650 | GPL96 |
|
SJBALL193
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 7_Other
day 19: neg
day 46: neg
|
B-precursor ALL with miscellaneous karyotype
|
| Sample_geo_accession | GSM705650
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705650/suppl/GSM705650.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705651 | GPL96 |
|
SJBALL006
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 7_Other
day 19: neg
day 46: neg
|
B-precursor ALL with miscellaneous karyotype
|
| Sample_geo_accession | GSM705651
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705651/suppl/GSM705651.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705652 | GPL96 |
|
SJBALL197
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 7_Other
day 19: pos
day 46: neg
|
B-precursor ALL with miscellaneous karyotype
|
| Sample_geo_accession | GSM705652
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705652/suppl/GSM705652.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705653 | GPL96 |
|
SJBALL198
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 7_Other
day 19: pos
day 46: neg
|
B-precursor ALL with miscellaneous karyotype
|
| Sample_geo_accession | GSM705653
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705653/suppl/GSM705653.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705654 | GPL96 |
|
SJERG029
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 7_Other
day 19: pos
day 46: neg
|
B-precursor ALL with miscellaneous karyotype
|
| Sample_geo_accession | GSM705654
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705654/suppl/GSM705654.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705655 | GPL96 |
|
SJBALL200
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 7_Other
day 19: pos
day 46: neg
|
B-precursor ALL with miscellaneous karyotype
|
| Sample_geo_accession | GSM705655
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705655/suppl/GSM705655.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705656 | GPL96 |
|
SJHYPO113
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 6_Hypo
day 19: neg
day 46: neg
|
B-precursor ALL with hypodiploid karyotype
|
| Sample_geo_accession | GSM705656
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705656/suppl/GSM705656.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705657 | GPL96 |
|
SJBALL201
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 7_Other
day 19: pos
day 46: neg
|
B-precursor ALL with miscellaneous karyotype
|
| Sample_geo_accession | GSM705657
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705657/suppl/GSM705657.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705658 | GPL96 |
|
SJBALL202
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 7_Other
day 19: pos
day 46: neg
|
B-precursor ALL with miscellaneous karyotype
|
| Sample_geo_accession | GSM705658
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705658/suppl/GSM705658.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705659 | GPL96 |
|
SJBALL203
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 7_Other
day 19: pos
day 46: pos
|
B-precursor ALL with miscellaneous karyotype
|
| Sample_geo_accession | GSM705659
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705659/suppl/GSM705659.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705660 | GPL96 |
|
SJBALL204
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 7_Other
day 19: pos
day 46: pos
|
B-precursor ALL with miscellaneous karyotype
|
| Sample_geo_accession | GSM705660
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705660/suppl/GSM705660.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705661 | GPL96 |
|
SJBALL206
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 7_Other
day 19: pos
day 46: neg
|
B-precursor ALL with miscellaneous karyotype
|
| Sample_geo_accession | GSM705661
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705661/suppl/GSM705661.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705663 | GPL96 |
|
SJERG025
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 7_Other
day 19: NA
day 46: neg
|
B-precursor ALL with miscellaneous karyotype
|
| Sample_geo_accession | GSM705663
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705663/suppl/GSM705663.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705664 | GPL96 |
|
SJBALL152
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 7_Other
day 19: neg
day 46: neg
|
B-precursor ALL with miscellaneous karyotype
|
| Sample_geo_accession | GSM705664
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705664/suppl/GSM705664.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705665 | GPL96 |
|
SJBALL153
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 7_Other
day 19: pos
day 46: neg
|
B-precursor ALL with miscellaneous karyotype
|
| Sample_geo_accession | GSM705665
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705665/suppl/GSM705665.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705666 | GPL96 |
|
SJHYPO122
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 6_Hypo
day 19: pos
day 46: neg
|
B-precursor ALL with hypodiploid karyotype
|
| Sample_geo_accession | GSM705666
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705666/suppl/GSM705666.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705673 | GPL96 |
|
SJBALL161
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 7_Other
day 19: pos
day 46: pos
|
B-precursor ALL with miscellaneous karyotype
|
| Sample_geo_accession | GSM705673
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705673/suppl/GSM705673.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705675 | GPL96 |
|
SJHYPO132
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 6_Hypo
day 19: NA
day 46: NA
|
B-precursor ALL with hypodiploid karyotype
|
| Sample_geo_accession | GSM705675
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705675/suppl/GSM705675.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705676 | GPL96 |
|
SJHYPO131
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 6_Hypo
day 19: NA
day 46: neg
|
B-precursor ALL with hypodiploid karyotype
|
| Sample_geo_accession | GSM705676
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705676/suppl/GSM705676.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705677 | GPL96 |
|
SJHYPO107
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 6_Hypo
day 19: pos
day 46: neg
|
B-precursor ALL with hypodiploid karyotype
|
| Sample_geo_accession | GSM705677
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705677/suppl/GSM705677.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705678 | GPL96 |
|
SJHYPO108
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 6_Hypo
day 19: pos
day 46: neg
|
B-precursor ALL with hypodiploid karyotype
|
| Sample_geo_accession | GSM705678
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705678/suppl/GSM705678.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705679 | GPL96 |
|
SJHYPO109
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 6_Hypo
day 19: neg
day 46: neg
|
B-precursor ALL with hypodiploid karyotype
|
| Sample_geo_accession | GSM705679
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705679/suppl/GSM705679.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705680 | GPL96 |
|
SJHYPO110
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 6_Hypo
day 19: pos
day 46: pos
|
B-precursor ALL with hypodiploid karyotype
|
| Sample_geo_accession | GSM705680
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705680/suppl/GSM705680.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705682 | GPL96 |
|
SJHYPO112
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 6_Hypo
day 19: neg
day 46: neg
|
B-precursor ALL with hypodiploid karyotype
|
| Sample_geo_accession | GSM705682
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705682/suppl/GSM705682.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705683 | GPL96 |
|
SJHYPO101
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 6_Hypo
day 19: neg
day 46: neg
|
B-precursor ALL with hypodiploid karyotype
|
| Sample_geo_accession | GSM705683
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705683/suppl/GSM705683.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705686 | GPL96 |
|
SJINF062
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 4_MLL
day 19: NA
day 46: NA
|
MLL-rearranged B-precursor ALL
|
| Sample_geo_accession | GSM705686
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705686/suppl/GSM705686.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705688 | GPL96 |
|
SJINF068
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 4_MLL
day 19: NA
day 46: pos
|
MLL-rearranged B-precursor ALL
|
| Sample_geo_accession | GSM705688
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705688/suppl/GSM705688.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705689 | GPL96 |
|
SJMLL035
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 4_MLL
day 19: NA
day 46: NA
|
MLL-rearranged B-precursor ALL
|
| Sample_geo_accession | GSM705689
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705689/suppl/GSM705689.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705690 | GPL96 |
|
SJMLL036
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 4_MLL
day 19: NA
day 46: neg
|
MLL-rearranged B-precursor ALL
|
| Sample_geo_accession | GSM705690
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705690/suppl/GSM705690.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705691 | GPL96 |
|
SJMLL034
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 4_MLL
day 19: NA
day 46: pos
|
MLL-rearranged B-precursor ALL
|
| Sample_geo_accession | GSM705691
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705691/suppl/GSM705691.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705692 | GPL96 |
|
SJMLL038
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 4_MLL
day 19: NA
day 46: NA
|
MLL-rearranged B-precursor ALL
|
| Sample_geo_accession | GSM705692
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705692/suppl/GSM705692.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705693 | GPL96 |
|
SJINF076
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 4_MLL
day 19: NA
day 46: NA
|
MLL-rearranged B-precursor ALL
|
| Sample_geo_accession | GSM705693
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705693/suppl/GSM705693.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705695 | GPL96 |
|
SJHYPO111
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 4_MLL
day 19: pos
day 46: neg
|
MLL-rearranged B-precursor ALL
|
| Sample_geo_accession | GSM705695
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705695/suppl/GSM705695.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705698 | GPL96 |
|
SJMLL025
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 4_MLL
day 19: neg
day 46: neg
|
MLL-rearranged B-precursor ALL
|
| Sample_geo_accession | GSM705698
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705698/suppl/GSM705698.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705699 | GPL96 |
|
SJMLL026
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 4_MLL
day 19: pos
day 46: pos
|
MLL-rearranged B-precursor ALL
|
| Sample_geo_accession | GSM705699
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705699/suppl/GSM705699.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705700 | GPL96 |
|
SJMLL027
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 4_MLL
day 19: NA
day 46: NA
|
MLL-rearranged B-precursor ALL
|
| Sample_geo_accession | GSM705700
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705700/suppl/GSM705700.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705701 | GPL96 |
|
SJINF065
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 4_MLL
day 19: pos
day 46: pos
|
MLL-rearranged B-precursor ALL
|
| Sample_geo_accession | GSM705701
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705701/suppl/GSM705701.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705702 | GPL96 |
|
SJINF064
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 4_MLL
day 19: neg
day 46: NA
|
MLL-rearranged B-precursor ALL
|
| Sample_geo_accession | GSM705702
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705702/suppl/GSM705702.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705703 | GPL96 |
|
SJINF006
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 4_MLL
day 19: pos
day 46: pos
|
MLL-rearranged B-precursor ALL
|
| Sample_geo_accession | GSM705703
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705703/suppl/GSM705703.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705704 | GPL96 |
|
SJINF008
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 4_MLL
day 19: NA
day 46: NA
|
MLL-rearranged B-precursor ALL
|
| Sample_geo_accession | GSM705704
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705704/suppl/GSM705704.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705706 | GPL96 |
|
SJINF003
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 4_MLL
day 19: NA
day 46: pos
|
MLL-rearranged B-precursor ALL
|
| Sample_geo_accession | GSM705706
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705706/suppl/GSM705706.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705707 | GPL96 |
|
SJINF001
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 4_MLL
day 19: neg
day 46: neg
|
MLL-rearranged B-precursor ALL
|
| Sample_geo_accession | GSM705707
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705707/suppl/GSM705707.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705712 | GPL96 |
|
SJBALL122
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 7_Other
day 19: NA
day 46: NA
|
B-precursor ALL with miscellaneous karyotype
|
| Sample_geo_accession | GSM705712
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705712/suppl/GSM705712.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705714 | GPL96 |
|
SJHYPO146
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 6_Hypo
day 19: pos
day 46: pos
|
B-precursor ALL with hypodiploid karyotype
|
| Sample_geo_accession | GSM705714
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705714/suppl/GSM705714.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705715 | GPL96 |
|
SJBALL011
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 7_Other
day 19: pos
day 46: pos
|
B-precursor ALL with miscellaneous karyotype
|
| Sample_geo_accession | GSM705715
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705715/suppl/GSM705715.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705717 | GPL96 |
|
SJBALL013
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 7_Other
day 19: pos
day 46: neg
|
B-precursor ALL with miscellaneous karyotype
|
| Sample_geo_accession | GSM705717
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705717/suppl/GSM705717.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705718 | GPL96 |
|
SJHYPO128
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 6_Hypo
day 19: neg
day 46: neg
|
B-precursor ALL with hypodiploid karyotype
|
| Sample_geo_accession | GSM705718
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705718/suppl/GSM705718.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705721 | GPL96 |
|
SJERG001
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 7_Other
day 19: NA
day 46: neg
|
B-precursor ALL with miscellaneous karyotype
|
| Sample_geo_accession | GSM705721
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705721/suppl/GSM705721.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705722 | GPL96 |
|
SJERG002
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 7_Other
day 19: NA
day 46: neg
|
B-precursor ALL with miscellaneous karyotype
|
| Sample_geo_accession | GSM705722
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705722/suppl/GSM705722.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705741 | GPL96 |
|
SJERG003
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 7_Other
day 19: NA
day 46: NA
|
B-precursor ALL with miscellaneous karyotype
|
| Sample_geo_accession | GSM705741
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705741/suppl/GSM705741.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705756 | GPL96 |
|
SJBALL018
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 7_Other
day 19: NA
day 46: NA
|
B-precursor ALL with miscellaneous karyotype
|
| Sample_geo_accession | GSM705756
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705756/suppl/GSM705756.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705759 | GPL96 |
|
SJBALL110
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 7_Other
day 19: neg
day 46: neg
|
B-precursor ALL with miscellaneous karyotype
|
| Sample_geo_accession | GSM705759
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705759/suppl/GSM705759.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705761 | GPL96 |
|
SJBALL113
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 7_Other
day 19: pos
day 46: pos
|
B-precursor ALL with miscellaneous karyotype
|
| Sample_geo_accession | GSM705761
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705761/suppl/GSM705761.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705762 | GPL96 |
|
SJERG021
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 7_Other
day 19: pos
day 46: pos
|
B-precursor ALL with miscellaneous karyotype
|
| Sample_geo_accession | GSM705762
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705762/suppl/GSM705762.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705763 | GPL96 |
|
SJHYPO115
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 6_Hypo
day 19: pos
day 46: pos
|
B-precursor ALL with hypodiploid karyotype
|
| Sample_geo_accession | GSM705763
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705763/suppl/GSM705763.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705764 | GPL96 |
|
SJHYPO141
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 6_Hypo
day 19: pos
day 46: pos
|
B-precursor ALL with hypodiploid karyotype
|
| Sample_geo_accession | GSM705764
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705764/suppl/GSM705764.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705765 | GPL96 |
|
SJERG004
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 7_Other
day 19: NA
day 46: NA
|
B-precursor ALL with miscellaneous karyotype
|
| Sample_geo_accession | GSM705765
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705765/suppl/GSM705765.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705766 | GPL96 |
|
SJHYPO142
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 7_Other
day 19: pos
day 46: pos
|
B-precursor ALL with miscellaneous karyotype
|
| Sample_geo_accession | GSM705766
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705766/suppl/GSM705766.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705776 | GPL96 |
|
SJERG005
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 7_Other
day 19: NA
day 46: NA
|
B-precursor ALL with miscellaneous karyotype
|
| Sample_geo_accession | GSM705776
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705776/suppl/GSM705776.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705777 | GPL96 |
|
SJERG006
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 7_Other
day 19: NA
day 46: NA
|
B-precursor ALL with miscellaneous karyotype
|
| Sample_geo_accession | GSM705777
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705777/suppl/GSM705777.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705778 | GPL96 |
|
SJERG007
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 7_Other
day 19: NA
day 46: NA
|
B-precursor ALL with miscellaneous karyotype
|
| Sample_geo_accession | GSM705778
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705778/suppl/GSM705778.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705779 | GPL96 |
|
SJERG008
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 7_Other
day 19: NA
day 46: NA
|
B-precursor ALL with miscellaneous karyotype
|
| Sample_geo_accession | GSM705779
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705779/suppl/GSM705779.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705787 | GPL96 |
|
SJBALL032
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 7_Other
day 19: NA
day 46: NA
|
B-precursor ALL with miscellaneous karyotype
|
| Sample_geo_accession | GSM705787
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705787/suppl/GSM705787.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705789 | GPL96 |
|
SJBALL036
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 7_Other
day 19: pos
day 46: pos
|
B-precursor ALL with miscellaneous karyotype
|
| Sample_geo_accession | GSM705789
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705789/suppl/GSM705789.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705818 | GPL96 |
|
SJBALL063
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 7_Other
day 19: neg
day 46: neg
|
B-precursor ALL with miscellaneous karyotype
|
| Sample_geo_accession | GSM705818
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705818/suppl/GSM705818.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705819 | GPL96 |
|
SJHYPO136
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 6_Hypo
day 19: neg
day 46: neg
|
B-precursor ALL with hypodiploid karyotype
|
| Sample_geo_accession | GSM705819
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705819/suppl/GSM705819.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705820 | GPL96 |
|
SJBALL066
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 7_Other
day 19: pos
day 46: neg
|
B-precursor ALL with miscellaneous karyotype
|
| Sample_geo_accession | GSM705820
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705820/suppl/GSM705820.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705821 | GPL96 |
|
SJBALL070
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 7_Other
day 19: neg
day 46: neg
|
B-precursor ALL with miscellaneous karyotype
|
| Sample_geo_accession | GSM705821
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705821/suppl/GSM705821.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705823 | GPL96 |
|
SJHYPO137
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 6_Hypo
day 19: neg
day 46: neg
|
B-precursor ALL with hypodiploid karyotype
|
| Sample_geo_accession | GSM705823
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705823/suppl/GSM705823.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705824 | GPL96 |
|
SJBALL074
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 7_Other
day 19: pos
day 46: pos
|
B-precursor ALL with miscellaneous karyotype
|
| Sample_geo_accession | GSM705824
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705824/suppl/GSM705824.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705825 | GPL96 |
|
SJBALL076
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 7_Other
day 19: neg
day 46: neg
|
B-precursor ALL with miscellaneous karyotype
|
| Sample_geo_accession | GSM705825
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705825/suppl/GSM705825.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705831 | GPL96 |
|
SJBALL137
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 7_Other
day 19: NA
day 46: NA
|
B-precursor ALL with miscellaneous karyotype
|
| Sample_geo_accession | GSM705831
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705831/suppl/GSM705831.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705832 | GPL96 |
|
SJBALL138
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 7_Other
day 19: NA
day 46: NA
|
B-precursor ALL with miscellaneous karyotype
|
| Sample_geo_accession | GSM705832
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705832/suppl/GSM705832.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705833 | GPL96 |
|
SJBALL139
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 7_Other
day 19: NA
day 46: neg
|
B-precursor ALL with miscellaneous karyotype
|
| Sample_geo_accession | GSM705833
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705833/suppl/GSM705833.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705834 | GPL96 |
|
SJBALL140
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 7_Other
day 19: NA
day 46: NA
|
B-precursor ALL with miscellaneous karyotype
|
| Sample_geo_accession | GSM705834
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705834/suppl/GSM705834.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705835 | GPL96 |
|
SJBALL141
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 7_Other
day 19: NA
day 46: NA
|
B-precursor ALL with miscellaneous karyotype
|
| Sample_geo_accession | GSM705835
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705835/suppl/GSM705835.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705836 | GPL96 |
|
SJBALL189
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 7_Other
day 19: pos
day 46: neg
|
B-precursor ALL with miscellaneous karyotype
|
| Sample_geo_accession | GSM705836
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705836/suppl/GSM705836.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705837 | GPL96 |
|
SJBALL192
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 7_Other
day 19: neg
day 46: neg
|
B-precursor ALL with miscellaneous karyotype
|
| Sample_geo_accession | GSM705837
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705837/suppl/GSM705837.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705838 | GPL96 |
|
SJBALL194
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 7_Other
day 19: pos
day 46: neg
|
B-precursor ALL with miscellaneous karyotype
|
| Sample_geo_accession | GSM705838
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705838/suppl/GSM705838.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705839 | GPL96 |
|
SJBALL195
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 7_Other
day 19: pos
day 46: pos
|
B-precursor ALL with miscellaneous karyotype
|
| Sample_geo_accession | GSM705839
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705839/suppl/GSM705839.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705841 | GPL96 |
|
SJBALL196
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 7_Other
day 19: neg
day 46: neg
|
B-precursor ALL with miscellaneous karyotype
|
| Sample_geo_accession | GSM705841
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705841/suppl/GSM705841.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705842 | GPL96 |
|
SJBALL199
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 7_Other
day 19: pos
day 46: pos
|
B-precursor ALL with miscellaneous karyotype
|
| Sample_geo_accession | GSM705842
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705842/suppl/GSM705842.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705844 | GPL96 |
|
SJERG030
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 7_Other
day 19: neg
day 46: neg
|
B-precursor ALL with miscellaneous karyotype
|
| Sample_geo_accession | GSM705844
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705844/suppl/GSM705844.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705845 | GPL96 |
|
SJBALL207
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 7_Other
day 19: pos
day 46: neg
|
B-precursor ALL with miscellaneous karyotype
|
| Sample_geo_accession | GSM705845
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705845/suppl/GSM705845.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705846 | GPL96 |
|
SJBALL209
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 7_Other
day 19: pos
day 46: neg
|
B-precursor ALL with miscellaneous karyotype
|
| Sample_geo_accession | GSM705846
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705846/suppl/GSM705846.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705848 | GPL96 |
|
SJBALL177
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 7_Other
day 19: neg
day 46: neg
|
B-precursor ALL with miscellaneous karyotype
|
| Sample_geo_accession | GSM705848
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705848/suppl/GSM705848.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705849 | GPL96 |
|
SJERG026
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 7_Other
day 19: pos
day 46: neg
|
B-precursor ALL with miscellaneous karyotype
|
| Sample_geo_accession | GSM705849
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705849/suppl/GSM705849.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705850 | GPL96 |
|
SJERG028
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 7_Other
day 19: neg
day 46: neg
|
B-precursor ALL with miscellaneous karyotype
|
| Sample_geo_accession | GSM705850
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705850/suppl/GSM705850.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705851 | GPL96 |
|
SJERG023
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 7_Other
day 19: NA
day 46: NA
|
B-precursor ALL with miscellaneous karyotype
|
| Sample_geo_accession | GSM705851
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705851/suppl/GSM705851.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705852 | GPL96 |
|
SJERG024
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 7_Other
day 19: NA
day 46: NA
|
B-precursor ALL with miscellaneous karyotype
|
| Sample_geo_accession | GSM705852
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705852/suppl/GSM705852.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705853 | GPL96 |
|
SJTALL136
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 8_T-ALL
day 19: neg
day 46: neg
|
T-lineage ALL
|
| Sample_geo_accession | GSM705853
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705853/suppl/GSM705853.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705854 | GPL96 |
|
SJTALL143
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 8_T-ALL
day 19: NA
day 46: NA
|
T-lineage ALL
|
| Sample_geo_accession | GSM705854
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705854/suppl/GSM705854.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705855 | GPL96 |
|
SJTALL118
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 8_T-ALL
day 19: NA
day 46: pos
|
T-lineage ALL
|
| Sample_geo_accession | GSM705855
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705855/suppl/GSM705855.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705856 | GPL96 |
|
SJTALL127
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 8_T-ALL
day 19: NA
day 46: neg
|
T-lineage ALL
|
| Sample_geo_accession | GSM705856
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705856/suppl/GSM705856.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705857 | GPL96 |
|
SJTALL130
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 8_T-ALL
day 19: NA
day 46: neg
|
T-lineage ALL
|
| Sample_geo_accession | GSM705857
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705857/suppl/GSM705857.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705858 | GPL96 |
|
SJTALL165
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 8_T-ALL
day 19: pos
day 46: NA
|
T-lineage ALL
|
| Sample_geo_accession | GSM705858
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705858/suppl/GSM705858.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705859 | GPL96 |
|
SJTALL063
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 8_T-ALL
day 19: neg
day 46: neg
|
T-lineage ALL
|
| Sample_geo_accession | GSM705859
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705859/suppl/GSM705859.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705860 | GPL96 |
|
SJTALL064
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 8_T-ALL
day 19: neg
day 46: neg
|
T-lineage ALL
|
| Sample_geo_accession | GSM705860
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705860/suppl/GSM705860.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705861 | GPL96 |
|
SJTALL065
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 8_T-ALL
day 19: neg
day 46: neg
|
T-lineage ALL
|
| Sample_geo_accession | GSM705861
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705861/suppl/GSM705861.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705862 | GPL96 |
|
SJTALL001
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 8_T-ALL
day 19: pos
day 46: neg
|
T-lineage ALL
|
| Sample_geo_accession | GSM705862
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705862/suppl/GSM705862.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705863 | GPL96 |
|
SJTALL066
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 8_T-ALL
day 19: neg
day 46: neg
|
T-lineage ALL
|
| Sample_geo_accession | GSM705863
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705863/suppl/GSM705863.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705864 | GPL96 |
|
SJTALL067
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 8_T-ALL
day 19: pos
day 46: pos
|
T-lineage ALL
|
| Sample_geo_accession | GSM705864
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705864/suppl/GSM705864.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705865 | GPL96 |
|
SJTALL068
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 8_T-ALL
day 19: pos
day 46: pos
|
T-lineage ALL
|
| Sample_geo_accession | GSM705865
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705865/suppl/GSM705865.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705866 | GPL96 |
|
SJTALL069
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 4_MLL
day 19: pos
day 46: neg
|
MLL-rearranged T-lineage ALL
|
| Sample_geo_accession | GSM705866
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705866/suppl/GSM705866.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705867 | GPL96 |
|
SJTALL003
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 8_T-ALL
day 19: pos
day 46: neg
|
T-lineage ALL
|
| Sample_geo_accession | GSM705867
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705867/suppl/GSM705867.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705873 | GPL96 |
|
SJTALL070
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 8_T-ALL
day 19: pos
day 46: NA
|
T-lineage ALL
|
| Sample_geo_accession | GSM705873
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705873/suppl/GSM705873.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705874 | GPL96 |
|
SJTALL071
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 8_T-ALL
day 19: pos
day 46: pos
|
T-lineage ALL
|
| Sample_geo_accession | GSM705874
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705874/suppl/GSM705874.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705875 | GPL96 |
|
SJTALL072
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 8_T-ALL
day 19: neg
day 46: neg
|
T-lineage ALL
|
| Sample_geo_accession | GSM705875
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705875/suppl/GSM705875.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705876 | GPL96 |
|
SJTALL073
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 8_T-ALL
day 19: neg
day 46: neg
|
T-lineage ALL
|
| Sample_geo_accession | GSM705876
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705876/suppl/GSM705876.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705877 | GPL96 |
|
SJTALL041
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 8_T-ALL
day 19: neg
day 46: neg
|
T-lineage ALL
|
| Sample_geo_accession | GSM705877
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705877/suppl/GSM705877.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705879 | GPL96 |
|
SJTALL075
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 8_T-ALL
day 19: pos
day 46: neg
|
T-lineage ALL
|
| Sample_geo_accession | GSM705879
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705879/suppl/GSM705879.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705881 | GPL96 |
|
SJTALL036
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 8_T-ALL
day 19: neg
day 46: neg
|
T-lineage ALL
|
| Sample_geo_accession | GSM705881
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705881/suppl/GSM705881.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705882 | GPL96 |
|
SJTALL077
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 8_T-ALL
day 19: neg
day 46: neg
|
T-lineage ALL
|
| Sample_geo_accession | GSM705882
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705882/suppl/GSM705882.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705883 | GPL96 |
|
SJTALL078
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 8_T-ALL
day 19: neg
day 46: neg
|
T-lineage ALL
|
| Sample_geo_accession | GSM705883
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705883/suppl/GSM705883.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705884 | GPL96 |
|
SJTALL079
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 8_T-ALL
day 19: pos
day 46: neg
|
T-lineage ALL
|
| Sample_geo_accession | GSM705884
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705884/suppl/GSM705884.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705885 | GPL96 |
|
SJTALL037
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 8_T-ALL
day 19: pos
day 46: neg
|
T-lineage ALL
|
| Sample_geo_accession | GSM705885
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705885/suppl/GSM705885.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705886 | GPL96 |
|
SJTALL038
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 8_T-ALL
day 19: pos
day 46: pos
|
T-lineage ALL
|
| Sample_geo_accession | GSM705886
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705886/suppl/GSM705886.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705887 | GPL96 |
|
SJTALL080
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 8_T-ALL
day 19: neg
day 46: neg
|
T-lineage ALL
|
| Sample_geo_accession | GSM705887
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705887/suppl/GSM705887.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705888 | GPL96 |
|
SJTALL023
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 8_T-ALL
day 19: pos
day 46: neg
|
T-lineage ALL
|
| Sample_geo_accession | GSM705888
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705888/suppl/GSM705888.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705891 | GPL96 |
|
SJTALL161
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 8_T-ALL
day 19: pos
day 46: pos
|
T-lineage ALL
|
| Sample_geo_accession | GSM705891
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705891/suppl/GSM705891.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705893 | GPL96 |
|
SJTALL049
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 8_T-ALL
day 19: pos
day 46: pos
|
T-lineage ALL
|
| Sample_geo_accession | GSM705893
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705893/suppl/GSM705893.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705896 | GPL96 |
|
SJTALL058
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 8_T-ALL
day 19: pos
day 46: pos
|
T-lineage ALL
|
| Sample_geo_accession | GSM705896
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705896/suppl/GSM705896.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705897 | GPL96 |
|
SJTALL213
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 8_T-ALL
day 19: pos
day 46: pos
|
T-lineage ALL
|
| Sample_geo_accession | GSM705897
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705897/suppl/GSM705897.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705898 | GPL96 |
|
SJTALL015
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 8_T-ALL
day 19: NA
day 46: neg
|
T-lineage ALL
|
| Sample_geo_accession | GSM705898
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705898/suppl/GSM705898.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705899 | GPL96 |
|
SJTALL016
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 8_T-ALL
day 19: neg
day 46: neg
|
T-lineage ALL
|
| Sample_geo_accession | GSM705899
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705899/suppl/GSM705899.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705900 | GPL96 |
|
SJTALL017
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 8_T-ALL
day 19: neg
day 46: neg
|
T-lineage ALL
|
| Sample_geo_accession | GSM705900
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705900/suppl/GSM705900.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705901 | GPL96 |
|
SJTALL018
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 8_T-ALL
day 19: pos
day 46: neg
|
T-lineage ALL
|
| Sample_geo_accession | GSM705901
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705901/suppl/GSM705901.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705902 | GPL96 |
|
SJTALL019
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 8_T-ALL
day 19: pos
day 46: pos
|
T-lineage ALL
|
| Sample_geo_accession | GSM705902
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705902/suppl/GSM705902.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705903 | GPL96 |
|
SJTALL020
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 8_T-ALL
day 19: neg
day 46: neg
|
T-lineage ALL
|
| Sample_geo_accession | GSM705903
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705903/suppl/GSM705903.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705904 | GPL96 |
|
SJTALL021
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 8_T-ALL
day 19: pos
day 46: pos
|
T-lineage ALL
|
| Sample_geo_accession | GSM705904
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705904/suppl/GSM705904.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705905 | GPL96 |
|
SJTALL214
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 8_T-ALL
day 19: pos
day 46: pos
|
T-lineage ALL
|
| Sample_geo_accession | GSM705905
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705905/suppl/GSM705905.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705906 | GPL96 |
|
SJTALL022
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 8_T-ALL
day 19: pos
day 46: neg
|
T-lineage ALL
|
| Sample_geo_accession | GSM705906
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705906/suppl/GSM705906.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705931 | GPL96 |
|
SJTALL082
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 8_T-ALL
day 19: pos
day 46: neg
|
T-lineage ALL
|
| Sample_geo_accession | GSM705931
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705931/suppl/GSM705931.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705933 | GPL96 |
|
SJTALL084
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 8_T-ALL
day 19: pos
day 46: neg
|
T-lineage ALL
|
| Sample_geo_accession | GSM705933
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705933/suppl/GSM705933.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705934 | GPL96 |
|
SJTALL042
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 8_T-ALL
day 19: pos
day 46: neg
|
T-lineage ALL
|
| Sample_geo_accession | GSM705934
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705934/suppl/GSM705934.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705937 | GPL96 |
|
SJETV117
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 3_ETV6_RUNX1
day 19: NA
day 46: NA
|
ETV6-RUNX1 B-precursor ALL
|
| Sample_geo_accession | GSM705937
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705937/suppl/GSM705937.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705938 | GPL96 |
|
SJETV118
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 3_ETV6_RUNX1
day 19: NA
day 46: neg
|
ETV6-RUNX1 B-precursor ALL
|
| Sample_geo_accession | GSM705938
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705938/suppl/GSM705938.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705939 | GPL96 |
|
SJETV122
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 3_ETV6_RUNX1
day 19: NA
day 46: NA
|
ETV6-RUNX1 B-precursor ALL
|
| Sample_geo_accession | GSM705939
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705939/suppl/GSM705939.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705940 | GPL96 |
|
SJETV123
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 3_ETV6_RUNX1
day 19: NA
day 46: neg
|
ETV6-RUNX1 B-precursor ALL
|
| Sample_geo_accession | GSM705940
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705940/suppl/GSM705940.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705941 | GPL96 |
|
SJETV116
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 3_ETV6_RUNX1
day 19: neg
day 46: neg
|
ETV6-RUNX1 B-precursor ALL
|
| Sample_geo_accession | GSM705941
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705941/suppl/GSM705941.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705942 | GPL96 |
|
SJETV119
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 3_ETV6_RUNX1
day 19: NA
day 46: NA
|
ETV6-RUNX1 B-precursor ALL
|
| Sample_geo_accession | GSM705942
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705942/suppl/GSM705942.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705943 | GPL96 |
|
SJETV115
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 3_ETV6_RUNX1
day 19: NA
day 46: pos
|
ETV6-RUNX1 B-precursor ALL
|
| Sample_geo_accession | GSM705943
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705943/suppl/GSM705943.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705944 | GPL96 |
|
SJETV120
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 3_ETV6_RUNX1
day 19: NA
day 46: NA
|
ETV6-RUNX1 B-precursor ALL
|
| Sample_geo_accession | GSM705944
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705944/suppl/GSM705944.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705945 | GPL96 |
|
SJETV121
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 3_ETV6_RUNX1
day 19: NA
day 46: NA
|
ETV6-RUNX1 B-precursor ALL
|
| Sample_geo_accession | GSM705945
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705945/suppl/GSM705945.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705946 | GPL96 |
|
SJETV108
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 3_ETV6_RUNX1
day 19: pos
day 46: neg
|
ETV6-RUNX1 B-precursor ALL
|
| Sample_geo_accession | GSM705946
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705946/suppl/GSM705946.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705947 | GPL96 |
|
SJETV106
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 3_ETV6_RUNX1
day 19: pos
day 46: neg
|
ETV6-RUNX1 B-precursor ALL
|
| Sample_geo_accession | GSM705947
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705947/suppl/GSM705947.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705948 | GPL96 |
|
SJETV001
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 3_ETV6_RUNX1
day 19: neg
day 46: neg
|
ETV6-RUNX1 B-precursor ALL
|
| Sample_geo_accession | GSM705948
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705948/suppl/GSM705948.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705949 | GPL96 |
|
SJETV002
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 3_ETV6_RUNX1
day 19: neg
day 46: neg
|
ETV6-RUNX1 B-precursor ALL
|
| Sample_geo_accession | GSM705949
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705949/suppl/GSM705949.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705950 | GPL96 |
|
SJETV003
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 3_ETV6_RUNX1
day 19: pos
day 46: neg
|
ETV6-RUNX1 B-precursor ALL
|
| Sample_geo_accession | GSM705950
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705950/suppl/GSM705950.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705951 | GPL96 |
|
SJETV004
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 3_ETV6_RUNX1
day 19: neg
day 46: neg
|
ETV6-RUNX1 B-precursor ALL
|
| Sample_geo_accession | GSM705951
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705951/suppl/GSM705951.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705952 | GPL96 |
|
SJETV005
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 3_ETV6_RUNX1
day 19: pos
day 46: neg
|
ETV6-RUNX1 B-precursor ALL
|
| Sample_geo_accession | GSM705952
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705952/suppl/GSM705952.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705953 | GPL96 |
|
SJETV006
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 3_ETV6_RUNX1
day 19: pos
day 46: neg
|
ETV6-RUNX1 B-precursor ALL
|
| Sample_geo_accession | GSM705953
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705953/suppl/GSM705953.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705954 | GPL96 |
|
SJETV007
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 3_ETV6_RUNX1
day 19: pos
day 46: neg
|
ETV6-RUNX1 B-precursor ALL
|
| Sample_geo_accession | GSM705954
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705954/suppl/GSM705954.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705955 | GPL96 |
|
SJETV008
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 3_ETV6_RUNX1
day 19: neg
day 46: neg
|
ETV6-RUNX1 B-precursor ALL
|
| Sample_geo_accession | GSM705955
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705955/suppl/GSM705955.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705956 | GPL96 |
|
SJETV009
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 3_ETV6_RUNX1
day 19: pos
day 46: neg
|
ETV6-RUNX1 B-precursor ALL
|
| Sample_geo_accession | GSM705956
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705956/suppl/GSM705956.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705957 | GPL96 |
|
SJETV010
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 3_ETV6_RUNX1
day 19: pos
day 46: neg
|
ETV6-RUNX1 B-precursor ALL
|
| Sample_geo_accession | GSM705957
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705957/suppl/GSM705957.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705961 | GPL96 |
|
SJETV101
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 3_ETV6_RUNX1
day 19: pos
day 46: neg
|
ETV6-RUNX1 B-precursor ALL
|
| Sample_geo_accession | GSM705961
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705961/suppl/GSM705961.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705964 | GPL96 |
|
SJETV104
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 3_ETV6_RUNX1
day 19: pos
day 46: pos
|
ETV6-RUNX1 B-precursor ALL
|
| Sample_geo_accession | GSM705964
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705964/suppl/GSM705964.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705965 | GPL96 |
|
SJETV105
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 3_ETV6_RUNX1
day 19: neg
day 46: neg
|
ETV6-RUNX1 B-precursor ALL
|
| Sample_geo_accession | GSM705965
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705965/suppl/GSM705965.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705966 | GPL96 |
|
SJETV011
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 3_ETV6_RUNX1
day 19: neg
day 46: neg
|
ETV6-RUNX1 B-precursor ALL
|
| Sample_geo_accession | GSM705966
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705966/suppl/GSM705966.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705967 | GPL96 |
|
SJETV107
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 3_ETV6_RUNX1
day 19: pos
day 46: neg
|
ETV6-RUNX1 B-precursor ALL
|
| Sample_geo_accession | GSM705967
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705967/suppl/GSM705967.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705968 | GPL96 |
|
SJETV109
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 3_ETV6_RUNX1
day 19: neg
day 46: neg
|
ETV6-RUNX1 B-precursor ALL
|
| Sample_geo_accession | GSM705968
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705968/suppl/GSM705968.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705973 | GPL96 |
|
SJETV012
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 3_ETV6_RUNX1
day 19: pos
day 46: pos
|
ETV6-RUNX1 B-precursor ALL
|
| Sample_geo_accession | GSM705973
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705973/suppl/GSM705973.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705974 | GPL96 |
|
SJETV013
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 3_ETV6_RUNX1
day 19: neg
day 46: neg
|
ETV6-RUNX1 B-precursor ALL
|
| Sample_geo_accession | GSM705974
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705974/suppl/GSM705974.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705975 | GPL96 |
|
SJETV014
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 3_ETV6_RUNX1
day 19: neg
day 46: neg
|
ETV6-RUNX1 B-precursor ALL
|
| Sample_geo_accession | GSM705975
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705975/suppl/GSM705975.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705976 | GPL96 |
|
SJETV015
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 3_ETV6_RUNX1
day 19: pos
day 46: neg
|
ETV6-RUNX1 B-precursor ALL
|
| Sample_geo_accession | GSM705976
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705976/suppl/GSM705976.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705977 | GPL96 |
|
SJETV016
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 3_ETV6_RUNX1
day 19: pos
day 46: pos
|
ETV6-RUNX1 B-precursor ALL
|
| Sample_geo_accession | GSM705977
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705977/suppl/GSM705977.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705978 | GPL96 |
|
SJETV017
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 3_ETV6_RUNX1
day 19: pos
day 46: neg
|
ETV6-RUNX1 B-precursor ALL
|
| Sample_geo_accession | GSM705978
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705978/suppl/GSM705978.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705979 | GPL96 |
|
SJETV018
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 3_ETV6_RUNX1
day 19: neg
day 46: neg
|
ETV6-RUNX1 B-precursor ALL
|
| Sample_geo_accession | GSM705979
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705979/suppl/GSM705979.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705980 | GPL96 |
|
SJETV019
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 3_ETV6_RUNX1
day 19: pos
day 46: neg
|
ETV6-RUNX1 B-precursor ALL
|
| Sample_geo_accession | GSM705980
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705980/suppl/GSM705980.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705981 | GPL96 |
|
SJHYPO114
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 3_ETV6_RUNX1
day 19: neg
day 46: neg
|
ETV6-RUNX1 B-precursor ALL
|
| Sample_geo_accession | GSM705981
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705981/suppl/GSM705981.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705982 | GPL96 |
|
SJETV020
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 3_ETV6_RUNX1
day 19: pos
day 46: neg
|
ETV6-RUNX1 B-precursor ALL
|
| Sample_geo_accession | GSM705982
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705982/suppl/GSM705982.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705986 | GPL96 |
|
SJETV024
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 3_ETV6_RUNX1
day 19: neg
day 46: neg
|
ETV6-RUNX1 B-precursor ALL
|
| Sample_geo_accession | GSM705986
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705986/suppl/GSM705986.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705987 | GPL96 |
|
SJETV025
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 3_ETV6_RUNX1
day 19: pos
day 46: pos
|
ETV6-RUNX1 B-precursor ALL
|
| Sample_geo_accession | GSM705987
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705987/suppl/GSM705987.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705990 | GPL96 |
|
SJETV030
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 3_ETV6_RUNX1
day 19: neg
day 46: neg
|
ETV6-RUNX1 B-precursor ALL
|
| Sample_geo_accession | GSM705990
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705990/suppl/GSM705990.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705991 | GPL96 |
|
SJETV031
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 3_ETV6_RUNX1
day 19: NA
day 46: NA
|
ETV6-RUNX1 B-precursor ALL
|
| Sample_geo_accession | GSM705991
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705991/suppl/GSM705991.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705992 | GPL96 |
|
SJETV032
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 3_ETV6_RUNX1
day 19: neg
day 46: neg
|
ETV6-RUNX1 B-precursor ALL
|
| Sample_geo_accession | GSM705992
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705992/suppl/GSM705992.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705993 | GPL96 |
|
SJETV033
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 3_ETV6_RUNX1
day 19: pos
day 46: pos
|
ETV6-RUNX1 B-precursor ALL
|
| Sample_geo_accession | GSM705993
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705993/suppl/GSM705993.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705994 | GPL96 |
|
SJETV035
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 3_ETV6_RUNX1
day 19: neg
day 46: neg
|
ETV6-RUNX1 B-precursor ALL
|
| Sample_geo_accession | GSM705994
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705994/suppl/GSM705994.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705995 | GPL96 |
|
SJETV036
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 3_ETV6_RUNX1
day 19: pos
day 46: neg
|
ETV6-RUNX1 B-precursor ALL
|
| Sample_geo_accession | GSM705995
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705995/suppl/GSM705995.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705996 | GPL96 |
|
SJETV043
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 3_ETV6_RUNX1
day 19: NA
day 46: NA
|
ETV6-RUNX1 B-precursor ALL
|
| Sample_geo_accession | GSM705996
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705996/suppl/GSM705996.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705997 | GPL96 |
|
SJETV050
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 3_ETV6_RUNX1
day 19: neg
day 46: neg
|
ETV6-RUNX1 B-precursor ALL
|
| Sample_geo_accession | GSM705997
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705997/suppl/GSM705997.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705998 | GPL96 |
|
SJETV051
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 3_ETV6_RUNX1
day 19: neg
day 46: neg
|
ETV6-RUNX1 B-precursor ALL
|
| Sample_geo_accession | GSM705998
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705998/suppl/GSM705998.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM705999 | GPL96 |
|
SJETV053
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 3_ETV6_RUNX1
day 19: neg
day 46: neg
|
ETV6-RUNX1 B-precursor ALL
|
| Sample_geo_accession | GSM705999
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM705nnn/GSM705999/suppl/GSM705999.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM706000 | GPL96 |
|
SJETV054
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 3_ETV6_RUNX1
day 19: pos
day 46: pos
|
ETV6-RUNX1 B-precursor ALL
|
| Sample_geo_accession | GSM706000
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM706nnn/GSM706000/suppl/GSM706000.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM706001 | GPL96 |
|
SJETV055
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 3_ETV6_RUNX1
day 19: neg
day 46: neg
|
ETV6-RUNX1 B-precursor ALL
|
| Sample_geo_accession | GSM706001
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM706nnn/GSM706001/suppl/GSM706001.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM706002 | GPL96 |
|
SJETV057
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 3_ETV6_RUNX1
day 19: pos
day 46: neg
|
ETV6-RUNX1 B-precursor ALL
|
| Sample_geo_accession | GSM706002
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM706nnn/GSM706002/suppl/GSM706002.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM706003 | GPL96 |
|
SJETV059
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 3_ETV6_RUNX1
day 19: neg
day 46: neg
|
ETV6-RUNX1 B-precursor ALL
|
| Sample_geo_accession | GSM706003
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM706nnn/GSM706003/suppl/GSM706003.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM706004 | GPL96 |
|
SJETV063
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 3_ETV6_RUNX1
day 19: neg
day 46: neg
|
ETV6-RUNX1 B-precursor ALL
|
| Sample_geo_accession | GSM706004
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM706nnn/GSM706004/suppl/GSM706004.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM706005 | GPL96 |
|
SJETV064
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 3_ETV6_RUNX1
day 19: neg
day 46: neg
|
ETV6-RUNX1 B-precursor ALL
|
| Sample_geo_accession | GSM706005
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM706nnn/GSM706005/suppl/GSM706005.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM706007 | GPL96 |
|
SJETV066
|
Leukemic cells obtained from bone marrow or blood at diagnosis
|
cell type: tumor cells obtained at diagnosis
subtype: 3_ETV6_RUNX1
day 19: neg
day 46: neg
|
ETV6-RUNX1 B-precursor ALL
|
| Sample_geo_accession | GSM706007
| | Sample_status | Public on Apr 20 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM706nnn/GSM706007/suppl/GSM706007.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM706036 | GPL96 |
|
CD10CD19_1
|
Adult normal bone marrow
|
cell type: sorted CD10(+) CD19(+) cells
subtype: 9_CD10CD19
|
Adult normal bone marrow; CD19 (+) CD10(+)
|
| Sample_geo_accession | GSM706036
| | Sample_status | Public on Oct 28 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM706nnn/GSM706036/suppl/GSM706036.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM706037 | GPL96 |
|
CD10CD19_2
|
Adult normal bone marrow
|
cell type: sorted CD10(+) CD19(+) cells
subtype: 9_CD10CD19
|
Adult normal bone marrow; CD19 (+) CD10(+)
|
| Sample_geo_accession | GSM706037
| | Sample_status | Public on Oct 28 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM706nnn/GSM706037/suppl/GSM706037.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM706038 | GPL96 |
|
CD10CD19_3
|
Adult normal bone marrow
|
cell type: sorted CD10(+) CD19(+) cells
subtype: 9_CD10CD19
|
Adult normal bone marrow; CD19 (+) CD10(+)
|
| Sample_geo_accession | GSM706038
| | Sample_status | Public on Oct 28 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM706nnn/GSM706038/suppl/GSM706038.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
GSM706039 | GPL96 |
|
CD10CD19_4
|
Adult normal bone marrow
|
cell type: sorted CD10(+) CD19(+) cells
subtype: 9_CD10CD19
|
Adult normal bone marrow; CD19 (+) CD10(+)
|
| Sample_geo_accession | GSM706039
| | Sample_status | Public on Oct 28 2011
| | Sample_submission_date | Apr 08 2011
| | Sample_last_update_date | Nov 08 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | No growth protocol. Cells were obtained from bone marrow or blood from children with acute lymphoblastic leukemia
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix One-Cycle protocol from 1 ug of total RNA
| | Sample_hyb_protocol | Following fragmentation, 15 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL96
| | Sample_contact_name | Charles,G,Mullighan
| | Sample_contact_email | charles.mullighan@stjude.org
| | Sample_contact_phone | 901-595-3387
| | Sample_contact_fax | 901-595-5947
| | Sample_contact_laboratory | Mullighan
| | Sample_contact_department | Pathology
| | Sample_contact_institute | St. Jude Children's Research Hospital
| | Sample_contact_address | 262 Danny Thomas Place, MS 342
| | Sample_contact_city | Memphis
| | Sample_contact_state | TN
| | Sample_contact_zip/postal_code | 38105-3678
| | Sample_contact_country | USA
| | Sample_contact_web_link | http://www.stjude.org/mullighan
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM706nnn/GSM706039/suppl/GSM706039.CEL.gz
| | Sample_series_id | GSE28497
| | Sample_series_id | GSE33315
| | Sample_data_row_count | 22283
| | |
|
| |
| |
Make groups for comparisons |
(2 groups will be compared at a time) |
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