Search results for the GEO ID: GSE34880  |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM856956 | GPL570 |
|
Reh cells
|
ALL
|
cell line: Reh
|
none
|
| Sample_geo_accession | GSM856956
| | Sample_status | Public on Jun 12 2012
| | Sample_submission_date | Jan 05 2012
| | Sample_last_update_date | Jun 12 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Leukemic bone marrow samples were used for RNA extraction without further treatment.
| | Sample_growth_protocol_ch1 | Ficoll-enriched, cryopreserved diagnostic bone marrow samples were obtained from patients with newly diagnosed B-precursor acute lymphoblastic leukemia.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using the Allprep DNA/RNA minikit (Qiagen, Valencia, CA) and quality was verified by Agilent 2100 Bioanalyzer (Agilent, Palo Alto, CA).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Total RNA (50 ng) was used as template in a single-amplification protocol (RiboAmp OA, Mountain View, CA) according to manufacturer's instructions.
| | Sample_hyb_protocol | Biotinylated cRNA (20ng) was fragmented,10 ug of cRNA were hybridized for 16hr at 45C on GeneChip Human Genome U133 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was set to 150.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Teena,,Bhatla
| | Sample_contact_email | teena.bhatla@nyumc.org
| | Sample_contact_phone | 212-263-2327
| | Sample_contact_fax | 212-263-2328
| | Sample_contact_laboratory | Carroll lab
| | Sample_contact_institute | NYU medical center
| | Sample_contact_address | 550 first avenue
| | Sample_contact_city | NY
| | Sample_contact_state | NY
| | Sample_contact_zip/postal_code | 10016
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM856nnn/GSM856956/suppl/GSM856956_Teena_1_081110.CEL.gz
| | Sample_series_id | GSE34880
| | Sample_data_row_count | 54674
| | |
|
GSM856957 | GPL570 |
|
Reh cells 0.5 uM vorinostat
|
ALL
|
cell line: Reh
treatment: 0.5 uM vorinostat
|
none
|
| Sample_geo_accession | GSM856957
| | Sample_status | Public on Jun 12 2012
| | Sample_submission_date | Jan 05 2012
| | Sample_last_update_date | Jun 12 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Leukemic bone marrow samples were used for RNA extraction without further treatment.
| | Sample_growth_protocol_ch1 | Ficoll-enriched, cryopreserved diagnostic bone marrow samples were obtained from patients with newly diagnosed B-precursor acute lymphoblastic leukemia.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using the Allprep DNA/RNA minikit (Qiagen, Valencia, CA) and quality was verified by Agilent 2100 Bioanalyzer (Agilent, Palo Alto, CA).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Total RNA (50 ng) was used as template in a single-amplification protocol (RiboAmp OA, Mountain View, CA) according to manufacturer's instructions.
| | Sample_hyb_protocol | Biotinylated cRNA (20ng) was fragmented,10 ug of cRNA were hybridized for 16hr at 45C on GeneChip Human Genome U133 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was set to 150.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Teena,,Bhatla
| | Sample_contact_email | teena.bhatla@nyumc.org
| | Sample_contact_phone | 212-263-2327
| | Sample_contact_fax | 212-263-2328
| | Sample_contact_laboratory | Carroll lab
| | Sample_contact_institute | NYU medical center
| | Sample_contact_address | 550 first avenue
| | Sample_contact_city | NY
| | Sample_contact_state | NY
| | Sample_contact_zip/postal_code | 10016
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM856nnn/GSM856957/suppl/GSM856957_Teena_2_081110.CEL.gz
| | Sample_series_id | GSE34880
| | Sample_data_row_count | 54674
| | |
|
GSM856958 | GPL570 |
|
Reh cells 1 uM vorinostat
|
ALL
|
cell line: Reh
treatment: 1 uM vorinostat
|
none
|
| Sample_geo_accession | GSM856958
| | Sample_status | Public on Jun 12 2012
| | Sample_submission_date | Jan 05 2012
| | Sample_last_update_date | Jun 12 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Leukemic bone marrow samples were used for RNA extraction without further treatment.
| | Sample_growth_protocol_ch1 | Ficoll-enriched, cryopreserved diagnostic bone marrow samples were obtained from patients with newly diagnosed B-precursor acute lymphoblastic leukemia.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using the Allprep DNA/RNA minikit (Qiagen, Valencia, CA) and quality was verified by Agilent 2100 Bioanalyzer (Agilent, Palo Alto, CA).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Total RNA (50 ng) was used as template in a single-amplification protocol (RiboAmp OA, Mountain View, CA) according to manufacturer's instructions.
| | Sample_hyb_protocol | Biotinylated cRNA (20ng) was fragmented,10 ug of cRNA were hybridized for 16hr at 45C on GeneChip Human Genome U133 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was set to 150.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Teena,,Bhatla
| | Sample_contact_email | teena.bhatla@nyumc.org
| | Sample_contact_phone | 212-263-2327
| | Sample_contact_fax | 212-263-2328
| | Sample_contact_laboratory | Carroll lab
| | Sample_contact_institute | NYU medical center
| | Sample_contact_address | 550 first avenue
| | Sample_contact_city | NY
| | Sample_contact_state | NY
| | Sample_contact_zip/postal_code | 10016
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM856nnn/GSM856958/suppl/GSM856958_Teena_3_081110.CEL.gz
| | Sample_series_id | GSE34880
| | Sample_data_row_count | 54674
| | |
|
GSM856959 | GPL570 |
|
Reh cells 2.5 uM vorinostat
|
ALL
|
cell line: Reh
treatment: 2.5 uM vorinostat
|
none
|
| Sample_geo_accession | GSM856959
| | Sample_status | Public on Jun 12 2012
| | Sample_submission_date | Jan 05 2012
| | Sample_last_update_date | Jun 12 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Leukemic bone marrow samples were used for RNA extraction without further treatment.
| | Sample_growth_protocol_ch1 | Ficoll-enriched, cryopreserved diagnostic bone marrow samples were obtained from patients with newly diagnosed B-precursor acute lymphoblastic leukemia.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using the Allprep DNA/RNA minikit (Qiagen, Valencia, CA) and quality was verified by Agilent 2100 Bioanalyzer (Agilent, Palo Alto, CA).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Total RNA (50 ng) was used as template in a single-amplification protocol (RiboAmp OA, Mountain View, CA) according to manufacturer's instructions.
| | Sample_hyb_protocol | Biotinylated cRNA (20ng) was fragmented,10 ug of cRNA were hybridized for 16hr at 45C on GeneChip Human Genome U133 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was set to 150.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Teena,,Bhatla
| | Sample_contact_email | teena.bhatla@nyumc.org
| | Sample_contact_phone | 212-263-2327
| | Sample_contact_fax | 212-263-2328
| | Sample_contact_laboratory | Carroll lab
| | Sample_contact_institute | NYU medical center
| | Sample_contact_address | 550 first avenue
| | Sample_contact_city | NY
| | Sample_contact_state | NY
| | Sample_contact_zip/postal_code | 10016
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM856nnn/GSM856959/suppl/GSM856959_Teena_4_081110.CEL.gz
| | Sample_series_id | GSE34880
| | Sample_data_row_count | 54674
| | |
|
GSM856960 | GPL570 |
|
RS4
|
ALL
|
cell line: RS4
|
none
|
| Sample_geo_accession | GSM856960
| | Sample_status | Public on Jun 12 2012
| | Sample_submission_date | Jan 05 2012
| | Sample_last_update_date | Jun 12 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Leukemic bone marrow samples were used for RNA extraction without further treatment.
| | Sample_growth_protocol_ch1 | Ficoll-enriched, cryopreserved diagnostic bone marrow samples were obtained from patients with newly diagnosed B-precursor acute lymphoblastic leukemia.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using the Allprep DNA/RNA minikit (Qiagen, Valencia, CA) and quality was verified by Agilent 2100 Bioanalyzer (Agilent, Palo Alto, CA).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Total RNA (50 ng) was used as template in a single-amplification protocol (RiboAmp OA, Mountain View, CA) according to manufacturer's instructions.
| | Sample_hyb_protocol | Biotinylated cRNA (20ng) was fragmented,10 ug of cRNA were hybridized for 16hr at 45C on GeneChip Human Genome U133 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was set to 150.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Teena,,Bhatla
| | Sample_contact_email | teena.bhatla@nyumc.org
| | Sample_contact_phone | 212-263-2327
| | Sample_contact_fax | 212-263-2328
| | Sample_contact_laboratory | Carroll lab
| | Sample_contact_institute | NYU medical center
| | Sample_contact_address | 550 first avenue
| | Sample_contact_city | NY
| | Sample_contact_state | NY
| | Sample_contact_zip/postal_code | 10016
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM856nnn/GSM856960/suppl/GSM856960_Teena_1_111010.CEL.gz
| | Sample_series_id | GSE34880
| | Sample_data_row_count | 54674
| | |
|
GSM856961 | GPL570 |
|
RS4 1 uM vorinostat
|
ALL
|
cell line: RS4
treatment: 1 uM vorinostat
|
none
|
| Sample_geo_accession | GSM856961
| | Sample_status | Public on Jun 12 2012
| | Sample_submission_date | Jan 05 2012
| | Sample_last_update_date | Jun 12 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Leukemic bone marrow samples were used for RNA extraction without further treatment.
| | Sample_growth_protocol_ch1 | Ficoll-enriched, cryopreserved diagnostic bone marrow samples were obtained from patients with newly diagnosed B-precursor acute lymphoblastic leukemia.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using the Allprep DNA/RNA minikit (Qiagen, Valencia, CA) and quality was verified by Agilent 2100 Bioanalyzer (Agilent, Palo Alto, CA).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Total RNA (50 ng) was used as template in a single-amplification protocol (RiboAmp OA, Mountain View, CA) according to manufacturer's instructions.
| | Sample_hyb_protocol | Biotinylated cRNA (20ng) was fragmented,10 ug of cRNA were hybridized for 16hr at 45C on GeneChip Human Genome U133 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was set to 150.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Teena,,Bhatla
| | Sample_contact_email | teena.bhatla@nyumc.org
| | Sample_contact_phone | 212-263-2327
| | Sample_contact_fax | 212-263-2328
| | Sample_contact_laboratory | Carroll lab
| | Sample_contact_institute | NYU medical center
| | Sample_contact_address | 550 first avenue
| | Sample_contact_city | NY
| | Sample_contact_state | NY
| | Sample_contact_zip/postal_code | 10016
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM856nnn/GSM856961/suppl/GSM856961_Teena_2_111010.CEL.gz
| | Sample_series_id | GSE34880
| | Sample_data_row_count | 54674
| | |
|
GSM856962 | GPL570 |
|
MV4
|
ALL
|
cell line: MV4
|
none
|
| Sample_geo_accession | GSM856962
| | Sample_status | Public on Jun 12 2012
| | Sample_submission_date | Jan 05 2012
| | Sample_last_update_date | Jun 12 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Leukemic bone marrow samples were used for RNA extraction without further treatment.
| | Sample_growth_protocol_ch1 | Ficoll-enriched, cryopreserved diagnostic bone marrow samples were obtained from patients with newly diagnosed B-precursor acute lymphoblastic leukemia.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using the Allprep DNA/RNA minikit (Qiagen, Valencia, CA) and quality was verified by Agilent 2100 Bioanalyzer (Agilent, Palo Alto, CA).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Total RNA (50 ng) was used as template in a single-amplification protocol (RiboAmp OA, Mountain View, CA) according to manufacturer's instructions.
| | Sample_hyb_protocol | Biotinylated cRNA (20ng) was fragmented,10 ug of cRNA were hybridized for 16hr at 45C on GeneChip Human Genome U133 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was set to 150.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Teena,,Bhatla
| | Sample_contact_email | teena.bhatla@nyumc.org
| | Sample_contact_phone | 212-263-2327
| | Sample_contact_fax | 212-263-2328
| | Sample_contact_laboratory | Carroll lab
| | Sample_contact_institute | NYU medical center
| | Sample_contact_address | 550 first avenue
| | Sample_contact_city | NY
| | Sample_contact_state | NY
| | Sample_contact_zip/postal_code | 10016
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM856nnn/GSM856962/suppl/GSM856962_Teena_1_113010.CEL.gz
| | Sample_series_id | GSE34880
| | Sample_data_row_count | 54674
| | |
|
GSM856963 | GPL570 |
|
MV4 1 uM vorinostat
|
ALL
|
cell line: MV4
treatment: 1 uM vorinostat
|
none
|
| Sample_geo_accession | GSM856963
| | Sample_status | Public on Jun 12 2012
| | Sample_submission_date | Jan 05 2012
| | Sample_last_update_date | Jun 12 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Leukemic bone marrow samples were used for RNA extraction without further treatment.
| | Sample_growth_protocol_ch1 | Ficoll-enriched, cryopreserved diagnostic bone marrow samples were obtained from patients with newly diagnosed B-precursor acute lymphoblastic leukemia.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using the Allprep DNA/RNA minikit (Qiagen, Valencia, CA) and quality was verified by Agilent 2100 Bioanalyzer (Agilent, Palo Alto, CA).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Total RNA (50 ng) was used as template in a single-amplification protocol (RiboAmp OA, Mountain View, CA) according to manufacturer's instructions.
| | Sample_hyb_protocol | Biotinylated cRNA (20ng) was fragmented,10 ug of cRNA were hybridized for 16hr at 45C on GeneChip Human Genome U133 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was set to 150.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Teena,,Bhatla
| | Sample_contact_email | teena.bhatla@nyumc.org
| | Sample_contact_phone | 212-263-2327
| | Sample_contact_fax | 212-263-2328
| | Sample_contact_laboratory | Carroll lab
| | Sample_contact_institute | NYU medical center
| | Sample_contact_address | 550 first avenue
| | Sample_contact_city | NY
| | Sample_contact_state | NY
| | Sample_contact_zip/postal_code | 10016
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM856nnn/GSM856963/suppl/GSM856963_Teena_2_113010.CEL.gz
| | Sample_series_id | GSE34880
| | Sample_data_row_count | 54674
| | |
|
GSM856964 | GPL570 |
|
ALL patient 1
|
ALL
|
disease state: B-precursor acute lymphoblastic leukemia
tissue: bone marrow
|
none
|
| Sample_geo_accession | GSM856964
| | Sample_status | Public on Jun 12 2012
| | Sample_submission_date | Jan 05 2012
| | Sample_last_update_date | Jun 12 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Leukemic bone marrow samples were used for RNA extraction without further treatment.
| | Sample_growth_protocol_ch1 | Ficoll-enriched, cryopreserved diagnostic bone marrow samples were obtained from patients with newly diagnosed B-precursor acute lymphoblastic leukemia.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using the Allprep DNA/RNA minikit (Qiagen, Valencia, CA) and quality was verified by Agilent 2100 Bioanalyzer (Agilent, Palo Alto, CA).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Total RNA (50 ng) was used as template in a single-amplification protocol (RiboAmp OA, Mountain View, CA) according to manufacturer's instructions.
| | Sample_hyb_protocol | Biotinylated cRNA (20ng) was fragmented,10 ug of cRNA were hybridized for 16hr at 45C on GeneChip Human Genome U133 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was set to 150.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Teena,,Bhatla
| | Sample_contact_email | teena.bhatla@nyumc.org
| | Sample_contact_phone | 212-263-2327
| | Sample_contact_fax | 212-263-2328
| | Sample_contact_laboratory | Carroll lab
| | Sample_contact_institute | NYU medical center
| | Sample_contact_address | 550 first avenue
| | Sample_contact_city | NY
| | Sample_contact_state | NY
| | Sample_contact_zip/postal_code | 10016
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM856nnn/GSM856964/suppl/GSM856964_Teena_1_091411.CEL.gz
| | Sample_series_id | GSE34880
| | Sample_data_row_count | 54674
| | |
|
GSM856965 | GPL570 |
|
ALL patient 2 1 uM vorinostat
|
ALL
|
disease state: B-precursor acute lymphoblastic leukemia
tissue: bone marrow
treatment: 1 uM vorinostat
|
none
|
| Sample_geo_accession | GSM856965
| | Sample_status | Public on Jun 12 2012
| | Sample_submission_date | Jan 05 2012
| | Sample_last_update_date | Jun 12 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Leukemic bone marrow samples were used for RNA extraction without further treatment.
| | Sample_growth_protocol_ch1 | Ficoll-enriched, cryopreserved diagnostic bone marrow samples were obtained from patients with newly diagnosed B-precursor acute lymphoblastic leukemia.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using the Allprep DNA/RNA minikit (Qiagen, Valencia, CA) and quality was verified by Agilent 2100 Bioanalyzer (Agilent, Palo Alto, CA).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Total RNA (50 ng) was used as template in a single-amplification protocol (RiboAmp OA, Mountain View, CA) according to manufacturer's instructions.
| | Sample_hyb_protocol | Biotinylated cRNA (20ng) was fragmented,10 ug of cRNA were hybridized for 16hr at 45C on GeneChip Human Genome U133 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was set to 150.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Teena,,Bhatla
| | Sample_contact_email | teena.bhatla@nyumc.org
| | Sample_contact_phone | 212-263-2327
| | Sample_contact_fax | 212-263-2328
| | Sample_contact_laboratory | Carroll lab
| | Sample_contact_institute | NYU medical center
| | Sample_contact_address | 550 first avenue
| | Sample_contact_city | NY
| | Sample_contact_state | NY
| | Sample_contact_zip/postal_code | 10016
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM856nnn/GSM856965/suppl/GSM856965_Teena_2_091411.CEL.gz
| | Sample_series_id | GSE34880
| | Sample_data_row_count | 54674
| | |
|
GSM856966 | GPL570 |
|
ALL patient 3
|
ALL
|
disease state: B-precursor acute lymphoblastic leukemia
tissue: bone marrow
|
none
|
| Sample_geo_accession | GSM856966
| | Sample_status | Public on Jun 12 2012
| | Sample_submission_date | Jan 05 2012
| | Sample_last_update_date | Jun 12 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Leukemic bone marrow samples were used for RNA extraction without further treatment.
| | Sample_growth_protocol_ch1 | Ficoll-enriched, cryopreserved diagnostic bone marrow samples were obtained from patients with newly diagnosed B-precursor acute lymphoblastic leukemia.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using the Allprep DNA/RNA minikit (Qiagen, Valencia, CA) and quality was verified by Agilent 2100 Bioanalyzer (Agilent, Palo Alto, CA).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Total RNA (50 ng) was used as template in a single-amplification protocol (RiboAmp OA, Mountain View, CA) according to manufacturer's instructions.
| | Sample_hyb_protocol | Biotinylated cRNA (20ng) was fragmented,10 ug of cRNA were hybridized for 16hr at 45C on GeneChip Human Genome U133 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was set to 150.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Teena,,Bhatla
| | Sample_contact_email | teena.bhatla@nyumc.org
| | Sample_contact_phone | 212-263-2327
| | Sample_contact_fax | 212-263-2328
| | Sample_contact_laboratory | Carroll lab
| | Sample_contact_institute | NYU medical center
| | Sample_contact_address | 550 first avenue
| | Sample_contact_city | NY
| | Sample_contact_state | NY
| | Sample_contact_zip/postal_code | 10016
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM856nnn/GSM856966/suppl/GSM856966_Teena_3_091411.CEL.gz
| | Sample_series_id | GSE34880
| | Sample_data_row_count | 54674
| | |
|
GSM856967 | GPL570 |
|
ALL patient 4 1 uM vorinostat
|
ALL
|
disease state: B-precursor acute lymphoblastic leukemia
tissue: bone marrow
treatment: 1 uM vorinostat
|
none
|
| Sample_geo_accession | GSM856967
| | Sample_status | Public on Jun 12 2012
| | Sample_submission_date | Jan 05 2012
| | Sample_last_update_date | Jun 12 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Leukemic bone marrow samples were used for RNA extraction without further treatment.
| | Sample_growth_protocol_ch1 | Ficoll-enriched, cryopreserved diagnostic bone marrow samples were obtained from patients with newly diagnosed B-precursor acute lymphoblastic leukemia.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using the Allprep DNA/RNA minikit (Qiagen, Valencia, CA) and quality was verified by Agilent 2100 Bioanalyzer (Agilent, Palo Alto, CA).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Total RNA (50 ng) was used as template in a single-amplification protocol (RiboAmp OA, Mountain View, CA) according to manufacturer's instructions.
| | Sample_hyb_protocol | Biotinylated cRNA (20ng) was fragmented,10 ug of cRNA were hybridized for 16hr at 45C on GeneChip Human Genome U133 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was set to 150.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Teena,,Bhatla
| | Sample_contact_email | teena.bhatla@nyumc.org
| | Sample_contact_phone | 212-263-2327
| | Sample_contact_fax | 212-263-2328
| | Sample_contact_laboratory | Carroll lab
| | Sample_contact_institute | NYU medical center
| | Sample_contact_address | 550 first avenue
| | Sample_contact_city | NY
| | Sample_contact_state | NY
| | Sample_contact_zip/postal_code | 10016
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM856nnn/GSM856967/suppl/GSM856967_Teena_4_091411.CEL.gz
| | Sample_series_id | GSE34880
| | Sample_data_row_count | 54674
| | |
|
GSM856968 | GPL570 |
|
ALL patient 5
|
ALL
|
disease state: B-precursor acute lymphoblastic leukemia
tissue: bone marrow
|
none
|
| Sample_geo_accession | GSM856968
| | Sample_status | Public on Jun 12 2012
| | Sample_submission_date | Jan 05 2012
| | Sample_last_update_date | Jun 12 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Leukemic bone marrow samples were used for RNA extraction without further treatment.
| | Sample_growth_protocol_ch1 | Ficoll-enriched, cryopreserved diagnostic bone marrow samples were obtained from patients with newly diagnosed B-precursor acute lymphoblastic leukemia.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using the Allprep DNA/RNA minikit (Qiagen, Valencia, CA) and quality was verified by Agilent 2100 Bioanalyzer (Agilent, Palo Alto, CA).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Total RNA (50 ng) was used as template in a single-amplification protocol (RiboAmp OA, Mountain View, CA) according to manufacturer's instructions.
| | Sample_hyb_protocol | Biotinylated cRNA (20ng) was fragmented,10 ug of cRNA were hybridized for 16hr at 45C on GeneChip Human Genome U133 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was set to 150.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Teena,,Bhatla
| | Sample_contact_email | teena.bhatla@nyumc.org
| | Sample_contact_phone | 212-263-2327
| | Sample_contact_fax | 212-263-2328
| | Sample_contact_laboratory | Carroll lab
| | Sample_contact_institute | NYU medical center
| | Sample_contact_address | 550 first avenue
| | Sample_contact_city | NY
| | Sample_contact_state | NY
| | Sample_contact_zip/postal_code | 10016
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM856nnn/GSM856968/suppl/GSM856968_Teena_5_091411.CEL.gz
| | Sample_series_id | GSE34880
| | Sample_data_row_count | 54674
| | |
|
GSM856969 | GPL570 |
|
ALL patient 6 1 uM vorinostat
|
ALL
|
disease state: B-precursor acute lymphoblastic leukemia
tissue: bone marrow
treatment: 1 uM vorinostat
|
none
|
| Sample_geo_accession | GSM856969
| | Sample_status | Public on Jun 12 2012
| | Sample_submission_date | Jan 05 2012
| | Sample_last_update_date | Jun 12 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Leukemic bone marrow samples were used for RNA extraction without further treatment.
| | Sample_growth_protocol_ch1 | Ficoll-enriched, cryopreserved diagnostic bone marrow samples were obtained from patients with newly diagnosed B-precursor acute lymphoblastic leukemia.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using the Allprep DNA/RNA minikit (Qiagen, Valencia, CA) and quality was verified by Agilent 2100 Bioanalyzer (Agilent, Palo Alto, CA).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Total RNA (50 ng) was used as template in a single-amplification protocol (RiboAmp OA, Mountain View, CA) according to manufacturer's instructions.
| | Sample_hyb_protocol | Biotinylated cRNA (20ng) was fragmented,10 ug of cRNA were hybridized for 16hr at 45C on GeneChip Human Genome U133 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was set to 150.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Teena,,Bhatla
| | Sample_contact_email | teena.bhatla@nyumc.org
| | Sample_contact_phone | 212-263-2327
| | Sample_contact_fax | 212-263-2328
| | Sample_contact_laboratory | Carroll lab
| | Sample_contact_institute | NYU medical center
| | Sample_contact_address | 550 first avenue
| | Sample_contact_city | NY
| | Sample_contact_state | NY
| | Sample_contact_zip/postal_code | 10016
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM856nnn/GSM856969/suppl/GSM856969_Teena_6_091411.CEL.gz
| | Sample_series_id | GSE34880
| | Sample_data_row_count | 54674
| | |
|
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Make groups for comparisons |
(2 groups will be compared at a time) |
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| Select GSMs and click on "Add groups" |
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