Search results for the GEO ID: GSE28687  |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM710498 | GPL1261 |
|
T-ALL Cell Line F1002 (E1)
|
Hematopoietic tissue cell line
|
strain: Balb/c
cell type: T-ALL
cell line: F1002
input kras mutations: KrasG12D,E37G
|
Acquired Kras T50I Mutation
|
| Sample_geo_accession | GSM710498
| | Sample_status | Public on Oct 01 2011
| | Sample_submission_date | Apr 18 2011
| | Sample_last_update_date | Oct 01 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_growth_protocol_ch1 | Cell lines were created from the spleens of diseased animals by culturing cells in lymphocyte media (DMEM H-21, 20% FBS, 10mM HEPES, 1x NEAA, 1x NaPyruvate, 1x glutamate, 1x penn/strep, 50uM BME, 10ng/ml IL-2 and 10ng/ml IL-7). RNA was extracted from these cell lines.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix 3’IVT Express protocol starting with 100 ng of total RNA (GeneChip 3’ IVT Express Kit 702646 Rev. 8, 2008-2010, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 12.5 microgram of cRNA was hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the AffymetrixGeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Ashley,Flynn,Ward
| | Sample_contact_email | warda@peds.ucsf.edu
| | Sample_contact_institute | UCSF
| | Sample_contact_address | 505 Parnassus Ave, M649
| | Sample_contact_city | San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94143-0106
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM710nnn/GSM710498/suppl/GSM710498.CEL.gz
| | Sample_series_id | GSE28687
| | Sample_data_row_count | 45101
| | |
|
GSM710499 | GPL1261 |
|
T-ALL Cell Line T1000 (E2)
|
Hematopoietic tissue cell line
|
strain: Balb/c
cell type: T-ALL
cell line: T1000
input kras mutations: KrasG12D,E37G
|
|
| Sample_geo_accession | GSM710499
| | Sample_status | Public on Oct 01 2011
| | Sample_submission_date | Apr 18 2011
| | Sample_last_update_date | Oct 01 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_growth_protocol_ch1 | Cell lines were created from the spleens of diseased animals by culturing cells in lymphocyte media (DMEM H-21, 20% FBS, 10mM HEPES, 1x NEAA, 1x NaPyruvate, 1x glutamate, 1x penn/strep, 50uM BME, 10ng/ml IL-2 and 10ng/ml IL-7). RNA was extracted from these cell lines.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix 3’IVT Express protocol starting with 100 ng of total RNA (GeneChip 3’ IVT Express Kit 702646 Rev. 8, 2008-2010, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 12.5 microgram of cRNA was hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the AffymetrixGeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Ashley,Flynn,Ward
| | Sample_contact_email | warda@peds.ucsf.edu
| | Sample_contact_institute | UCSF
| | Sample_contact_address | 505 Parnassus Ave, M649
| | Sample_contact_city | San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94143-0106
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM710nnn/GSM710499/suppl/GSM710499.CEL.gz
| | Sample_series_id | GSE28687
| | Sample_data_row_count | 45101
| | |
|
GSM710500 | GPL1261 |
|
T-ALL Cell Line T2002 (E3)
|
Hematopoietic tissue cell line
|
strain: Balb/c
cell type: T-ALL
cell line: T2002
input kras mutations: KrasG12D,E37G
|
Acquired Kras T50I Mutation
|
| Sample_geo_accession | GSM710500
| | Sample_status | Public on Oct 01 2011
| | Sample_submission_date | Apr 18 2011
| | Sample_last_update_date | Oct 01 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_growth_protocol_ch1 | Cell lines were created from the spleens of diseased animals by culturing cells in lymphocyte media (DMEM H-21, 20% FBS, 10mM HEPES, 1x NEAA, 1x NaPyruvate, 1x glutamate, 1x penn/strep, 50uM BME, 10ng/ml IL-2 and 10ng/ml IL-7). RNA was extracted from these cell lines.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix 3’IVT Express protocol starting with 100 ng of total RNA (GeneChip 3’ IVT Express Kit 702646 Rev. 8, 2008-2010, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 12.5 microgram of cRNA was hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the AffymetrixGeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Ashley,Flynn,Ward
| | Sample_contact_email | warda@peds.ucsf.edu
| | Sample_contact_institute | UCSF
| | Sample_contact_address | 505 Parnassus Ave, M649
| | Sample_contact_city | San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94143-0106
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM710nnn/GSM710500/suppl/GSM710500.CEL.gz
| | Sample_series_id | GSE28687
| | Sample_data_row_count | 45101
| | |
|
GSM710501 | GPL1261 |
|
T-ALL Cell Line T4203 (E4)
|
Hematopoietic tissue cell line
|
strain: Balb/c
cell type: T-ALL
cell line: T4203
input kras mutations: KrasG12D,E37G
|
Acquired PTEN loss Mutation
|
| Sample_geo_accession | GSM710501
| | Sample_status | Public on Oct 01 2011
| | Sample_submission_date | Apr 18 2011
| | Sample_last_update_date | Oct 01 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_growth_protocol_ch1 | Cell lines were created from the spleens of diseased animals by culturing cells in lymphocyte media (DMEM H-21, 20% FBS, 10mM HEPES, 1x NEAA, 1x NaPyruvate, 1x glutamate, 1x penn/strep, 50uM BME, 10ng/ml IL-2 and 10ng/ml IL-7). RNA was extracted from these cell lines.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix 3’IVT Express protocol starting with 100 ng of total RNA (GeneChip 3’ IVT Express Kit 702646 Rev. 8, 2008-2010, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 12.5 microgram of cRNA was hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the AffymetrixGeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Ashley,Flynn,Ward
| | Sample_contact_email | warda@peds.ucsf.edu
| | Sample_contact_institute | UCSF
| | Sample_contact_address | 505 Parnassus Ave, M649
| | Sample_contact_city | San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94143-0106
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM710nnn/GSM710501/suppl/GSM710501.CEL.gz
| | Sample_series_id | GSE28687
| | Sample_data_row_count | 45101
| | |
|
GSM710502 | GPL1261 |
|
T-ALL Cell Line F1006 (Y1)
|
Hematopoietic tissue cell line
|
strain: Balb/c
cell type: T-ALL
cell line: F1006
input kras mutations: KrasG12D,Y64G
|
|
| Sample_geo_accession | GSM710502
| | Sample_status | Public on Oct 01 2011
| | Sample_submission_date | Apr 18 2011
| | Sample_last_update_date | Oct 01 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_growth_protocol_ch1 | Cell lines were created from the spleens of diseased animals by culturing cells in lymphocyte media (DMEM H-21, 20% FBS, 10mM HEPES, 1x NEAA, 1x NaPyruvate, 1x glutamate, 1x penn/strep, 50uM BME, 10ng/ml IL-2 and 10ng/ml IL-7). RNA was extracted from these cell lines.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix 3’IVT Express protocol starting with 100 ng of total RNA (GeneChip 3’ IVT Express Kit 702646 Rev. 8, 2008-2010, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 12.5 microgram of cRNA was hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the AffymetrixGeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Ashley,Flynn,Ward
| | Sample_contact_email | warda@peds.ucsf.edu
| | Sample_contact_institute | UCSF
| | Sample_contact_address | 505 Parnassus Ave, M649
| | Sample_contact_city | San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94143-0106
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM710nnn/GSM710502/suppl/GSM710502.CEL.gz
| | Sample_series_id | GSE28687
| | Sample_data_row_count | 45101
| | |
|
GSM710503 | GPL1261 |
|
T-ALL Cell Line F1007 (Y2)
|
Hematopoietic tissue cell line
|
strain: Balb/c
cell type: T-ALL
cell line: F1007
input kras mutations: KrasG12D,Y64G
|
|
| Sample_geo_accession | GSM710503
| | Sample_status | Public on Oct 01 2011
| | Sample_submission_date | Apr 18 2011
| | Sample_last_update_date | Oct 01 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_growth_protocol_ch1 | Cell lines were created from the spleens of diseased animals by culturing cells in lymphocyte media (DMEM H-21, 20% FBS, 10mM HEPES, 1x NEAA, 1x NaPyruvate, 1x glutamate, 1x penn/strep, 50uM BME, 10ng/ml IL-2 and 10ng/ml IL-7). RNA was extracted from these cell lines.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix 3’IVT Express protocol starting with 100 ng of total RNA (GeneChip 3’ IVT Express Kit 702646 Rev. 8, 2008-2010, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 12.5 microgram of cRNA was hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the AffymetrixGeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Ashley,Flynn,Ward
| | Sample_contact_email | warda@peds.ucsf.edu
| | Sample_contact_institute | UCSF
| | Sample_contact_address | 505 Parnassus Ave, M649
| | Sample_contact_city | San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94143-0106
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM710nnn/GSM710503/suppl/GSM710503.CEL.gz
| | Sample_series_id | GSE28687
| | Sample_data_row_count | 45101
| | |
|
GSM710504 | GPL1261 |
|
T-ALL Cell Line T2006 (Y3)
|
Hematopoietic tissue cell line
|
strain: Balb/c
cell type: T-ALL
cell line: T2006
input kras mutations: KrasG12D,Y64G
|
|
| Sample_geo_accession | GSM710504
| | Sample_status | Public on Oct 01 2011
| | Sample_submission_date | Apr 18 2011
| | Sample_last_update_date | Oct 01 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_growth_protocol_ch1 | Cell lines were created from the spleens of diseased animals by culturing cells in lymphocyte media (DMEM H-21, 20% FBS, 10mM HEPES, 1x NEAA, 1x NaPyruvate, 1x glutamate, 1x penn/strep, 50uM BME, 10ng/ml IL-2 and 10ng/ml IL-7). RNA was extracted from these cell lines.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix 3’IVT Express protocol starting with 100 ng of total RNA (GeneChip 3’ IVT Express Kit 702646 Rev. 8, 2008-2010, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 12.5 microgram of cRNA was hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the AffymetrixGeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Ashley,Flynn,Ward
| | Sample_contact_email | warda@peds.ucsf.edu
| | Sample_contact_institute | UCSF
| | Sample_contact_address | 505 Parnassus Ave, M649
| | Sample_contact_city | San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94143-0106
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM710nnn/GSM710504/suppl/GSM710504.CEL.gz
| | Sample_series_id | GSE28687
| | Sample_data_row_count | 45101
| | |
|
GSM710505 | GPL1261 |
|
T-ALL Cell Line T3006 (Y4)
|
Hematopoietic tissue cell line
|
strain: Balb/c
cell type: T-ALL
cell line: T3006
input kras mutations: KrasG12D,Y64G
|
Acquired Kras 69RN70 Mutation
|
| Sample_geo_accession | GSM710505
| | Sample_status | Public on Oct 01 2011
| | Sample_submission_date | Apr 18 2011
| | Sample_last_update_date | Oct 01 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_growth_protocol_ch1 | Cell lines were created from the spleens of diseased animals by culturing cells in lymphocyte media (DMEM H-21, 20% FBS, 10mM HEPES, 1x NEAA, 1x NaPyruvate, 1x glutamate, 1x penn/strep, 50uM BME, 10ng/ml IL-2 and 10ng/ml IL-7). RNA was extracted from these cell lines.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix 3’IVT Express protocol starting with 100 ng of total RNA (GeneChip 3’ IVT Express Kit 702646 Rev. 8, 2008-2010, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 12.5 microgram of cRNA was hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the AffymetrixGeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Ashley,Flynn,Ward
| | Sample_contact_email | warda@peds.ucsf.edu
| | Sample_contact_institute | UCSF
| | Sample_contact_address | 505 Parnassus Ave, M649
| | Sample_contact_city | San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94143-0106
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM710nnn/GSM710505/suppl/GSM710505.CEL.gz
| | Sample_series_id | GSE28687
| | Sample_data_row_count | 45101
| | |
|
GSM710506 | GPL1261 |
|
T-ALL Cell Line T3104 (Y5)
|
Hematopoietic tissue cell line
|
strain: Balb/c
cell type: T-ALL
cell line: T3104
input kras mutations: KrasG12D,Y64G
|
|
| Sample_geo_accession | GSM710506
| | Sample_status | Public on Oct 01 2011
| | Sample_submission_date | Apr 18 2011
| | Sample_last_update_date | Oct 01 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_growth_protocol_ch1 | Cell lines were created from the spleens of diseased animals by culturing cells in lymphocyte media (DMEM H-21, 20% FBS, 10mM HEPES, 1x NEAA, 1x NaPyruvate, 1x glutamate, 1x penn/strep, 50uM BME, 10ng/ml IL-2 and 10ng/ml IL-7). RNA was extracted from these cell lines.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix 3’IVT Express protocol starting with 100 ng of total RNA (GeneChip 3’ IVT Express Kit 702646 Rev. 8, 2008-2010, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 12.5 microgram of cRNA was hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the AffymetrixGeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Ashley,Flynn,Ward
| | Sample_contact_email | warda@peds.ucsf.edu
| | Sample_contact_institute | UCSF
| | Sample_contact_address | 505 Parnassus Ave, M649
| | Sample_contact_city | San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94143-0106
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM710nnn/GSM710506/suppl/GSM710506.CEL.gz
| | Sample_series_id | GSE28687
| | Sample_data_row_count | 45101
| | |
|
GSM710507 | GPL1261 |
|
T-ALL Cell Line T4100 (Y6)
|
Hematopoietic tissue cell line
|
strain: Balb/c
cell type: T-ALL
cell line: T4100
input kras mutations: KrasG12D,Y64G
|
|
| Sample_geo_accession | GSM710507
| | Sample_status | Public on Oct 01 2011
| | Sample_submission_date | Apr 18 2011
| | Sample_last_update_date | Oct 01 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_growth_protocol_ch1 | Cell lines were created from the spleens of diseased animals by culturing cells in lymphocyte media (DMEM H-21, 20% FBS, 10mM HEPES, 1x NEAA, 1x NaPyruvate, 1x glutamate, 1x penn/strep, 50uM BME, 10ng/ml IL-2 and 10ng/ml IL-7). RNA was extracted from these cell lines.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Trizol
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix 3’IVT Express protocol starting with 100 ng of total RNA (GeneChip 3’ IVT Express Kit 702646 Rev. 8, 2008-2010, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 12.5 microgram of cRNA was hybridized for 16 hr at 45C on GeneChip Human Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the AffymetrixGeneChip Scanner 3000 7G.
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Ashley,Flynn,Ward
| | Sample_contact_email | warda@peds.ucsf.edu
| | Sample_contact_institute | UCSF
| | Sample_contact_address | 505 Parnassus Ave, M649
| | Sample_contact_city | San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94143-0106
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM710nnn/GSM710507/suppl/GSM710507.CEL.gz
| | Sample_series_id | GSE28687
| | Sample_data_row_count | 45101
| | |
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