Search results for the GEO ID: GSE17785  |
(Click on the check boxes provided under "Select for analysis", to initiate grouping) |
(Once the selection is made, click on "Add groups" in "Make groups for comparison", to make a group. Scroll down) |
|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM443978 | GPL570 |
|
WT.DMSO.1
|
WT.DMSO.1
|
genotype: WT
agent: DMSO
|
no additional information
|
| Sample_geo_accession | GSM443978
| | Sample_status | Public on Aug 10 2011
| | Sample_submission_date | Aug 24 2009
| | Sample_last_update_date | Aug 10 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA obtained using TrizolLS method.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin labeled cRNA using an IVT kit
| | Sample_hyb_protocol | Affymterix protocol for hyb and wash on Fludics 450
| | Sample_scan_protocol | Affymetrix protocol for GeneChip scanner 3000
| | Sample_data_processing | Data were processed using a program that implemented the recommendations of Choe, et al., Genome Biology, 2005 (PMID: 15693945). Background correction was performed as in the Affymetrix MAS 5.0 application. Probe-level normalization was performed using Quantile Normalization as in the RMA method. Perfect Match and Mismatch probes were contrasted as in the Affymetrix MAS 5.0 application. Multiple probes for each probeset were summarized using the median polish method from the RMA method. These summarized metrics where then normalized using LOESS.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Peter,,Haverty
| | Sample_contact_email | phaverty@gene.com
| | Sample_contact_department | Bioinformatics
| | Sample_contact_institute | Genentech, Inc.
| | Sample_contact_address | 1 DNA Way
| | Sample_contact_city | South San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94080
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM443nnn/GSM443978/suppl/GSM443978.CEL.gz
| | Sample_series_id | GSE17785
| | Sample_data_row_count | 54675
| | |
|
GSM443979 | GPL570 |
|
WT.DMSO.2
|
WT.DMSO.2
|
genotype: WT
agent: DMSO
|
no additional information
|
| Sample_geo_accession | GSM443979
| | Sample_status | Public on Aug 10 2011
| | Sample_submission_date | Aug 24 2009
| | Sample_last_update_date | Aug 10 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA obtained using TrizolLS method.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin labeled cRNA using an IVT kit
| | Sample_hyb_protocol | Affymterix protocol for hyb and wash on Fludics 450
| | Sample_scan_protocol | Affymetrix protocol for GeneChip scanner 3000
| | Sample_data_processing | Data were processed using a program that implemented the recommendations of Choe, et al., Genome Biology, 2005 (PMID: 15693945). Background correction was performed as in the Affymetrix MAS 5.0 application. Probe-level normalization was performed using Quantile Normalization as in the RMA method. Perfect Match and Mismatch probes were contrasted as in the Affymetrix MAS 5.0 application. Multiple probes for each probeset were summarized using the median polish method from the RMA method. These summarized metrics where then normalized using LOESS.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Peter,,Haverty
| | Sample_contact_email | phaverty@gene.com
| | Sample_contact_department | Bioinformatics
| | Sample_contact_institute | Genentech, Inc.
| | Sample_contact_address | 1 DNA Way
| | Sample_contact_city | South San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94080
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM443nnn/GSM443979/suppl/GSM443979.CEL.gz
| | Sample_series_id | GSE17785
| | Sample_data_row_count | 54675
| | |
|
GSM443980 | GPL570 |
|
WT.DMSO.3
|
WT.DMSO.3
|
genotype: WT
agent: DMSO
|
no additional information
|
| Sample_geo_accession | GSM443980
| | Sample_status | Public on Aug 10 2011
| | Sample_submission_date | Aug 24 2009
| | Sample_last_update_date | Aug 10 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA obtained using TrizolLS method.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin labeled cRNA using an IVT kit
| | Sample_hyb_protocol | Affymterix protocol for hyb and wash on Fludics 450
| | Sample_scan_protocol | Affymetrix protocol for GeneChip scanner 3000
| | Sample_data_processing | Data were processed using a program that implemented the recommendations of Choe, et al., Genome Biology, 2005 (PMID: 15693945). Background correction was performed as in the Affymetrix MAS 5.0 application. Probe-level normalization was performed using Quantile Normalization as in the RMA method. Perfect Match and Mismatch probes were contrasted as in the Affymetrix MAS 5.0 application. Multiple probes for each probeset were summarized using the median polish method from the RMA method. These summarized metrics where then normalized using LOESS.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Peter,,Haverty
| | Sample_contact_email | phaverty@gene.com
| | Sample_contact_department | Bioinformatics
| | Sample_contact_institute | Genentech, Inc.
| | Sample_contact_address | 1 DNA Way
| | Sample_contact_city | South San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94080
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM443nnn/GSM443980/suppl/GSM443980.CEL.gz
| | Sample_series_id | GSE17785
| | Sample_data_row_count | 54675
| | |
|
GSM443981 | GPL570 |
|
WT.GDC0941.1
|
WT.GDC0941.1
|
genotype: WT
agent: GDC-0941 (PI3K inhibitor)
|
no additional information
|
| Sample_geo_accession | GSM443981
| | Sample_status | Public on Aug 10 2011
| | Sample_submission_date | Aug 24 2009
| | Sample_last_update_date | Aug 10 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA obtained using TrizolLS method.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin labeled cRNA using an IVT kit
| | Sample_hyb_protocol | Affymterix protocol for hyb and wash on Fludics 450
| | Sample_scan_protocol | Affymetrix protocol for GeneChip scanner 3000
| | Sample_data_processing | Data were processed using a program that implemented the recommendations of Choe, et al., Genome Biology, 2005 (PMID: 15693945). Background correction was performed as in the Affymetrix MAS 5.0 application. Probe-level normalization was performed using Quantile Normalization as in the RMA method. Perfect Match and Mismatch probes were contrasted as in the Affymetrix MAS 5.0 application. Multiple probes for each probeset were summarized using the median polish method from the RMA method. These summarized metrics where then normalized using LOESS.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Peter,,Haverty
| | Sample_contact_email | phaverty@gene.com
| | Sample_contact_department | Bioinformatics
| | Sample_contact_institute | Genentech, Inc.
| | Sample_contact_address | 1 DNA Way
| | Sample_contact_city | South San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94080
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM443nnn/GSM443981/suppl/GSM443981.CEL.gz
| | Sample_series_id | GSE17785
| | Sample_data_row_count | 54675
| | |
|
GSM443982 | GPL570 |
|
WT.GDC0941.2
|
WT.GDC0941.2
|
genotype: WT
agent: GDC-0941 (PI3K inhibitor)
|
no additional information
|
| Sample_geo_accession | GSM443982
| | Sample_status | Public on Aug 10 2011
| | Sample_submission_date | Aug 24 2009
| | Sample_last_update_date | Aug 10 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA obtained using TrizolLS method.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin labeled cRNA using an IVT kit
| | Sample_hyb_protocol | Affymterix protocol for hyb and wash on Fludics 450
| | Sample_scan_protocol | Affymetrix protocol for GeneChip scanner 3000
| | Sample_data_processing | Data were processed using a program that implemented the recommendations of Choe, et al., Genome Biology, 2005 (PMID: 15693945). Background correction was performed as in the Affymetrix MAS 5.0 application. Probe-level normalization was performed using Quantile Normalization as in the RMA method. Perfect Match and Mismatch probes were contrasted as in the Affymetrix MAS 5.0 application. Multiple probes for each probeset were summarized using the median polish method from the RMA method. These summarized metrics where then normalized using LOESS.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Peter,,Haverty
| | Sample_contact_email | phaverty@gene.com
| | Sample_contact_department | Bioinformatics
| | Sample_contact_institute | Genentech, Inc.
| | Sample_contact_address | 1 DNA Way
| | Sample_contact_city | South San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94080
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM443nnn/GSM443982/suppl/GSM443982.CEL.gz
| | Sample_series_id | GSE17785
| | Sample_data_row_count | 54675
| | |
|
GSM443983 | GPL570 |
|
WT.GDC0941.3
|
WT.GDC0941.3
|
genotype: WT
agent: GDC-0941 (PI3K inhibitor)
|
no additional information
|
| Sample_geo_accession | GSM443983
| | Sample_status | Public on Aug 10 2011
| | Sample_submission_date | Aug 24 2009
| | Sample_last_update_date | Aug 10 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA obtained using TrizolLS method.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin labeled cRNA using an IVT kit
| | Sample_hyb_protocol | Affymterix protocol for hyb and wash on Fludics 450
| | Sample_scan_protocol | Affymetrix protocol for GeneChip scanner 3000
| | Sample_data_processing | Data were processed using a program that implemented the recommendations of Choe, et al., Genome Biology, 2005 (PMID: 15693945). Background correction was performed as in the Affymetrix MAS 5.0 application. Probe-level normalization was performed using Quantile Normalization as in the RMA method. Perfect Match and Mismatch probes were contrasted as in the Affymetrix MAS 5.0 application. Multiple probes for each probeset were summarized using the median polish method from the RMA method. These summarized metrics where then normalized using LOESS.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Peter,,Haverty
| | Sample_contact_email | phaverty@gene.com
| | Sample_contact_department | Bioinformatics
| | Sample_contact_institute | Genentech, Inc.
| | Sample_contact_address | 1 DNA Way
| | Sample_contact_city | South San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94080
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM443nnn/GSM443983/suppl/GSM443983.CEL.gz
| | Sample_series_id | GSE17785
| | Sample_data_row_count | 54675
| | |
|
GSM443984 | GPL570 |
|
PIK3CA.DMSO.1
|
PIK3CA.DMSO.1
|
genotype: PIK3CA.H1047R
agent: DMSO
|
no additional information
|
| Sample_geo_accession | GSM443984
| | Sample_status | Public on Aug 10 2011
| | Sample_submission_date | Aug 24 2009
| | Sample_last_update_date | Aug 10 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA obtained using TrizolLS method.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin labeled cRNA using an IVT kit
| | Sample_hyb_protocol | Affymterix protocol for hyb and wash on Fludics 450
| | Sample_scan_protocol | Affymetrix protocol for GeneChip scanner 3000
| | Sample_data_processing | Data were processed using a program that implemented the recommendations of Choe, et al., Genome Biology, 2005 (PMID: 15693945). Background correction was performed as in the Affymetrix MAS 5.0 application. Probe-level normalization was performed using Quantile Normalization as in the RMA method. Perfect Match and Mismatch probes were contrasted as in the Affymetrix MAS 5.0 application. Multiple probes for each probeset were summarized using the median polish method from the RMA method. These summarized metrics where then normalized using LOESS.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Peter,,Haverty
| | Sample_contact_email | phaverty@gene.com
| | Sample_contact_department | Bioinformatics
| | Sample_contact_institute | Genentech, Inc.
| | Sample_contact_address | 1 DNA Way
| | Sample_contact_city | South San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94080
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM443nnn/GSM443984/suppl/GSM443984.CEL.gz
| | Sample_series_id | GSE17785
| | Sample_data_row_count | 54675
| | |
|
GSM443985 | GPL570 |
|
PIK3CA.DMSO.2
|
PIK3CA.DMSO.2
|
genotype: PIK3CA.H1047R
agent: DMSO
|
no additional information
|
| Sample_geo_accession | GSM443985
| | Sample_status | Public on Aug 10 2011
| | Sample_submission_date | Aug 24 2009
| | Sample_last_update_date | Aug 10 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA obtained using TrizolLS method.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin labeled cRNA using an IVT kit
| | Sample_hyb_protocol | Affymterix protocol for hyb and wash on Fludics 450
| | Sample_scan_protocol | Affymetrix protocol for GeneChip scanner 3000
| | Sample_data_processing | Data were processed using a program that implemented the recommendations of Choe, et al., Genome Biology, 2005 (PMID: 15693945). Background correction was performed as in the Affymetrix MAS 5.0 application. Probe-level normalization was performed using Quantile Normalization as in the RMA method. Perfect Match and Mismatch probes were contrasted as in the Affymetrix MAS 5.0 application. Multiple probes for each probeset were summarized using the median polish method from the RMA method. These summarized metrics where then normalized using LOESS.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Peter,,Haverty
| | Sample_contact_email | phaverty@gene.com
| | Sample_contact_department | Bioinformatics
| | Sample_contact_institute | Genentech, Inc.
| | Sample_contact_address | 1 DNA Way
| | Sample_contact_city | South San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94080
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM443nnn/GSM443985/suppl/GSM443985.CEL.gz
| | Sample_series_id | GSE17785
| | Sample_data_row_count | 54675
| | |
|
GSM443986 | GPL570 |
|
PIK3CA.DMSO.3
|
PIK3CA.DMSO.3
|
genotype: PIK3CA.H1047R
agent: DMSO
|
no additional information
|
| Sample_geo_accession | GSM443986
| | Sample_status | Public on Aug 10 2011
| | Sample_submission_date | Aug 24 2009
| | Sample_last_update_date | Aug 10 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA obtained using TrizolLS method.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin labeled cRNA using an IVT kit
| | Sample_hyb_protocol | Affymterix protocol for hyb and wash on Fludics 450
| | Sample_scan_protocol | Affymetrix protocol for GeneChip scanner 3000
| | Sample_data_processing | Data were processed using a program that implemented the recommendations of Choe, et al., Genome Biology, 2005 (PMID: 15693945). Background correction was performed as in the Affymetrix MAS 5.0 application. Probe-level normalization was performed using Quantile Normalization as in the RMA method. Perfect Match and Mismatch probes were contrasted as in the Affymetrix MAS 5.0 application. Multiple probes for each probeset were summarized using the median polish method from the RMA method. These summarized metrics where then normalized using LOESS.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Peter,,Haverty
| | Sample_contact_email | phaverty@gene.com
| | Sample_contact_department | Bioinformatics
| | Sample_contact_institute | Genentech, Inc.
| | Sample_contact_address | 1 DNA Way
| | Sample_contact_city | South San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94080
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM443nnn/GSM443986/suppl/GSM443986.CEL.gz
| | Sample_series_id | GSE17785
| | Sample_data_row_count | 54675
| | |
|
GSM443987 | GPL570 |
|
PIK3CA.GDC0941.1
|
PIK3CA.GDC0941.1
|
genotype: PIK3CA.H1047R
agent: GDC-0941 (PI3K inhibitor)
|
no additional information
|
| Sample_geo_accession | GSM443987
| | Sample_status | Public on Aug 10 2011
| | Sample_submission_date | Aug 24 2009
| | Sample_last_update_date | Aug 10 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA obtained using TrizolLS method.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin labeled cRNA using an IVT kit
| | Sample_hyb_protocol | Affymterix protocol for hyb and wash on Fludics 450
| | Sample_scan_protocol | Affymetrix protocol for GeneChip scanner 3000
| | Sample_data_processing | Data were processed using a program that implemented the recommendations of Choe, et al., Genome Biology, 2005 (PMID: 15693945). Background correction was performed as in the Affymetrix MAS 5.0 application. Probe-level normalization was performed using Quantile Normalization as in the RMA method. Perfect Match and Mismatch probes were contrasted as in the Affymetrix MAS 5.0 application. Multiple probes for each probeset were summarized using the median polish method from the RMA method. These summarized metrics where then normalized using LOESS.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Peter,,Haverty
| | Sample_contact_email | phaverty@gene.com
| | Sample_contact_department | Bioinformatics
| | Sample_contact_institute | Genentech, Inc.
| | Sample_contact_address | 1 DNA Way
| | Sample_contact_city | South San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94080
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM443nnn/GSM443987/suppl/GSM443987.CEL.gz
| | Sample_series_id | GSE17785
| | Sample_data_row_count | 54675
| | |
|
GSM443988 | GPL570 |
|
PIK3CA.GDC0941.2
|
PIK3CA.GDC0941.2
|
genotype: PIK3CA.H1047R
agent: GDC-0941 (PI3K inhibitor)
|
no additional information
|
| Sample_geo_accession | GSM443988
| | Sample_status | Public on Aug 10 2011
| | Sample_submission_date | Aug 24 2009
| | Sample_last_update_date | Aug 10 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA obtained using TrizolLS method.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin labeled cRNA using an IVT kit
| | Sample_hyb_protocol | Affymterix protocol for hyb and wash on Fludics 450
| | Sample_scan_protocol | Affymetrix protocol for GeneChip scanner 3000
| | Sample_data_processing | Data were processed using a program that implemented the recommendations of Choe, et al., Genome Biology, 2005 (PMID: 15693945). Background correction was performed as in the Affymetrix MAS 5.0 application. Probe-level normalization was performed using Quantile Normalization as in the RMA method. Perfect Match and Mismatch probes were contrasted as in the Affymetrix MAS 5.0 application. Multiple probes for each probeset were summarized using the median polish method from the RMA method. These summarized metrics where then normalized using LOESS.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Peter,,Haverty
| | Sample_contact_email | phaverty@gene.com
| | Sample_contact_department | Bioinformatics
| | Sample_contact_institute | Genentech, Inc.
| | Sample_contact_address | 1 DNA Way
| | Sample_contact_city | South San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94080
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM443nnn/GSM443988/suppl/GSM443988.CEL.gz
| | Sample_series_id | GSE17785
| | Sample_data_row_count | 54675
| | |
|
GSM443989 | GPL570 |
|
PIK3CA.GDC0941.3
|
PIK3CA.GDC0941.3
|
genotype: PIK3CA.H1047R
agent: GDC-0941 (PI3K inhibitor)
|
no additional information
|
| Sample_geo_accession | GSM443989
| | Sample_status | Public on Aug 10 2011
| | Sample_submission_date | Aug 24 2009
| | Sample_last_update_date | Aug 10 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA obtained using TrizolLS method.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin labeled cRNA using an IVT kit
| | Sample_hyb_protocol | Affymterix protocol for hyb and wash on Fludics 450
| | Sample_scan_protocol | Affymetrix protocol for GeneChip scanner 3000
| | Sample_data_processing | Data were processed using a program that implemented the recommendations of Choe, et al., Genome Biology, 2005 (PMID: 15693945). Background correction was performed as in the Affymetrix MAS 5.0 application. Probe-level normalization was performed using Quantile Normalization as in the RMA method. Perfect Match and Mismatch probes were contrasted as in the Affymetrix MAS 5.0 application. Multiple probes for each probeset were summarized using the median polish method from the RMA method. These summarized metrics where then normalized using LOESS.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Peter,,Haverty
| | Sample_contact_email | phaverty@gene.com
| | Sample_contact_department | Bioinformatics
| | Sample_contact_institute | Genentech, Inc.
| | Sample_contact_address | 1 DNA Way
| | Sample_contact_city | South San Francisco
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94080
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM443nnn/GSM443989/suppl/GSM443989.CEL.gz
| | Sample_series_id | GSE17785
| | Sample_data_row_count | 54675
| | |
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