Search results for the GEO ID: GSE25427  |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM624145 | GPL570 |
|
NO1_Mock
|
normal ovarian surface epithelium, pooled from five individuals, mock treated
|
tissue: ovary
cell type: normal ovarian surface epithelium
gender: female
treatment: mock
|
NO1-MOCK_10516
|
| Sample_geo_accession | GSM624145
| | Sample_status | Public on Nov 17 2010
| | Sample_submission_date | Nov 16 2010
| | Sample_last_update_date | Sep 16 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | When confluent, cells underwent selective trypsinization to remove fibroblasts and were divided into two dishes and grown until ~70% confluent, at which time they were mock treated or treated with 5 µM 5-azacytidine (5-azaC) for 72 hours. Normal OSE (NO) cells were similarly treated, but due to small numbers of cells, we pooled specimens from five individuals to use for each of the arrays. All specimen cultures were analyzed by immunocytochemical staining using anti-cytokeratin antibodies; only cultures with >90% epithelial content were used for the microarrays.
| | Sample_growth_protocol_ch1 | Cells were grown in a 1:1 mixture of Medium 199 and MCDB 105 medium with 15% FBS in a humidifed incubator maintained at 37 degrees Celsius with 5% CO2 until confluent.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA Stat-60.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Affymetrix one cycle IVT.
| | Sample_hyb_protocol | Standard Affymetrix protocol.
| | Sample_scan_protocol | Standard Affymetrix protocol.
| | Sample_data_processing | RMA normalization with RMAExpress software (http://rmaexpress.bmbolstad.com) using background adjustment, quantile normalization and median polish summarization.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Susan,K.,Murphy
| | Sample_contact_department | Obstetrics and Gynecology
| | Sample_contact_institute | Duke University Medical Center
| | Sample_contact_address | B226 LSRC B Wing, Research Drive, Box 91012
| | Sample_contact_city | Durham
| | Sample_contact_state | NC
| | Sample_contact_zip/postal_code | 27708
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM624nnn/GSM624145/suppl/GSM624145.CEL.gz
| | Sample_series_id | GSE25427
| | Sample_series_id | GSE25429
| | Sample_data_row_count | 54613
| | |
|
GSM624146 | GPL570 |
|
NO2_Mock
|
normal ovarian surface epithelium, pooled from five individuals, mock treated
|
tissue: ovary
cell type: normal ovarian surface epithelium
gender: female
treatment: mock
|
NO2-MOCK_10518
|
| Sample_geo_accession | GSM624146
| | Sample_status | Public on Nov 17 2010
| | Sample_submission_date | Nov 16 2010
| | Sample_last_update_date | Sep 16 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | When confluent, cells underwent selective trypsinization to remove fibroblasts and were divided into two dishes and grown until ~70% confluent, at which time they were mock treated or treated with 5 µM 5-azacytidine (5-azaC) for 72 hours. Normal OSE (NO) cells were similarly treated, but due to small numbers of cells, we pooled specimens from five individuals to use for each of the arrays. All specimen cultures were analyzed by immunocytochemical staining using anti-cytokeratin antibodies; only cultures with >90% epithelial content were used for the microarrays.
| | Sample_growth_protocol_ch1 | Cells were grown in a 1:1 mixture of Medium 199 and MCDB 105 medium with 15% FBS in a humidifed incubator maintained at 37 degrees Celsius with 5% CO2 until confluent.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA Stat-60.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Affymetrix one cycle IVT.
| | Sample_hyb_protocol | Standard Affymetrix protocol.
| | Sample_scan_protocol | Standard Affymetrix protocol.
| | Sample_data_processing | RMA normalization with RMAExpress software (http://rmaexpress.bmbolstad.com) using background adjustment, quantile normalization and median polish summarization.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Susan,K.,Murphy
| | Sample_contact_department | Obstetrics and Gynecology
| | Sample_contact_institute | Duke University Medical Center
| | Sample_contact_address | B226 LSRC B Wing, Research Drive, Box 91012
| | Sample_contact_city | Durham
| | Sample_contact_state | NC
| | Sample_contact_zip/postal_code | 27708
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM624nnn/GSM624146/suppl/GSM624146.CEL.gz
| | Sample_series_id | GSE25427
| | Sample_series_id | GSE25429
| | Sample_data_row_count | 54613
| | |
|
GSM624147 | GPL570 |
|
BorOC2_Mock
|
serous borderline ovarian cells, mock treated
|
tissue: ovary
cell type: serous borderline ovarian cells
gender: female
treatment: mock
|
BorOC2-MOCK_10520
|
| Sample_geo_accession | GSM624147
| | Sample_status | Public on Nov 17 2010
| | Sample_submission_date | Nov 16 2010
| | Sample_last_update_date | Sep 16 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | When confluent, cells underwent selective trypsinization to remove fibroblasts and were divided into two dishes and grown until ~70% confluent, at which time they were mock treated or treated with 5 µM 5-azacytidine (5-azaC) for 72 hours. Normal OSE (NO) cells were similarly treated, but due to small numbers of cells, we pooled specimens from five individuals to use for each of the arrays. All specimen cultures were analyzed by immunocytochemical staining using anti-cytokeratin antibodies; only cultures with >90% epithelial content were used for the microarrays.
| | Sample_growth_protocol_ch1 | Cells were grown in a 1:1 mixture of Medium 199 and MCDB 105 medium with 15% FBS in a humidifed incubator maintained at 37 degrees Celsius with 5% CO2 until confluent.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA Stat-60.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Affymetrix one cycle IVT.
| | Sample_hyb_protocol | Standard Affymetrix protocol.
| | Sample_scan_protocol | Standard Affymetrix protocol.
| | Sample_data_processing | RMA normalization with RMAExpress software (http://rmaexpress.bmbolstad.com) using background adjustment, quantile normalization and median polish summarization.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Susan,K.,Murphy
| | Sample_contact_department | Obstetrics and Gynecology
| | Sample_contact_institute | Duke University Medical Center
| | Sample_contact_address | B226 LSRC B Wing, Research Drive, Box 91012
| | Sample_contact_city | Durham
| | Sample_contact_state | NC
| | Sample_contact_zip/postal_code | 27708
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM624nnn/GSM624147/suppl/GSM624147.CEL.gz
| | Sample_series_id | GSE25427
| | Sample_series_id | GSE25429
| | Sample_data_row_count | 54613
| | |
|
GSM624148 | GPL570 |
|
BorOC28_Mock
|
serous borderline ovarian cells, mock treated
|
tissue: ovary
cell type: serous borderline ovarian cells
gender: female
treatment: mock
|
BorOC28-MOCK_10522
|
| Sample_geo_accession | GSM624148
| | Sample_status | Public on Nov 17 2010
| | Sample_submission_date | Nov 16 2010
| | Sample_last_update_date | Sep 16 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | When confluent, cells underwent selective trypsinization to remove fibroblasts and were divided into two dishes and grown until ~70% confluent, at which time they were mock treated or treated with 5 µM 5-azacytidine (5-azaC) for 72 hours. Normal OSE (NO) cells were similarly treated, but due to small numbers of cells, we pooled specimens from five individuals to use for each of the arrays. All specimen cultures were analyzed by immunocytochemical staining using anti-cytokeratin antibodies; only cultures with >90% epithelial content were used for the microarrays.
| | Sample_growth_protocol_ch1 | Cells were grown in a 1:1 mixture of Medium 199 and MCDB 105 medium with 15% FBS in a humidifed incubator maintained at 37 degrees Celsius with 5% CO2 until confluent.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA Stat-60.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Affymetrix one cycle IVT.
| | Sample_hyb_protocol | Standard Affymetrix protocol.
| | Sample_scan_protocol | Standard Affymetrix protocol.
| | Sample_data_processing | RMA normalization with RMAExpress software (http://rmaexpress.bmbolstad.com) using background adjustment, quantile normalization and median polish summarization.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Susan,K.,Murphy
| | Sample_contact_department | Obstetrics and Gynecology
| | Sample_contact_institute | Duke University Medical Center
| | Sample_contact_address | B226 LSRC B Wing, Research Drive, Box 91012
| | Sample_contact_city | Durham
| | Sample_contact_state | NC
| | Sample_contact_zip/postal_code | 27708
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM624nnn/GSM624148/suppl/GSM624148.CEL.gz
| | Sample_series_id | GSE25427
| | Sample_series_id | GSE25429
| | Sample_data_row_count | 54613
| | |
|
GSM624149 | GPL570 |
|
OC1_Mock
|
serous epithelial ovarian cancer cells, mock treated
|
tissue: ovary
cell type: serous epithelial ovarian cancer cells
gender: female
treatment: mock
|
OC1-MOCK_7610
|
| Sample_geo_accession | GSM624149
| | Sample_status | Public on Nov 17 2010
| | Sample_submission_date | Nov 16 2010
| | Sample_last_update_date | Sep 16 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | When confluent, cells underwent selective trypsinization to remove fibroblasts and were divided into two dishes and grown until ~70% confluent, at which time they were mock treated or treated with 5 µM 5-azacytidine (5-azaC) for 72 hours. Normal OSE (NO) cells were similarly treated, but due to small numbers of cells, we pooled specimens from five individuals to use for each of the arrays. All specimen cultures were analyzed by immunocytochemical staining using anti-cytokeratin antibodies; only cultures with >90% epithelial content were used for the microarrays.
| | Sample_growth_protocol_ch1 | Cells were grown in a 1:1 mixture of Medium 199 and MCDB 105 medium with 15% FBS in a humidifed incubator maintained at 37 degrees Celsius with 5% CO2 until confluent.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA Stat-60.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Affymetrix one cycle IVT.
| | Sample_hyb_protocol | Standard Affymetrix protocol.
| | Sample_scan_protocol | Standard Affymetrix protocol.
| | Sample_data_processing | RMA normalization with RMAExpress software (http://rmaexpress.bmbolstad.com) using background adjustment, quantile normalization and median polish summarization.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Susan,K.,Murphy
| | Sample_contact_department | Obstetrics and Gynecology
| | Sample_contact_institute | Duke University Medical Center
| | Sample_contact_address | B226 LSRC B Wing, Research Drive, Box 91012
| | Sample_contact_city | Durham
| | Sample_contact_state | NC
| | Sample_contact_zip/postal_code | 27708
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM624nnn/GSM624149/suppl/GSM624149.CEL.gz
| | Sample_series_id | GSE25427
| | Sample_series_id | GSE25429
| | Sample_data_row_count | 54613
| | |
|
GSM624150 | GPL570 |
|
OC5_Mock
|
serous epithelial ovarian cancer cells, mock treated
|
tissue: ovary
cell type: serous epithelial ovarian cancer cells
gender: female
treatment: mock
|
OC5-MOCK_7675
|
| Sample_geo_accession | GSM624150
| | Sample_status | Public on Nov 17 2010
| | Sample_submission_date | Nov 16 2010
| | Sample_last_update_date | Sep 16 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | When confluent, cells underwent selective trypsinization to remove fibroblasts and were divided into two dishes and grown until ~70% confluent, at which time they were mock treated or treated with 5 µM 5-azacytidine (5-azaC) for 72 hours. Normal OSE (NO) cells were similarly treated, but due to small numbers of cells, we pooled specimens from five individuals to use for each of the arrays. All specimen cultures were analyzed by immunocytochemical staining using anti-cytokeratin antibodies; only cultures with >90% epithelial content were used for the microarrays.
| | Sample_growth_protocol_ch1 | Cells were grown in a 1:1 mixture of Medium 199 and MCDB 105 medium with 15% FBS in a humidifed incubator maintained at 37 degrees Celsius with 5% CO2 until confluent.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA Stat-60.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Affymetrix one cycle IVT.
| | Sample_hyb_protocol | Standard Affymetrix protocol.
| | Sample_scan_protocol | Standard Affymetrix protocol.
| | Sample_data_processing | RMA normalization with RMAExpress software (http://rmaexpress.bmbolstad.com) using background adjustment, quantile normalization and median polish summarization.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Susan,K.,Murphy
| | Sample_contact_department | Obstetrics and Gynecology
| | Sample_contact_institute | Duke University Medical Center
| | Sample_contact_address | B226 LSRC B Wing, Research Drive, Box 91012
| | Sample_contact_city | Durham
| | Sample_contact_state | NC
| | Sample_contact_zip/postal_code | 27708
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM624nnn/GSM624150/suppl/GSM624150.CEL.gz
| | Sample_series_id | GSE25427
| | Sample_series_id | GSE25429
| | Sample_data_row_count | 54613
| | |
|
GSM624151 | GPL570 |
|
OC6_Mock
|
serous epithelial ovarian cancer cells, mock treated
|
tissue: ovary
cell type: serous epithelial ovarian cancer cells
gender: female
treatment: mock
|
OC6-MOCK_7741
|
| Sample_geo_accession | GSM624151
| | Sample_status | Public on Nov 17 2010
| | Sample_submission_date | Nov 16 2010
| | Sample_last_update_date | Sep 16 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | When confluent, cells underwent selective trypsinization to remove fibroblasts and were divided into two dishes and grown until ~70% confluent, at which time they were mock treated or treated with 5 µM 5-azacytidine (5-azaC) for 72 hours. Normal OSE (NO) cells were similarly treated, but due to small numbers of cells, we pooled specimens from five individuals to use for each of the arrays. All specimen cultures were analyzed by immunocytochemical staining using anti-cytokeratin antibodies; only cultures with >90% epithelial content were used for the microarrays.
| | Sample_growth_protocol_ch1 | Cells were grown in a 1:1 mixture of Medium 199 and MCDB 105 medium with 15% FBS in a humidifed incubator maintained at 37 degrees Celsius with 5% CO2 until confluent.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA Stat-60.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Affymetrix one cycle IVT.
| | Sample_hyb_protocol | Standard Affymetrix protocol.
| | Sample_scan_protocol | Standard Affymetrix protocol.
| | Sample_data_processing | RMA normalization with RMAExpress software (http://rmaexpress.bmbolstad.com) using background adjustment, quantile normalization and median polish summarization.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Susan,K.,Murphy
| | Sample_contact_department | Obstetrics and Gynecology
| | Sample_contact_institute | Duke University Medical Center
| | Sample_contact_address | B226 LSRC B Wing, Research Drive, Box 91012
| | Sample_contact_city | Durham
| | Sample_contact_state | NC
| | Sample_contact_zip/postal_code | 27708
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM624nnn/GSM624151/suppl/GSM624151.CEL.gz
| | Sample_series_id | GSE25427
| | Sample_series_id | GSE25429
| | Sample_data_row_count | 54613
| | |
|
GSM624152 | GPL570 |
|
OC7_Mock
|
endometrioid ovarian cancer cells, mock treated
|
tissue: ovary
cell type: endometrioid ovarian cancer cells
gender: female
treatment: mock
|
OC7-MOCK_8393
|
| Sample_geo_accession | GSM624152
| | Sample_status | Public on Nov 17 2010
| | Sample_submission_date | Nov 16 2010
| | Sample_last_update_date | Sep 16 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | When confluent, cells underwent selective trypsinization to remove fibroblasts and were divided into two dishes and grown until ~70% confluent, at which time they were mock treated or treated with 5 µM 5-azacytidine (5-azaC) for 72 hours. Normal OSE (NO) cells were similarly treated, but due to small numbers of cells, we pooled specimens from five individuals to use for each of the arrays. All specimen cultures were analyzed by immunocytochemical staining using anti-cytokeratin antibodies; only cultures with >90% epithelial content were used for the microarrays.
| | Sample_growth_protocol_ch1 | Cells were grown in a 1:1 mixture of Medium 199 and MCDB 105 medium with 15% FBS in a humidifed incubator maintained at 37 degrees Celsius with 5% CO2 until confluent.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA Stat-60.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Affymetrix one cycle IVT.
| | Sample_hyb_protocol | Standard Affymetrix protocol.
| | Sample_scan_protocol | Standard Affymetrix protocol.
| | Sample_data_processing | RMA normalization with RMAExpress software (http://rmaexpress.bmbolstad.com) using background adjustment, quantile normalization and median polish summarization.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Susan,K.,Murphy
| | Sample_contact_department | Obstetrics and Gynecology
| | Sample_contact_institute | Duke University Medical Center
| | Sample_contact_address | B226 LSRC B Wing, Research Drive, Box 91012
| | Sample_contact_city | Durham
| | Sample_contact_state | NC
| | Sample_contact_zip/postal_code | 27708
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM624nnn/GSM624152/suppl/GSM624152.CEL.gz
| | Sample_series_id | GSE25427
| | Sample_series_id | GSE25429
| | Sample_data_row_count | 54613
| | |
|
GSM624153 | GPL570 |
|
OC10_Mock
|
serous epithelial ovarian cancer cells, mock treated
|
tissue: ovary
cell type: serous epithelial ovarian cancer cells
gender: female
treatment: mock
|
OC10-MOCK_8981
|
| Sample_geo_accession | GSM624153
| | Sample_status | Public on Nov 17 2010
| | Sample_submission_date | Nov 16 2010
| | Sample_last_update_date | Sep 16 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | When confluent, cells underwent selective trypsinization to remove fibroblasts and were divided into two dishes and grown until ~70% confluent, at which time they were mock treated or treated with 5 µM 5-azacytidine (5-azaC) for 72 hours. Normal OSE (NO) cells were similarly treated, but due to small numbers of cells, we pooled specimens from five individuals to use for each of the arrays. All specimen cultures were analyzed by immunocytochemical staining using anti-cytokeratin antibodies; only cultures with >90% epithelial content were used for the microarrays.
| | Sample_growth_protocol_ch1 | Cells were grown in a 1:1 mixture of Medium 199 and MCDB 105 medium with 15% FBS in a humidifed incubator maintained at 37 degrees Celsius with 5% CO2 until confluent.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA Stat-60.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Affymetrix one cycle IVT.
| | Sample_hyb_protocol | Standard Affymetrix protocol.
| | Sample_scan_protocol | Standard Affymetrix protocol.
| | Sample_data_processing | RMA normalization with RMAExpress software (http://rmaexpress.bmbolstad.com) using background adjustment, quantile normalization and median polish summarization.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Susan,K.,Murphy
| | Sample_contact_department | Obstetrics and Gynecology
| | Sample_contact_institute | Duke University Medical Center
| | Sample_contact_address | B226 LSRC B Wing, Research Drive, Box 91012
| | Sample_contact_city | Durham
| | Sample_contact_state | NC
| | Sample_contact_zip/postal_code | 27708
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM624nnn/GSM624153/suppl/GSM624153.CEL.gz
| | Sample_series_id | GSE25427
| | Sample_series_id | GSE25429
| | Sample_data_row_count | 54613
| | |
|
GSM624154 | GPL570 |
|
OC14_Mock
|
serous epithelial ovarian cancer cells, mock treated
|
tissue: ovary
cell type: serous epithelial ovarian cancer cells
gender: female
treatment: mock
|
OC14-MOCK_8868
|
| Sample_geo_accession | GSM624154
| | Sample_status | Public on Nov 17 2010
| | Sample_submission_date | Nov 16 2010
| | Sample_last_update_date | Sep 16 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | When confluent, cells underwent selective trypsinization to remove fibroblasts and were divided into two dishes and grown until ~70% confluent, at which time they were mock treated or treated with 5 µM 5-azacytidine (5-azaC) for 72 hours. Normal OSE (NO) cells were similarly treated, but due to small numbers of cells, we pooled specimens from five individuals to use for each of the arrays. All specimen cultures were analyzed by immunocytochemical staining using anti-cytokeratin antibodies; only cultures with >90% epithelial content were used for the microarrays.
| | Sample_growth_protocol_ch1 | Cells were grown in a 1:1 mixture of Medium 199 and MCDB 105 medium with 15% FBS in a humidifed incubator maintained at 37 degrees Celsius with 5% CO2 until confluent.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA Stat-60.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Affymetrix one cycle IVT.
| | Sample_hyb_protocol | Standard Affymetrix protocol.
| | Sample_scan_protocol | Standard Affymetrix protocol.
| | Sample_data_processing | RMA normalization with RMAExpress software (http://rmaexpress.bmbolstad.com) using background adjustment, quantile normalization and median polish summarization.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Susan,K.,Murphy
| | Sample_contact_department | Obstetrics and Gynecology
| | Sample_contact_institute | Duke University Medical Center
| | Sample_contact_address | B226 LSRC B Wing, Research Drive, Box 91012
| | Sample_contact_city | Durham
| | Sample_contact_state | NC
| | Sample_contact_zip/postal_code | 27708
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM624nnn/GSM624154/suppl/GSM624154.CEL.gz
| | Sample_series_id | GSE25427
| | Sample_series_id | GSE25429
| | Sample_data_row_count | 54613
| | |
|
GSM624155 | GPL570 |
|
OC15_Mock
|
serous epithelial ovarian cancer cells, mock treated
|
tissue: ovary
cell type: serous epithelial ovarian cancer cells
gender: female
treatment: mock
|
OC15-MOCK_8870
|
| Sample_geo_accession | GSM624155
| | Sample_status | Public on Nov 17 2010
| | Sample_submission_date | Nov 16 2010
| | Sample_last_update_date | Sep 16 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | When confluent, cells underwent selective trypsinization to remove fibroblasts and were divided into two dishes and grown until ~70% confluent, at which time they were mock treated or treated with 5 µM 5-azacytidine (5-azaC) for 72 hours. Normal OSE (NO) cells were similarly treated, but due to small numbers of cells, we pooled specimens from five individuals to use for each of the arrays. All specimen cultures were analyzed by immunocytochemical staining using anti-cytokeratin antibodies; only cultures with >90% epithelial content were used for the microarrays.
| | Sample_growth_protocol_ch1 | Cells were grown in a 1:1 mixture of Medium 199 and MCDB 105 medium with 15% FBS in a humidifed incubator maintained at 37 degrees Celsius with 5% CO2 until confluent.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA Stat-60.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Affymetrix one cycle IVT.
| | Sample_hyb_protocol | Standard Affymetrix protocol.
| | Sample_scan_protocol | Standard Affymetrix protocol.
| | Sample_data_processing | RMA normalization with RMAExpress software (http://rmaexpress.bmbolstad.com) using background adjustment, quantile normalization and median polish summarization.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Susan,K.,Murphy
| | Sample_contact_department | Obstetrics and Gynecology
| | Sample_contact_institute | Duke University Medical Center
| | Sample_contact_address | B226 LSRC B Wing, Research Drive, Box 91012
| | Sample_contact_city | Durham
| | Sample_contact_state | NC
| | Sample_contact_zip/postal_code | 27708
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM624nnn/GSM624155/suppl/GSM624155.CEL.gz
| | Sample_series_id | GSE25427
| | Sample_series_id | GSE25429
| | Sample_data_row_count | 54613
| | |
|
GSM624156 | GPL570 |
|
OC16_Mock
|
serous epithelial ovarian cancer cells, mock treated
|
tissue: ovary
cell type: serous epithelial ovarian cancer cells
gender: female
treatment: mock
|
OC16-MOCK_8871
|
| Sample_geo_accession | GSM624156
| | Sample_status | Public on Nov 17 2010
| | Sample_submission_date | Nov 16 2010
| | Sample_last_update_date | Sep 16 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | When confluent, cells underwent selective trypsinization to remove fibroblasts and were divided into two dishes and grown until ~70% confluent, at which time they were mock treated or treated with 5 µM 5-azacytidine (5-azaC) for 72 hours. Normal OSE (NO) cells were similarly treated, but due to small numbers of cells, we pooled specimens from five individuals to use for each of the arrays. All specimen cultures were analyzed by immunocytochemical staining using anti-cytokeratin antibodies; only cultures with >90% epithelial content were used for the microarrays.
| | Sample_growth_protocol_ch1 | Cells were grown in a 1:1 mixture of Medium 199 and MCDB 105 medium with 15% FBS in a humidifed incubator maintained at 37 degrees Celsius with 5% CO2 until confluent.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA Stat-60.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Affymetrix one cycle IVT.
| | Sample_hyb_protocol | Standard Affymetrix protocol.
| | Sample_scan_protocol | Standard Affymetrix protocol.
| | Sample_data_processing | RMA normalization with RMAExpress software (http://rmaexpress.bmbolstad.com) using background adjustment, quantile normalization and median polish summarization.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Susan,K.,Murphy
| | Sample_contact_department | Obstetrics and Gynecology
| | Sample_contact_institute | Duke University Medical Center
| | Sample_contact_address | B226 LSRC B Wing, Research Drive, Box 91012
| | Sample_contact_city | Durham
| | Sample_contact_state | NC
| | Sample_contact_zip/postal_code | 27708
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM624nnn/GSM624156/suppl/GSM624156.CEL.gz
| | Sample_series_id | GSE25427
| | Sample_series_id | GSE25429
| | Sample_data_row_count | 54613
| | |
|
GSM624157 | GPL570 |
|
OC18_Mock
|
serous epithelial ovarian cancer cells, mock treated
|
tissue: ovary
cell type: serous epithelial ovarian cancer cells
gender: female
treatment: mock
|
OC18-MOCK_8873
|
| Sample_geo_accession | GSM624157
| | Sample_status | Public on Nov 17 2010
| | Sample_submission_date | Nov 16 2010
| | Sample_last_update_date | Sep 16 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | When confluent, cells underwent selective trypsinization to remove fibroblasts and were divided into two dishes and grown until ~70% confluent, at which time they were mock treated or treated with 5 µM 5-azacytidine (5-azaC) for 72 hours. Normal OSE (NO) cells were similarly treated, but due to small numbers of cells, we pooled specimens from five individuals to use for each of the arrays. All specimen cultures were analyzed by immunocytochemical staining using anti-cytokeratin antibodies; only cultures with >90% epithelial content were used for the microarrays.
| | Sample_growth_protocol_ch1 | Cells were grown in a 1:1 mixture of Medium 199 and MCDB 105 medium with 15% FBS in a humidifed incubator maintained at 37 degrees Celsius with 5% CO2 until confluent.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA Stat-60.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Affymetrix one cycle IVT.
| | Sample_hyb_protocol | Standard Affymetrix protocol.
| | Sample_scan_protocol | Standard Affymetrix protocol.
| | Sample_data_processing | RMA normalization with RMAExpress software (http://rmaexpress.bmbolstad.com) using background adjustment, quantile normalization and median polish summarization.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Susan,K.,Murphy
| | Sample_contact_department | Obstetrics and Gynecology
| | Sample_contact_institute | Duke University Medical Center
| | Sample_contact_address | B226 LSRC B Wing, Research Drive, Box 91012
| | Sample_contact_city | Durham
| | Sample_contact_state | NC
| | Sample_contact_zip/postal_code | 27708
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM624nnn/GSM624157/suppl/GSM624157.CEL.gz
| | Sample_series_id | GSE25427
| | Sample_series_id | GSE25429
| | Sample_data_row_count | 54613
| | |
|
GSM624158 | GPL570 |
|
OC20_Mock
|
serous epithelial ovarian cancer cells, mock treated
|
tissue: ovary
cell type: serous epithelial ovarian cancer cells
gender: female
treatment: mock
|
OC20-MOCK_9741
|
| Sample_geo_accession | GSM624158
| | Sample_status | Public on Nov 17 2010
| | Sample_submission_date | Nov 16 2010
| | Sample_last_update_date | Sep 16 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | When confluent, cells underwent selective trypsinization to remove fibroblasts and were divided into two dishes and grown until ~70% confluent, at which time they were mock treated or treated with 5 µM 5-azacytidine (5-azaC) for 72 hours. Normal OSE (NO) cells were similarly treated, but due to small numbers of cells, we pooled specimens from five individuals to use for each of the arrays. All specimen cultures were analyzed by immunocytochemical staining using anti-cytokeratin antibodies; only cultures with >90% epithelial content were used for the microarrays.
| | Sample_growth_protocol_ch1 | Cells were grown in a 1:1 mixture of Medium 199 and MCDB 105 medium with 15% FBS in a humidifed incubator maintained at 37 degrees Celsius with 5% CO2 until confluent.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA Stat-60.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Affymetrix one cycle IVT.
| | Sample_hyb_protocol | Standard Affymetrix protocol.
| | Sample_scan_protocol | Standard Affymetrix protocol.
| | Sample_data_processing | RMA normalization with RMAExpress software (http://rmaexpress.bmbolstad.com) using background adjustment, quantile normalization and median polish summarization.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Susan,K.,Murphy
| | Sample_contact_department | Obstetrics and Gynecology
| | Sample_contact_institute | Duke University Medical Center
| | Sample_contact_address | B226 LSRC B Wing, Research Drive, Box 91012
| | Sample_contact_city | Durham
| | Sample_contact_state | NC
| | Sample_contact_zip/postal_code | 27708
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM624nnn/GSM624158/suppl/GSM624158.CEL.gz
| | Sample_series_id | GSE25427
| | Sample_series_id | GSE25429
| | Sample_data_row_count | 54613
| | |
|
GSM624159 | GPL570 |
|
OC22_Mock
|
serous epithelial ovarian cancer cells, mock treated
|
tissue: ovary
cell type: serous epithelial ovarian cancer cells
gender: female
treatment: mock
|
OC22-MOCK_9743
|
| Sample_geo_accession | GSM624159
| | Sample_status | Public on Nov 17 2010
| | Sample_submission_date | Nov 16 2010
| | Sample_last_update_date | Sep 16 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | When confluent, cells underwent selective trypsinization to remove fibroblasts and were divided into two dishes and grown until ~70% confluent, at which time they were mock treated or treated with 5 µM 5-azacytidine (5-azaC) for 72 hours. Normal OSE (NO) cells were similarly treated, but due to small numbers of cells, we pooled specimens from five individuals to use for each of the arrays. All specimen cultures were analyzed by immunocytochemical staining using anti-cytokeratin antibodies; only cultures with >90% epithelial content were used for the microarrays.
| | Sample_growth_protocol_ch1 | Cells were grown in a 1:1 mixture of Medium 199 and MCDB 105 medium with 15% FBS in a humidifed incubator maintained at 37 degrees Celsius with 5% CO2 until confluent.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA Stat-60.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Affymetrix one cycle IVT.
| | Sample_hyb_protocol | Standard Affymetrix protocol.
| | Sample_scan_protocol | Standard Affymetrix protocol.
| | Sample_data_processing | RMA normalization with RMAExpress software (http://rmaexpress.bmbolstad.com) using background adjustment, quantile normalization and median polish summarization.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Susan,K.,Murphy
| | Sample_contact_department | Obstetrics and Gynecology
| | Sample_contact_institute | Duke University Medical Center
| | Sample_contact_address | B226 LSRC B Wing, Research Drive, Box 91012
| | Sample_contact_city | Durham
| | Sample_contact_state | NC
| | Sample_contact_zip/postal_code | 27708
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM624nnn/GSM624159/suppl/GSM624159.CEL.gz
| | Sample_series_id | GSE25427
| | Sample_series_id | GSE25429
| | Sample_data_row_count | 54613
| | |
|
GSM624160 | GPL570 |
|
OC26_Mock
|
serous epithelial ovarian cancer cells, mock treated
|
tissue: ovary
cell type: serous epithelial ovarian cancer cells
gender: female
treatment: mock
|
OC26-MOCK_9745
|
| Sample_geo_accession | GSM624160
| | Sample_status | Public on Nov 17 2010
| | Sample_submission_date | Nov 16 2010
| | Sample_last_update_date | Sep 16 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | When confluent, cells underwent selective trypsinization to remove fibroblasts and were divided into two dishes and grown until ~70% confluent, at which time they were mock treated or treated with 5 µM 5-azacytidine (5-azaC) for 72 hours. Normal OSE (NO) cells were similarly treated, but due to small numbers of cells, we pooled specimens from five individuals to use for each of the arrays. All specimen cultures were analyzed by immunocytochemical staining using anti-cytokeratin antibodies; only cultures with >90% epithelial content were used for the microarrays.
| | Sample_growth_protocol_ch1 | Cells were grown in a 1:1 mixture of Medium 199 and MCDB 105 medium with 15% FBS in a humidifed incubator maintained at 37 degrees Celsius with 5% CO2 until confluent.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA Stat-60.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Affymetrix one cycle IVT.
| | Sample_hyb_protocol | Standard Affymetrix protocol.
| | Sample_scan_protocol | Standard Affymetrix protocol.
| | Sample_data_processing | RMA normalization with RMAExpress software (http://rmaexpress.bmbolstad.com) using background adjustment, quantile normalization and median polish summarization.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Susan,K.,Murphy
| | Sample_contact_department | Obstetrics and Gynecology
| | Sample_contact_institute | Duke University Medical Center
| | Sample_contact_address | B226 LSRC B Wing, Research Drive, Box 91012
| | Sample_contact_city | Durham
| | Sample_contact_state | NC
| | Sample_contact_zip/postal_code | 27708
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM624nnn/GSM624160/suppl/GSM624160.CEL.gz
| | Sample_series_id | GSE25427
| | Sample_series_id | GSE25429
| | Sample_data_row_count | 54613
| | |
|
GSM624161 | GPL570 |
|
OC27_Mock
|
serous epithelial ovarian cancer cells, mock treated
|
tissue: ovary
cell type: serous epithelial ovarian cancer cells
gender: female
treatment: mock
|
OC27-MOCK_9747
|
| Sample_geo_accession | GSM624161
| | Sample_status | Public on Nov 17 2010
| | Sample_submission_date | Nov 16 2010
| | Sample_last_update_date | Sep 16 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | When confluent, cells underwent selective trypsinization to remove fibroblasts and were divided into two dishes and grown until ~70% confluent, at which time they were mock treated or treated with 5 µM 5-azacytidine (5-azaC) for 72 hours. Normal OSE (NO) cells were similarly treated, but due to small numbers of cells, we pooled specimens from five individuals to use for each of the arrays. All specimen cultures were analyzed by immunocytochemical staining using anti-cytokeratin antibodies; only cultures with >90% epithelial content were used for the microarrays.
| | Sample_growth_protocol_ch1 | Cells were grown in a 1:1 mixture of Medium 199 and MCDB 105 medium with 15% FBS in a humidifed incubator maintained at 37 degrees Celsius with 5% CO2 until confluent.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA Stat-60.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Affymetrix one cycle IVT.
| | Sample_hyb_protocol | Standard Affymetrix protocol.
| | Sample_scan_protocol | Standard Affymetrix protocol.
| | Sample_data_processing | RMA normalization with RMAExpress software (http://rmaexpress.bmbolstad.com) using background adjustment, quantile normalization and median polish summarization.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Susan,K.,Murphy
| | Sample_contact_department | Obstetrics and Gynecology
| | Sample_contact_institute | Duke University Medical Center
| | Sample_contact_address | B226 LSRC B Wing, Research Drive, Box 91012
| | Sample_contact_city | Durham
| | Sample_contact_state | NC
| | Sample_contact_zip/postal_code | 27708
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM624nnn/GSM624161/suppl/GSM624161.CEL.gz
| | Sample_series_id | GSE25427
| | Sample_series_id | GSE25429
| | Sample_data_row_count | 54613
| | |
|
GSM624162 | GPL570 |
|
NO1_Aza
|
normal ovarian surface epithelium, pooled from five individuals, treated with 5-AzaC
|
tissue: ovary
cell type: normal ovarian surface epithelium
gender: female
treatment: 5-azacytidine (5-AzaC)
|
NO1-AZA_10517
|
| Sample_geo_accession | GSM624162
| | Sample_status | Public on Nov 17 2010
| | Sample_submission_date | Nov 16 2010
| | Sample_last_update_date | Sep 16 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | When confluent, cells underwent selective trypsinization to remove fibroblasts and were divided into two dishes and grown until ~70% confluent, at which time they were mock treated or treated with 5 µM 5-azacytidine (5-azaC) for 72 hours. Normal OSE (NO) cells were similarly treated, but due to small numbers of cells, we pooled specimens from five individuals to use for each of the arrays. All specimen cultures were analyzed by immunocytochemical staining using anti-cytokeratin antibodies; only cultures with >90% epithelial content were used for the microarrays.
| | Sample_growth_protocol_ch1 | Cells were grown in a 1:1 mixture of Medium 199 and MCDB 105 medium with 15% FBS in a humidifed incubator maintained at 37 degrees Celsius with 5% CO2 until confluent.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA Stat-60.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Affymetrix one cycle IVT.
| | Sample_hyb_protocol | Standard Affymetrix protocol.
| | Sample_scan_protocol | Standard Affymetrix protocol.
| | Sample_data_processing | RMA normalization with RMAExpress software (http://rmaexpress.bmbolstad.com) using background adjustment, quantile normalization and median polish summarization.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Susan,K.,Murphy
| | Sample_contact_department | Obstetrics and Gynecology
| | Sample_contact_institute | Duke University Medical Center
| | Sample_contact_address | B226 LSRC B Wing, Research Drive, Box 91012
| | Sample_contact_city | Durham
| | Sample_contact_state | NC
| | Sample_contact_zip/postal_code | 27708
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM624nnn/GSM624162/suppl/GSM624162.CEL.gz
| | Sample_series_id | GSE25427
| | Sample_series_id | GSE25429
| | Sample_data_row_count | 54613
| | |
|
GSM624163 | GPL570 |
|
NO2_Aza
|
normal ovarian surface epithelium, pooled from five individuals, treated with 5-AzaC
|
tissue: ovary
cell type: normal ovarian surface epithelium
gender: female
treatment: 5-azacytidine (5-AzaC)
|
NO2-AZA_10519
|
| Sample_geo_accession | GSM624163
| | Sample_status | Public on Nov 17 2010
| | Sample_submission_date | Nov 16 2010
| | Sample_last_update_date | Sep 16 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | When confluent, cells underwent selective trypsinization to remove fibroblasts and were divided into two dishes and grown until ~70% confluent, at which time they were mock treated or treated with 5 µM 5-azacytidine (5-azaC) for 72 hours. Normal OSE (NO) cells were similarly treated, but due to small numbers of cells, we pooled specimens from five individuals to use for each of the arrays. All specimen cultures were analyzed by immunocytochemical staining using anti-cytokeratin antibodies; only cultures with >90% epithelial content were used for the microarrays.
| | Sample_growth_protocol_ch1 | Cells were grown in a 1:1 mixture of Medium 199 and MCDB 105 medium with 15% FBS in a humidifed incubator maintained at 37 degrees Celsius with 5% CO2 until confluent.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA Stat-60.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Affymetrix one cycle IVT.
| | Sample_hyb_protocol | Standard Affymetrix protocol.
| | Sample_scan_protocol | Standard Affymetrix protocol.
| | Sample_data_processing | RMA normalization with RMAExpress software (http://rmaexpress.bmbolstad.com) using background adjustment, quantile normalization and median polish summarization.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Susan,K.,Murphy
| | Sample_contact_department | Obstetrics and Gynecology
| | Sample_contact_institute | Duke University Medical Center
| | Sample_contact_address | B226 LSRC B Wing, Research Drive, Box 91012
| | Sample_contact_city | Durham
| | Sample_contact_state | NC
| | Sample_contact_zip/postal_code | 27708
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM624nnn/GSM624163/suppl/GSM624163.CEL.gz
| | Sample_series_id | GSE25427
| | Sample_series_id | GSE25429
| | Sample_data_row_count | 54613
| | |
|
GSM624164 | GPL570 |
|
BorOC2_Aza
|
serous borderline ovarian cells, treated with 5-AzaC
|
tissue: ovary
cell type: serous borderline ovarian cells
gender: female
treatment: 5-azacytidine (5-AzaC)
|
BorOC2-AZA_10521
|
| Sample_geo_accession | GSM624164
| | Sample_status | Public on Nov 17 2010
| | Sample_submission_date | Nov 16 2010
| | Sample_last_update_date | Sep 16 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | When confluent, cells underwent selective trypsinization to remove fibroblasts and were divided into two dishes and grown until ~70% confluent, at which time they were mock treated or treated with 5 µM 5-azacytidine (5-azaC) for 72 hours. Normal OSE (NO) cells were similarly treated, but due to small numbers of cells, we pooled specimens from five individuals to use for each of the arrays. All specimen cultures were analyzed by immunocytochemical staining using anti-cytokeratin antibodies; only cultures with >90% epithelial content were used for the microarrays.
| | Sample_growth_protocol_ch1 | Cells were grown in a 1:1 mixture of Medium 199 and MCDB 105 medium with 15% FBS in a humidifed incubator maintained at 37 degrees Celsius with 5% CO2 until confluent.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA Stat-60.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Affymetrix one cycle IVT.
| | Sample_hyb_protocol | Standard Affymetrix protocol.
| | Sample_scan_protocol | Standard Affymetrix protocol.
| | Sample_data_processing | RMA normalization with RMAExpress software (http://rmaexpress.bmbolstad.com) using background adjustment, quantile normalization and median polish summarization.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Susan,K.,Murphy
| | Sample_contact_department | Obstetrics and Gynecology
| | Sample_contact_institute | Duke University Medical Center
| | Sample_contact_address | B226 LSRC B Wing, Research Drive, Box 91012
| | Sample_contact_city | Durham
| | Sample_contact_state | NC
| | Sample_contact_zip/postal_code | 27708
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM624nnn/GSM624164/suppl/GSM624164.CEL.gz
| | Sample_series_id | GSE25427
| | Sample_series_id | GSE25429
| | Sample_data_row_count | 54613
| | |
|
GSM624165 | GPL570 |
|
BorOC28_Aza
|
serous borderline ovarian cells, treated with 5-AzaC
|
tissue: ovary
cell type: serous borderline ovarian cells
gender: female
treatment: 5-azacytidine (5-AzaC)
|
BorOC28-AZA_10523
|
| Sample_geo_accession | GSM624165
| | Sample_status | Public on Nov 17 2010
| | Sample_submission_date | Nov 16 2010
| | Sample_last_update_date | Sep 16 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | When confluent, cells underwent selective trypsinization to remove fibroblasts and were divided into two dishes and grown until ~70% confluent, at which time they were mock treated or treated with 5 µM 5-azacytidine (5-azaC) for 72 hours. Normal OSE (NO) cells were similarly treated, but due to small numbers of cells, we pooled specimens from five individuals to use for each of the arrays. All specimen cultures were analyzed by immunocytochemical staining using anti-cytokeratin antibodies; only cultures with >90% epithelial content were used for the microarrays.
| | Sample_growth_protocol_ch1 | Cells were grown in a 1:1 mixture of Medium 199 and MCDB 105 medium with 15% FBS in a humidifed incubator maintained at 37 degrees Celsius with 5% CO2 until confluent.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA Stat-60.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Affymetrix one cycle IVT.
| | Sample_hyb_protocol | Standard Affymetrix protocol.
| | Sample_scan_protocol | Standard Affymetrix protocol.
| | Sample_data_processing | RMA normalization with RMAExpress software (http://rmaexpress.bmbolstad.com) using background adjustment, quantile normalization and median polish summarization.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Susan,K.,Murphy
| | Sample_contact_department | Obstetrics and Gynecology
| | Sample_contact_institute | Duke University Medical Center
| | Sample_contact_address | B226 LSRC B Wing, Research Drive, Box 91012
| | Sample_contact_city | Durham
| | Sample_contact_state | NC
| | Sample_contact_zip/postal_code | 27708
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM624nnn/GSM624165/suppl/GSM624165.CEL.gz
| | Sample_series_id | GSE25427
| | Sample_series_id | GSE25429
| | Sample_data_row_count | 54613
| | |
|
GSM624166 | GPL570 |
|
OC1_Aza
|
serous epithelial ovarian cancer cells, treated with 5-AzaC
|
tissue: ovary
cell type: serous epithelial ovarian cancer cells
gender: female
treatment: 5-azacytidine (5-AzaC)
|
OC1-AZA_7611
|
| Sample_geo_accession | GSM624166
| | Sample_status | Public on Nov 17 2010
| | Sample_submission_date | Nov 16 2010
| | Sample_last_update_date | Sep 16 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | When confluent, cells underwent selective trypsinization to remove fibroblasts and were divided into two dishes and grown until ~70% confluent, at which time they were mock treated or treated with 5 µM 5-azacytidine (5-azaC) for 72 hours. Normal OSE (NO) cells were similarly treated, but due to small numbers of cells, we pooled specimens from five individuals to use for each of the arrays. All specimen cultures were analyzed by immunocytochemical staining using anti-cytokeratin antibodies; only cultures with >90% epithelial content were used for the microarrays.
| | Sample_growth_protocol_ch1 | Cells were grown in a 1:1 mixture of Medium 199 and MCDB 105 medium with 15% FBS in a humidifed incubator maintained at 37 degrees Celsius with 5% CO2 until confluent.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA Stat-60.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Affymetrix one cycle IVT.
| | Sample_hyb_protocol | Standard Affymetrix protocol.
| | Sample_scan_protocol | Standard Affymetrix protocol.
| | Sample_data_processing | RMA normalization with RMAExpress software (http://rmaexpress.bmbolstad.com) using background adjustment, quantile normalization and median polish summarization.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Susan,K.,Murphy
| | Sample_contact_department | Obstetrics and Gynecology
| | Sample_contact_institute | Duke University Medical Center
| | Sample_contact_address | B226 LSRC B Wing, Research Drive, Box 91012
| | Sample_contact_city | Durham
| | Sample_contact_state | NC
| | Sample_contact_zip/postal_code | 27708
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM624nnn/GSM624166/suppl/GSM624166.CEL.gz
| | Sample_series_id | GSE25427
| | Sample_series_id | GSE25429
| | Sample_data_row_count | 54613
| | |
|
GSM624167 | GPL570 |
|
OC5_Aza
|
serous epithelial ovarian cancer cells, treated with 5-AzaC
|
tissue: ovary
cell type: serous epithelial ovarian cancer cells
gender: female
treatment: 5-azacytidine (5-AzaC)
|
OC5-AZA_7676
|
| Sample_geo_accession | GSM624167
| | Sample_status | Public on Nov 17 2010
| | Sample_submission_date | Nov 16 2010
| | Sample_last_update_date | Sep 16 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | When confluent, cells underwent selective trypsinization to remove fibroblasts and were divided into two dishes and grown until ~70% confluent, at which time they were mock treated or treated with 5 µM 5-azacytidine (5-azaC) for 72 hours. Normal OSE (NO) cells were similarly treated, but due to small numbers of cells, we pooled specimens from five individuals to use for each of the arrays. All specimen cultures were analyzed by immunocytochemical staining using anti-cytokeratin antibodies; only cultures with >90% epithelial content were used for the microarrays.
| | Sample_growth_protocol_ch1 | Cells were grown in a 1:1 mixture of Medium 199 and MCDB 105 medium with 15% FBS in a humidifed incubator maintained at 37 degrees Celsius with 5% CO2 until confluent.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA Stat-60.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Affymetrix one cycle IVT.
| | Sample_hyb_protocol | Standard Affymetrix protocol.
| | Sample_scan_protocol | Standard Affymetrix protocol.
| | Sample_data_processing | RMA normalization with RMAExpress software (http://rmaexpress.bmbolstad.com) using background adjustment, quantile normalization and median polish summarization.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Susan,K.,Murphy
| | Sample_contact_department | Obstetrics and Gynecology
| | Sample_contact_institute | Duke University Medical Center
| | Sample_contact_address | B226 LSRC B Wing, Research Drive, Box 91012
| | Sample_contact_city | Durham
| | Sample_contact_state | NC
| | Sample_contact_zip/postal_code | 27708
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM624nnn/GSM624167/suppl/GSM624167.CEL.gz
| | Sample_series_id | GSE25427
| | Sample_series_id | GSE25429
| | Sample_data_row_count | 54613
| | |
|
GSM624168 | GPL570 |
|
OC6_Aza
|
serous epithelial ovarian cancer cells, treated with 5-AzaC
|
tissue: ovary
cell type: serous epithelial ovarian cancer cells
gender: female
treatment: 5-azacytidine (5-AzaC)
|
OC6-AZA_7742
|
| Sample_geo_accession | GSM624168
| | Sample_status | Public on Nov 17 2010
| | Sample_submission_date | Nov 16 2010
| | Sample_last_update_date | Sep 16 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | When confluent, cells underwent selective trypsinization to remove fibroblasts and were divided into two dishes and grown until ~70% confluent, at which time they were mock treated or treated with 5 µM 5-azacytidine (5-azaC) for 72 hours. Normal OSE (NO) cells were similarly treated, but due to small numbers of cells, we pooled specimens from five individuals to use for each of the arrays. All specimen cultures were analyzed by immunocytochemical staining using anti-cytokeratin antibodies; only cultures with >90% epithelial content were used for the microarrays.
| | Sample_growth_protocol_ch1 | Cells were grown in a 1:1 mixture of Medium 199 and MCDB 105 medium with 15% FBS in a humidifed incubator maintained at 37 degrees Celsius with 5% CO2 until confluent.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA Stat-60.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Affymetrix one cycle IVT.
| | Sample_hyb_protocol | Standard Affymetrix protocol.
| | Sample_scan_protocol | Standard Affymetrix protocol.
| | Sample_data_processing | RMA normalization with RMAExpress software (http://rmaexpress.bmbolstad.com) using background adjustment, quantile normalization and median polish summarization.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Susan,K.,Murphy
| | Sample_contact_department | Obstetrics and Gynecology
| | Sample_contact_institute | Duke University Medical Center
| | Sample_contact_address | B226 LSRC B Wing, Research Drive, Box 91012
| | Sample_contact_city | Durham
| | Sample_contact_state | NC
| | Sample_contact_zip/postal_code | 27708
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM624nnn/GSM624168/suppl/GSM624168.CEL.gz
| | Sample_series_id | GSE25427
| | Sample_series_id | GSE25429
| | Sample_data_row_count | 54613
| | |
|
GSM624169 | GPL570 |
|
OC7_Aza
|
endometrioid ovarian cancer cells, treated with 5-AzaC
|
tissue: ovary
cell type: endometrioid ovarian cancer cells
gender: female
treatment: 5-azacytidine (5-AzaC)
|
OC7-AZA_8394
|
| Sample_geo_accession | GSM624169
| | Sample_status | Public on Nov 17 2010
| | Sample_submission_date | Nov 16 2010
| | Sample_last_update_date | Sep 16 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | When confluent, cells underwent selective trypsinization to remove fibroblasts and were divided into two dishes and grown until ~70% confluent, at which time they were mock treated or treated with 5 µM 5-azacytidine (5-azaC) for 72 hours. Normal OSE (NO) cells were similarly treated, but due to small numbers of cells, we pooled specimens from five individuals to use for each of the arrays. All specimen cultures were analyzed by immunocytochemical staining using anti-cytokeratin antibodies; only cultures with >90% epithelial content were used for the microarrays.
| | Sample_growth_protocol_ch1 | Cells were grown in a 1:1 mixture of Medium 199 and MCDB 105 medium with 15% FBS in a humidifed incubator maintained at 37 degrees Celsius with 5% CO2 until confluent.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA Stat-60.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Affymetrix one cycle IVT.
| | Sample_hyb_protocol | Standard Affymetrix protocol.
| | Sample_scan_protocol | Standard Affymetrix protocol.
| | Sample_data_processing | RMA normalization with RMAExpress software (http://rmaexpress.bmbolstad.com) using background adjustment, quantile normalization and median polish summarization.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Susan,K.,Murphy
| | Sample_contact_department | Obstetrics and Gynecology
| | Sample_contact_institute | Duke University Medical Center
| | Sample_contact_address | B226 LSRC B Wing, Research Drive, Box 91012
| | Sample_contact_city | Durham
| | Sample_contact_state | NC
| | Sample_contact_zip/postal_code | 27708
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM624nnn/GSM624169/suppl/GSM624169.CEL.gz
| | Sample_series_id | GSE25427
| | Sample_series_id | GSE25429
| | Sample_data_row_count | 54613
| | |
|
GSM624170 | GPL570 |
|
OC10_Aza
|
serous epithelial ovarian cancer cells, treated with 5-AzaC
|
tissue: ovary
cell type: serous epithelial ovarian cancer cells
gender: female
treatment: 5-azacytidine (5-AzaC)
|
OC10-AZA_8982
|
| Sample_geo_accession | GSM624170
| | Sample_status | Public on Nov 17 2010
| | Sample_submission_date | Nov 16 2010
| | Sample_last_update_date | Sep 16 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | When confluent, cells underwent selective trypsinization to remove fibroblasts and were divided into two dishes and grown until ~70% confluent, at which time they were mock treated or treated with 5 µM 5-azacytidine (5-azaC) for 72 hours. Normal OSE (NO) cells were similarly treated, but due to small numbers of cells, we pooled specimens from five individuals to use for each of the arrays. All specimen cultures were analyzed by immunocytochemical staining using anti-cytokeratin antibodies; only cultures with >90% epithelial content were used for the microarrays.
| | Sample_growth_protocol_ch1 | Cells were grown in a 1:1 mixture of Medium 199 and MCDB 105 medium with 15% FBS in a humidifed incubator maintained at 37 degrees Celsius with 5% CO2 until confluent.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA Stat-60.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Affymetrix one cycle IVT.
| | Sample_hyb_protocol | Standard Affymetrix protocol.
| | Sample_scan_protocol | Standard Affymetrix protocol.
| | Sample_data_processing | RMA normalization with RMAExpress software (http://rmaexpress.bmbolstad.com) using background adjustment, quantile normalization and median polish summarization.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Susan,K.,Murphy
| | Sample_contact_department | Obstetrics and Gynecology
| | Sample_contact_institute | Duke University Medical Center
| | Sample_contact_address | B226 LSRC B Wing, Research Drive, Box 91012
| | Sample_contact_city | Durham
| | Sample_contact_state | NC
| | Sample_contact_zip/postal_code | 27708
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM624nnn/GSM624170/suppl/GSM624170.CEL.gz
| | Sample_series_id | GSE25427
| | Sample_series_id | GSE25429
| | Sample_data_row_count | 54613
| | |
|
GSM624171 | GPL570 |
|
OC14_Aza
|
serous epithelial ovarian cancer cells, treated with 5-AzaC
|
tissue: ovary
cell type: serous epithelial ovarian cancer cells
gender: female
treatment: 5-azacytidine (5-AzaC)
|
OC14-AZA_8869
|
| Sample_geo_accession | GSM624171
| | Sample_status | Public on Nov 17 2010
| | Sample_submission_date | Nov 16 2010
| | Sample_last_update_date | Sep 16 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | When confluent, cells underwent selective trypsinization to remove fibroblasts and were divided into two dishes and grown until ~70% confluent, at which time they were mock treated or treated with 5 µM 5-azacytidine (5-azaC) for 72 hours. Normal OSE (NO) cells were similarly treated, but due to small numbers of cells, we pooled specimens from five individuals to use for each of the arrays. All specimen cultures were analyzed by immunocytochemical staining using anti-cytokeratin antibodies; only cultures with >90% epithelial content were used for the microarrays.
| | Sample_growth_protocol_ch1 | Cells were grown in a 1:1 mixture of Medium 199 and MCDB 105 medium with 15% FBS in a humidifed incubator maintained at 37 degrees Celsius with 5% CO2 until confluent.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA Stat-60.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Affymetrix one cycle IVT.
| | Sample_hyb_protocol | Standard Affymetrix protocol.
| | Sample_scan_protocol | Standard Affymetrix protocol.
| | Sample_data_processing | RMA normalization with RMAExpress software (http://rmaexpress.bmbolstad.com) using background adjustment, quantile normalization and median polish summarization.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Susan,K.,Murphy
| | Sample_contact_department | Obstetrics and Gynecology
| | Sample_contact_institute | Duke University Medical Center
| | Sample_contact_address | B226 LSRC B Wing, Research Drive, Box 91012
| | Sample_contact_city | Durham
| | Sample_contact_state | NC
| | Sample_contact_zip/postal_code | 27708
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM624nnn/GSM624171/suppl/GSM624171.CEL.gz
| | Sample_series_id | GSE25427
| | Sample_series_id | GSE25429
| | Sample_data_row_count | 54613
| | |
|
GSM624172 | GPL570 |
|
OC15_Aza
|
serous epithelial ovarian cancer cells, treated with 5-AzaC
|
tissue: ovary
cell type: serous epithelial ovarian cancer cells
gender: female
treatment: 5-azacytidine (5-AzaC)
|
OC15-AZA_8875
|
| Sample_geo_accession | GSM624172
| | Sample_status | Public on Nov 17 2010
| | Sample_submission_date | Nov 16 2010
| | Sample_last_update_date | Sep 16 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | When confluent, cells underwent selective trypsinization to remove fibroblasts and were divided into two dishes and grown until ~70% confluent, at which time they were mock treated or treated with 5 µM 5-azacytidine (5-azaC) for 72 hours. Normal OSE (NO) cells were similarly treated, but due to small numbers of cells, we pooled specimens from five individuals to use for each of the arrays. All specimen cultures were analyzed by immunocytochemical staining using anti-cytokeratin antibodies; only cultures with >90% epithelial content were used for the microarrays.
| | Sample_growth_protocol_ch1 | Cells were grown in a 1:1 mixture of Medium 199 and MCDB 105 medium with 15% FBS in a humidifed incubator maintained at 37 degrees Celsius with 5% CO2 until confluent.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA Stat-60.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Affymetrix one cycle IVT.
| | Sample_hyb_protocol | Standard Affymetrix protocol.
| | Sample_scan_protocol | Standard Affymetrix protocol.
| | Sample_data_processing | RMA normalization with RMAExpress software (http://rmaexpress.bmbolstad.com) using background adjustment, quantile normalization and median polish summarization.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Susan,K.,Murphy
| | Sample_contact_department | Obstetrics and Gynecology
| | Sample_contact_institute | Duke University Medical Center
| | Sample_contact_address | B226 LSRC B Wing, Research Drive, Box 91012
| | Sample_contact_city | Durham
| | Sample_contact_state | NC
| | Sample_contact_zip/postal_code | 27708
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM624nnn/GSM624172/suppl/GSM624172.CEL.gz
| | Sample_series_id | GSE25427
| | Sample_series_id | GSE25429
| | Sample_data_row_count | 54613
| | |
|
GSM624173 | GPL570 |
|
OC16_Aza
|
serous epithelial ovarian cancer cells, treated with 5-AzaC
|
tissue: ovary
cell type: serous epithelial ovarian cancer cells
gender: female
treatment: 5-azacytidine (5-AzaC)
|
OC16-AZA_8872
|
| Sample_geo_accession | GSM624173
| | Sample_status | Public on Nov 17 2010
| | Sample_submission_date | Nov 16 2010
| | Sample_last_update_date | Sep 16 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | When confluent, cells underwent selective trypsinization to remove fibroblasts and were divided into two dishes and grown until ~70% confluent, at which time they were mock treated or treated with 5 µM 5-azacytidine (5-azaC) for 72 hours. Normal OSE (NO) cells were similarly treated, but due to small numbers of cells, we pooled specimens from five individuals to use for each of the arrays. All specimen cultures were analyzed by immunocytochemical staining using anti-cytokeratin antibodies; only cultures with >90% epithelial content were used for the microarrays.
| | Sample_growth_protocol_ch1 | Cells were grown in a 1:1 mixture of Medium 199 and MCDB 105 medium with 15% FBS in a humidifed incubator maintained at 37 degrees Celsius with 5% CO2 until confluent.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA Stat-60.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Affymetrix one cycle IVT.
| | Sample_hyb_protocol | Standard Affymetrix protocol.
| | Sample_scan_protocol | Standard Affymetrix protocol.
| | Sample_data_processing | RMA normalization with RMAExpress software (http://rmaexpress.bmbolstad.com) using background adjustment, quantile normalization and median polish summarization.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Susan,K.,Murphy
| | Sample_contact_department | Obstetrics and Gynecology
| | Sample_contact_institute | Duke University Medical Center
| | Sample_contact_address | B226 LSRC B Wing, Research Drive, Box 91012
| | Sample_contact_city | Durham
| | Sample_contact_state | NC
| | Sample_contact_zip/postal_code | 27708
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM624nnn/GSM624173/suppl/GSM624173.CEL.gz
| | Sample_series_id | GSE25427
| | Sample_series_id | GSE25429
| | Sample_data_row_count | 54613
| | |
|
GSM624174 | GPL570 |
|
OC18_Aza
|
serous epithelial ovarian cancer cells, treated with 5-AzaC
|
tissue: ovary
cell type: serous epithelial ovarian cancer cells
gender: female
treatment: 5-azacytidine (5-AzaC)
|
OC18-AZA_8874
|
| Sample_geo_accession | GSM624174
| | Sample_status | Public on Nov 17 2010
| | Sample_submission_date | Nov 16 2010
| | Sample_last_update_date | Sep 16 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | When confluent, cells underwent selective trypsinization to remove fibroblasts and were divided into two dishes and grown until ~70% confluent, at which time they were mock treated or treated with 5 µM 5-azacytidine (5-azaC) for 72 hours. Normal OSE (NO) cells were similarly treated, but due to small numbers of cells, we pooled specimens from five individuals to use for each of the arrays. All specimen cultures were analyzed by immunocytochemical staining using anti-cytokeratin antibodies; only cultures with >90% epithelial content were used for the microarrays.
| | Sample_growth_protocol_ch1 | Cells were grown in a 1:1 mixture of Medium 199 and MCDB 105 medium with 15% FBS in a humidifed incubator maintained at 37 degrees Celsius with 5% CO2 until confluent.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA Stat-60.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Affymetrix one cycle IVT.
| | Sample_hyb_protocol | Standard Affymetrix protocol.
| | Sample_scan_protocol | Standard Affymetrix protocol.
| | Sample_data_processing | RMA normalization with RMAExpress software (http://rmaexpress.bmbolstad.com) using background adjustment, quantile normalization and median polish summarization.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Susan,K.,Murphy
| | Sample_contact_department | Obstetrics and Gynecology
| | Sample_contact_institute | Duke University Medical Center
| | Sample_contact_address | B226 LSRC B Wing, Research Drive, Box 91012
| | Sample_contact_city | Durham
| | Sample_contact_state | NC
| | Sample_contact_zip/postal_code | 27708
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM624nnn/GSM624174/suppl/GSM624174.CEL.gz
| | Sample_series_id | GSE25427
| | Sample_series_id | GSE25429
| | Sample_data_row_count | 54613
| | |
|
GSM624175 | GPL570 |
|
OC20_Aza
|
serous epithelial ovarian cancer cells, treated with 5-AzaC
|
tissue: ovary
cell type: serous epithelial ovarian cancer cells
gender: female
treatment: 5-azacytidine (5-AzaC)
|
OC20-AZA_9742
|
| Sample_geo_accession | GSM624175
| | Sample_status | Public on Nov 17 2010
| | Sample_submission_date | Nov 16 2010
| | Sample_last_update_date | Sep 16 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | When confluent, cells underwent selective trypsinization to remove fibroblasts and were divided into two dishes and grown until ~70% confluent, at which time they were mock treated or treated with 5 µM 5-azacytidine (5-azaC) for 72 hours. Normal OSE (NO) cells were similarly treated, but due to small numbers of cells, we pooled specimens from five individuals to use for each of the arrays. All specimen cultures were analyzed by immunocytochemical staining using anti-cytokeratin antibodies; only cultures with >90% epithelial content were used for the microarrays.
| | Sample_growth_protocol_ch1 | Cells were grown in a 1:1 mixture of Medium 199 and MCDB 105 medium with 15% FBS in a humidifed incubator maintained at 37 degrees Celsius with 5% CO2 until confluent.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA Stat-60.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Affymetrix one cycle IVT.
| | Sample_hyb_protocol | Standard Affymetrix protocol.
| | Sample_scan_protocol | Standard Affymetrix protocol.
| | Sample_data_processing | RMA normalization with RMAExpress software (http://rmaexpress.bmbolstad.com) using background adjustment, quantile normalization and median polish summarization.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Susan,K.,Murphy
| | Sample_contact_department | Obstetrics and Gynecology
| | Sample_contact_institute | Duke University Medical Center
| | Sample_contact_address | B226 LSRC B Wing, Research Drive, Box 91012
| | Sample_contact_city | Durham
| | Sample_contact_state | NC
| | Sample_contact_zip/postal_code | 27708
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM624nnn/GSM624175/suppl/GSM624175.CEL.gz
| | Sample_series_id | GSE25427
| | Sample_series_id | GSE25429
| | Sample_data_row_count | 54613
| | |
|
GSM624176 | GPL570 |
|
OC22_Aza
|
serous epithelial ovarian cancer cells, treated with 5-AzaC
|
tissue: ovary
cell type: serous epithelial ovarian cancer cells
gender: female
treatment: 5-azacytidine (5-AzaC)
|
OC22-AZA_9744
|
| Sample_geo_accession | GSM624176
| | Sample_status | Public on Nov 17 2010
| | Sample_submission_date | Nov 16 2010
| | Sample_last_update_date | Sep 16 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | When confluent, cells underwent selective trypsinization to remove fibroblasts and were divided into two dishes and grown until ~70% confluent, at which time they were mock treated or treated with 5 µM 5-azacytidine (5-azaC) for 72 hours. Normal OSE (NO) cells were similarly treated, but due to small numbers of cells, we pooled specimens from five individuals to use for each of the arrays. All specimen cultures were analyzed by immunocytochemical staining using anti-cytokeratin antibodies; only cultures with >90% epithelial content were used for the microarrays.
| | Sample_growth_protocol_ch1 | Cells were grown in a 1:1 mixture of Medium 199 and MCDB 105 medium with 15% FBS in a humidifed incubator maintained at 37 degrees Celsius with 5% CO2 until confluent.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA Stat-60.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Affymetrix one cycle IVT.
| | Sample_hyb_protocol | Standard Affymetrix protocol.
| | Sample_scan_protocol | Standard Affymetrix protocol.
| | Sample_data_processing | RMA normalization with RMAExpress software (http://rmaexpress.bmbolstad.com) using background adjustment, quantile normalization and median polish summarization.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Susan,K.,Murphy
| | Sample_contact_department | Obstetrics and Gynecology
| | Sample_contact_institute | Duke University Medical Center
| | Sample_contact_address | B226 LSRC B Wing, Research Drive, Box 91012
| | Sample_contact_city | Durham
| | Sample_contact_state | NC
| | Sample_contact_zip/postal_code | 27708
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM624nnn/GSM624176/suppl/GSM624176.CEL.gz
| | Sample_series_id | GSE25427
| | Sample_series_id | GSE25429
| | Sample_data_row_count | 54613
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GSM624177 | GPL570 |
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OC26_Aza
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serous epithelial ovarian cancer cells, treated with 5-AzaC
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tissue: ovary
cell type: serous epithelial ovarian cancer cells
gender: female
treatment: 5-azacytidine (5-AzaC)
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OC26-AZA_9746
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| Sample_geo_accession | GSM624177
| | Sample_status | Public on Nov 17 2010
| | Sample_submission_date | Nov 16 2010
| | Sample_last_update_date | Sep 16 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | When confluent, cells underwent selective trypsinization to remove fibroblasts and were divided into two dishes and grown until ~70% confluent, at which time they were mock treated or treated with 5 µM 5-azacytidine (5-azaC) for 72 hours. Normal OSE (NO) cells were similarly treated, but due to small numbers of cells, we pooled specimens from five individuals to use for each of the arrays. All specimen cultures were analyzed by immunocytochemical staining using anti-cytokeratin antibodies; only cultures with >90% epithelial content were used for the microarrays.
| | Sample_growth_protocol_ch1 | Cells were grown in a 1:1 mixture of Medium 199 and MCDB 105 medium with 15% FBS in a humidifed incubator maintained at 37 degrees Celsius with 5% CO2 until confluent.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA Stat-60.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Affymetrix one cycle IVT.
| | Sample_hyb_protocol | Standard Affymetrix protocol.
| | Sample_scan_protocol | Standard Affymetrix protocol.
| | Sample_data_processing | RMA normalization with RMAExpress software (http://rmaexpress.bmbolstad.com) using background adjustment, quantile normalization and median polish summarization.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Susan,K.,Murphy
| | Sample_contact_department | Obstetrics and Gynecology
| | Sample_contact_institute | Duke University Medical Center
| | Sample_contact_address | B226 LSRC B Wing, Research Drive, Box 91012
| | Sample_contact_city | Durham
| | Sample_contact_state | NC
| | Sample_contact_zip/postal_code | 27708
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM624nnn/GSM624177/suppl/GSM624177.CEL.gz
| | Sample_series_id | GSE25427
| | Sample_series_id | GSE25429
| | Sample_data_row_count | 54613
| | |
|
GSM624178 | GPL570 |
|
OC27_Aza
|
serous epithelial ovarian cancer cells, treated with 5-AzaC
|
tissue: ovary
cell type: serous epithelial ovarian cancer cells
gender: female
treatment: 5-azacytidine (5-AzaC)
|
OC27-AZA_9748
|
| Sample_geo_accession | GSM624178
| | Sample_status | Public on Nov 17 2010
| | Sample_submission_date | Nov 16 2010
| | Sample_last_update_date | Sep 16 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | When confluent, cells underwent selective trypsinization to remove fibroblasts and were divided into two dishes and grown until ~70% confluent, at which time they were mock treated or treated with 5 µM 5-azacytidine (5-azaC) for 72 hours. Normal OSE (NO) cells were similarly treated, but due to small numbers of cells, we pooled specimens from five individuals to use for each of the arrays. All specimen cultures were analyzed by immunocytochemical staining using anti-cytokeratin antibodies; only cultures with >90% epithelial content were used for the microarrays.
| | Sample_growth_protocol_ch1 | Cells were grown in a 1:1 mixture of Medium 199 and MCDB 105 medium with 15% FBS in a humidifed incubator maintained at 37 degrees Celsius with 5% CO2 until confluent.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA Stat-60.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Affymetrix one cycle IVT.
| | Sample_hyb_protocol | Standard Affymetrix protocol.
| | Sample_scan_protocol | Standard Affymetrix protocol.
| | Sample_data_processing | RMA normalization with RMAExpress software (http://rmaexpress.bmbolstad.com) using background adjustment, quantile normalization and median polish summarization.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Susan,K.,Murphy
| | Sample_contact_department | Obstetrics and Gynecology
| | Sample_contact_institute | Duke University Medical Center
| | Sample_contact_address | B226 LSRC B Wing, Research Drive, Box 91012
| | Sample_contact_city | Durham
| | Sample_contact_state | NC
| | Sample_contact_zip/postal_code | 27708
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM624nnn/GSM624178/suppl/GSM624178.CEL.gz
| | Sample_series_id | GSE25427
| | Sample_series_id | GSE25429
| | Sample_data_row_count | 54613
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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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