Search results for the GEO ID: GSE18552  |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM460255 | GPL570 |
|
A2780 untreated, rep1
|
A2780, untreated
|
cell line: A2780
cell type: adenocarcinoma ovary
treatment: Untreated
|
Gene expression data from A2780 untreated.
|
| Sample_geo_accession | GSM460255
| | Sample_status | Public on Jul 14 2010
| | Sample_submission_date | Oct 08 2009
| | Sample_last_update_date | Jul 09 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | 24 hours after seeding, cells were treated with different compounds at a dose equal to 5 time the IC50 for 6 hours and collected using Qiagen lysis buffer RLT (Qiagen cat no. 79216).
| | Sample_growth_protocol_ch1 | A2780 (human adenocarcinoma ovary) from ECACC were seeded in T-75 tissue culture flasks (Corning), 25.000 cells/cm2 in RPMI 1640 (Gibco), pH 7.4, 10% FBS (EUROCLONE Australia-USDA approved, cat. ECSO170D, lot.EUS003383), 2mM L-Glutamine (Gibco), 1x Penicillin-Streptomycin (Gibco) and maintained in 5% CO2 at 37°C with 96% relative humidity.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using Qiagen Rneasy kit (Qiagen cat. no. 74104), starting from total cell lysates.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin-labeled, fragmented cRNA probes were prepared starting from 1.5 µg of total RNA per replicate sample, using the ‘One-Cycle Target Labeling and Control Reagents’ (Affymetrix, Santa Clara, CA) according to the protocols included in the Affymetrix GeneChip Expression Analysis Technical Manual (www.affymetrix.com).
| | Sample_hyb_protocol | Samples were hybridized onto Affymetrix GeneChip® Human Genome U133 Plus 2.0 Arrays and processed as manufacturer’s instructions using ‘GeneChip® Hybridization, Wash, and Stain Kit’ components (Affymetrix, Santa Clara, CA).
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip® Scanner 3000.
| | Sample_data_processing | Scanned images were first inspected for quality control (QC) using a variety of built-in QC tools from the Bioconductor package [www.bioconductor.org] of R, the open source environment for statistical analysis. Feature intensity values from scanned arrays were normalised and reduced to expression summaries using MAS5 implemented in the R statistical environment.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Roberta,,Bosotti
| | Sample_contact_email | roberta.bosotti@nervianoms.com
| | Sample_contact_laboratory | Genomics
| | Sample_contact_department | Biotechnology
| | Sample_contact_institute | Nerviano Medical Sciences srl
| | Sample_contact_address | viale Pasteur,10
| | Sample_contact_city | Nerviano
| | Sample_contact_state | MI
| | Sample_contact_zip/postal_code | 20014
| | Sample_contact_country | Italy
| | Sample_contact_web_link | http://www.nervianoms.com/cont/en/
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM460nnn/GSM460255/suppl/GSM460255.CEL.gz
| | Sample_series_id | GSE18486
| | Sample_series_id | GSE18552
| | Sample_data_row_count | 54675
| | |
|
GSM460256 | GPL570 |
|
A2780 untreated, rep2
|
A2780, untreated
|
cell line: A2780
cell type: adenocarcinoma ovary
treatment: Untreated
|
Gene expression data from A2780 untreated.
|
| Sample_geo_accession | GSM460256
| | Sample_status | Public on Jul 14 2010
| | Sample_submission_date | Oct 08 2009
| | Sample_last_update_date | Jul 09 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | 24 hours after seeding, cells were treated with different compounds at a dose equal to 5 time the IC50 for 6 hours and collected using Qiagen lysis buffer RLT (Qiagen cat no. 79216).
| | Sample_growth_protocol_ch1 | A2780 (human adenocarcinoma ovary) from ECACC were seeded in T-75 tissue culture flasks (Corning), 25.000 cells/cm2 in RPMI 1640 (Gibco), pH 7.4, 10% FBS (EUROCLONE Australia-USDA approved, cat. ECSO170D, lot.EUS003383), 2mM L-Glutamine (Gibco), 1x Penicillin-Streptomycin (Gibco) and maintained in 5% CO2 at 37°C with 96% relative humidity.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using Qiagen Rneasy kit (Qiagen cat. no. 74104), starting from total cell lysates.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin-labeled, fragmented cRNA probes were prepared starting from 1.5 µg of total RNA per replicate sample, using the ‘One-Cycle Target Labeling and Control Reagents’ (Affymetrix, Santa Clara, CA) according to the protocols included in the Affymetrix GeneChip Expression Analysis Technical Manual (www.affymetrix.com).
| | Sample_hyb_protocol | Samples were hybridized onto Affymetrix GeneChip® Human Genome U133 Plus 2.0 Arrays and processed as manufacturer’s instructions using ‘GeneChip® Hybridization, Wash, and Stain Kit’ components (Affymetrix, Santa Clara, CA).
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip® Scanner 3000.
| | Sample_data_processing | Scanned images were first inspected for quality control (QC) using a variety of built-in QC tools from the Bioconductor package [www.bioconductor.org] of R, the open source environment for statistical analysis. Feature intensity values from scanned arrays were normalised and reduced to expression summaries using MAS5 implemented in the R statistical environment.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Roberta,,Bosotti
| | Sample_contact_email | roberta.bosotti@nervianoms.com
| | Sample_contact_laboratory | Genomics
| | Sample_contact_department | Biotechnology
| | Sample_contact_institute | Nerviano Medical Sciences srl
| | Sample_contact_address | viale Pasteur,10
| | Sample_contact_city | Nerviano
| | Sample_contact_state | MI
| | Sample_contact_zip/postal_code | 20014
| | Sample_contact_country | Italy
| | Sample_contact_web_link | http://www.nervianoms.com/cont/en/
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM460nnn/GSM460256/suppl/GSM460256.CEL.gz
| | Sample_series_id | GSE18486
| | Sample_series_id | GSE18552
| | Sample_data_row_count | 54675
| | |
|
GSM460257 | GPL570 |
|
A2780 untreated, rep3
|
A2780, untreated
|
cell line: A2780
cell type: adenocarcinoma ovary
treatment: Untreated
|
Gene expression data from A2780 untreated.
|
| Sample_geo_accession | GSM460257
| | Sample_status | Public on Jul 14 2010
| | Sample_submission_date | Oct 08 2009
| | Sample_last_update_date | Jul 09 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | 24 hours after seeding, cells were treated with different compounds at a dose equal to 5 time the IC50 for 6 hours and collected using Qiagen lysis buffer RLT (Qiagen cat no. 79216).
| | Sample_growth_protocol_ch1 | A2780 (human adenocarcinoma ovary) from ECACC were seeded in T-75 tissue culture flasks (Corning), 25.000 cells/cm2 in RPMI 1640 (Gibco), pH 7.4, 10% FBS (EUROCLONE Australia-USDA approved, cat. ECSO170D, lot.EUS003383), 2mM L-Glutamine (Gibco), 1x Penicillin-Streptomycin (Gibco) and maintained in 5% CO2 at 37°C with 96% relative humidity.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using Qiagen Rneasy kit (Qiagen cat. no. 74104), starting from total cell lysates.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin-labeled, fragmented cRNA probes were prepared starting from 1.5 µg of total RNA per replicate sample, using the ‘One-Cycle Target Labeling and Control Reagents’ (Affymetrix, Santa Clara, CA) according to the protocols included in the Affymetrix GeneChip Expression Analysis Technical Manual (www.affymetrix.com).
| | Sample_hyb_protocol | Samples were hybridized onto Affymetrix GeneChip® Human Genome U133 Plus 2.0 Arrays and processed as manufacturer’s instructions using ‘GeneChip® Hybridization, Wash, and Stain Kit’ components (Affymetrix, Santa Clara, CA).
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip® Scanner 3000.
| | Sample_data_processing | Scanned images were first inspected for quality control (QC) using a variety of built-in QC tools from the Bioconductor package [www.bioconductor.org] of R, the open source environment for statistical analysis. Feature intensity values from scanned arrays were normalised and reduced to expression summaries using MAS5 implemented in the R statistical environment.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Roberta,,Bosotti
| | Sample_contact_email | roberta.bosotti@nervianoms.com
| | Sample_contact_laboratory | Genomics
| | Sample_contact_department | Biotechnology
| | Sample_contact_institute | Nerviano Medical Sciences srl
| | Sample_contact_address | viale Pasteur,10
| | Sample_contact_city | Nerviano
| | Sample_contact_state | MI
| | Sample_contact_zip/postal_code | 20014
| | Sample_contact_country | Italy
| | Sample_contact_web_link | http://www.nervianoms.com/cont/en/
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM460nnn/GSM460257/suppl/GSM460257.CEL.gz
| | Sample_series_id | GSE18486
| | Sample_series_id | GSE18552
| | Sample_data_row_count | 54675
| | |
|
GSM460258 | GPL570 |
|
A2780 treated with CDk-125, rep1
|
A2780, CDk-125
|
cell line: A2780
cell type: adenocarcinoma ovary
treatment: CDk-125
|
Gene expression data from A2780 treated with CDK-125.
|
| Sample_geo_accession | GSM460258
| | Sample_status | Public on Jul 14 2010
| | Sample_submission_date | Oct 08 2009
| | Sample_last_update_date | Jul 09 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | 24 hours after seeding, cells were treated with different compounds at a dose equal to 5 time the IC50 for 6 hours and collected using Qiagen lysis buffer RLT (Qiagen cat no. 79216).
| | Sample_growth_protocol_ch1 | A2780 (human adenocarcinoma ovary) from ECACC were seeded in T-75 tissue culture flasks (Corning), 25.000 cells/cm2 in RPMI 1640 (Gibco), pH 7.4, 10% FBS (EUROCLONE Australia-USDA approved, cat. ECSO170D, lot.EUS003383), 2mM L-Glutamine (Gibco), 1x Penicillin-Streptomycin (Gibco) and maintained in 5% CO2 at 37°C with 96% relative humidity.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using Qiagen Rneasy kit (Qiagen cat. no. 74104), starting from total cell lysates.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin-labeled, fragmented cRNA probes were prepared starting from 1.5 µg of total RNA per replicate sample, using the ‘One-Cycle Target Labeling and Control Reagents’ (Affymetrix, Santa Clara, CA) according to the protocols included in the Affymetrix GeneChip Expression Analysis Technical Manual (www.affymetrix.com).
| | Sample_hyb_protocol | Samples were hybridized onto Affymetrix GeneChip® Human Genome U133 Plus 2.0 Arrays and processed as manufacturer’s instructions using ‘GeneChip® Hybridization, Wash, and Stain Kit’ components (Affymetrix, Santa Clara, CA).
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip® Scanner 3000.
| | Sample_data_processing | Scanned images were first inspected for quality control (QC) using a variety of built-in QC tools from the Bioconductor package [www.bioconductor.org] of R, the open source environment for statistical analysis. Feature intensity values from scanned arrays were normalised and reduced to expression summaries using MAS5 implemented in the R statistical environment.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Roberta,,Bosotti
| | Sample_contact_email | roberta.bosotti@nervianoms.com
| | Sample_contact_laboratory | Genomics
| | Sample_contact_department | Biotechnology
| | Sample_contact_institute | Nerviano Medical Sciences srl
| | Sample_contact_address | viale Pasteur,10
| | Sample_contact_city | Nerviano
| | Sample_contact_state | MI
| | Sample_contact_zip/postal_code | 20014
| | Sample_contact_country | Italy
| | Sample_contact_web_link | http://www.nervianoms.com/cont/en/
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM460nnn/GSM460258/suppl/GSM460258.CEL.gz
| | Sample_series_id | GSE18486
| | Sample_series_id | GSE18552
| | Sample_data_row_count | 54675
| | |
|
GSM460259 | GPL570 |
|
A2780 treated with CDk-125, rep2
|
A2780, CDk-125
|
cell line: A2780
cell type: adenocarcinoma ovary
treatment: CDk-125
|
Gene expression data from A2780 treated with CDK-125.
|
| Sample_geo_accession | GSM460259
| | Sample_status | Public on Jul 14 2010
| | Sample_submission_date | Oct 08 2009
| | Sample_last_update_date | Jul 09 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | 24 hours after seeding, cells were treated with different compounds at a dose equal to 5 time the IC50 for 6 hours and collected using Qiagen lysis buffer RLT (Qiagen cat no. 79216).
| | Sample_growth_protocol_ch1 | A2780 (human adenocarcinoma ovary) from ECACC were seeded in T-75 tissue culture flasks (Corning), 25.000 cells/cm2 in RPMI 1640 (Gibco), pH 7.4, 10% FBS (EUROCLONE Australia-USDA approved, cat. ECSO170D, lot.EUS003383), 2mM L-Glutamine (Gibco), 1x Penicillin-Streptomycin (Gibco) and maintained in 5% CO2 at 37°C with 96% relative humidity.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using Qiagen Rneasy kit (Qiagen cat. no. 74104), starting from total cell lysates.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin-labeled, fragmented cRNA probes were prepared starting from 1.5 µg of total RNA per replicate sample, using the ‘One-Cycle Target Labeling and Control Reagents’ (Affymetrix, Santa Clara, CA) according to the protocols included in the Affymetrix GeneChip Expression Analysis Technical Manual (www.affymetrix.com).
| | Sample_hyb_protocol | Samples were hybridized onto Affymetrix GeneChip® Human Genome U133 Plus 2.0 Arrays and processed as manufacturer’s instructions using ‘GeneChip® Hybridization, Wash, and Stain Kit’ components (Affymetrix, Santa Clara, CA).
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip® Scanner 3000.
| | Sample_data_processing | Scanned images were first inspected for quality control (QC) using a variety of built-in QC tools from the Bioconductor package [www.bioconductor.org] of R, the open source environment for statistical analysis. Feature intensity values from scanned arrays were normalised and reduced to expression summaries using MAS5 implemented in the R statistical environment.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Roberta,,Bosotti
| | Sample_contact_email | roberta.bosotti@nervianoms.com
| | Sample_contact_laboratory | Genomics
| | Sample_contact_department | Biotechnology
| | Sample_contact_institute | Nerviano Medical Sciences srl
| | Sample_contact_address | viale Pasteur,10
| | Sample_contact_city | Nerviano
| | Sample_contact_state | MI
| | Sample_contact_zip/postal_code | 20014
| | Sample_contact_country | Italy
| | Sample_contact_web_link | http://www.nervianoms.com/cont/en/
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM460nnn/GSM460259/suppl/GSM460259.CEL.gz
| | Sample_series_id | GSE18486
| | Sample_series_id | GSE18552
| | Sample_data_row_count | 54675
| | |
|
GSM460260 | GPL570 |
|
A2780 treated with CDk-125, rep3
|
A2780, CDk-125
|
cell line: A2780
cell type: adenocarcinoma ovary
treatment: CDk-125
|
Gene expression data from A2780 treated with CDK-125.
|
| Sample_geo_accession | GSM460260
| | Sample_status | Public on Jul 14 2010
| | Sample_submission_date | Oct 08 2009
| | Sample_last_update_date | Jul 09 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | 24 hours after seeding, cells were treated with different compounds at a dose equal to 5 time the IC50 for 6 hours and collected using Qiagen lysis buffer RLT (Qiagen cat no. 79216).
| | Sample_growth_protocol_ch1 | A2780 (human adenocarcinoma ovary) from ECACC were seeded in T-75 tissue culture flasks (Corning), 25.000 cells/cm2 in RPMI 1640 (Gibco), pH 7.4, 10% FBS (EUROCLONE Australia-USDA approved, cat. ECSO170D, lot.EUS003383), 2mM L-Glutamine (Gibco), 1x Penicillin-Streptomycin (Gibco) and maintained in 5% CO2 at 37°C with 96% relative humidity.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using Qiagen Rneasy kit (Qiagen cat. no. 74104), starting from total cell lysates.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin-labeled, fragmented cRNA probes were prepared starting from 1.5 µg of total RNA per replicate sample, using the ‘One-Cycle Target Labeling and Control Reagents’ (Affymetrix, Santa Clara, CA) according to the protocols included in the Affymetrix GeneChip Expression Analysis Technical Manual (www.affymetrix.com).
| | Sample_hyb_protocol | Samples were hybridized onto Affymetrix GeneChip® Human Genome U133 Plus 2.0 Arrays and processed as manufacturer’s instructions using ‘GeneChip® Hybridization, Wash, and Stain Kit’ components (Affymetrix, Santa Clara, CA).
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip® Scanner 3000.
| | Sample_data_processing | Scanned images were first inspected for quality control (QC) using a variety of built-in QC tools from the Bioconductor package [www.bioconductor.org] of R, the open source environment for statistical analysis. Feature intensity values from scanned arrays were normalised and reduced to expression summaries using MAS5 implemented in the R statistical environment.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Roberta,,Bosotti
| | Sample_contact_email | roberta.bosotti@nervianoms.com
| | Sample_contact_laboratory | Genomics
| | Sample_contact_department | Biotechnology
| | Sample_contact_institute | Nerviano Medical Sciences srl
| | Sample_contact_address | viale Pasteur,10
| | Sample_contact_city | Nerviano
| | Sample_contact_state | MI
| | Sample_contact_zip/postal_code | 20014
| | Sample_contact_country | Italy
| | Sample_contact_web_link | http://www.nervianoms.com/cont/en/
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM460nnn/GSM460260/suppl/GSM460260.CEL.gz
| | Sample_series_id | GSE18486
| | Sample_series_id | GSE18552
| | Sample_data_row_count | 54675
| | |
|
GSM460261 | GPL570 |
|
A2780 treated with CDk-509, rep1
|
A2780, CDk-509
|
cell line: A2780
cell type: adenocarcinoma ovary
treatment: CDk-509
|
Gene expression data from A2780 treated with CDK-509.
|
| Sample_geo_accession | GSM460261
| | Sample_status | Public on Jul 14 2010
| | Sample_submission_date | Oct 08 2009
| | Sample_last_update_date | Jul 09 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | 24 hours after seeding, cells were treated with different compounds at a dose equal to 5 time the IC50 for 6 hours and collected using Qiagen lysis buffer RLT (Qiagen cat no. 79216).
| | Sample_growth_protocol_ch1 | A2780 (human adenocarcinoma ovary) from ECACC were seeded in T-75 tissue culture flasks (Corning), 25.000 cells/cm2 in RPMI 1640 (Gibco), pH 7.4, 10% FBS (EUROCLONE Australia-USDA approved, cat. ECSO170D, lot.EUS003383), 2mM L-Glutamine (Gibco), 1x Penicillin-Streptomycin (Gibco) and maintained in 5% CO2 at 37°C with 96% relative humidity.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using Qiagen Rneasy kit (Qiagen cat. no. 74104), starting from total cell lysates.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin-labeled, fragmented cRNA probes were prepared starting from 1.5 µg of total RNA per replicate sample, using the ‘One-Cycle Target Labeling and Control Reagents’ (Affymetrix, Santa Clara, CA) according to the protocols included in the Affymetrix GeneChip Expression Analysis Technical Manual (www.affymetrix.com).
| | Sample_hyb_protocol | Samples were hybridized onto Affymetrix GeneChip® Human Genome U133 Plus 2.0 Arrays and processed as manufacturer’s instructions using ‘GeneChip® Hybridization, Wash, and Stain Kit’ components (Affymetrix, Santa Clara, CA).
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip® Scanner 3000.
| | Sample_data_processing | Scanned images were first inspected for quality control (QC) using a variety of built-in QC tools from the Bioconductor package [www.bioconductor.org] of R, the open source environment for statistical analysis. Feature intensity values from scanned arrays were normalised and reduced to expression summaries using MAS5 implemented in the R statistical environment.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Roberta,,Bosotti
| | Sample_contact_email | roberta.bosotti@nervianoms.com
| | Sample_contact_laboratory | Genomics
| | Sample_contact_department | Biotechnology
| | Sample_contact_institute | Nerviano Medical Sciences srl
| | Sample_contact_address | viale Pasteur,10
| | Sample_contact_city | Nerviano
| | Sample_contact_state | MI
| | Sample_contact_zip/postal_code | 20014
| | Sample_contact_country | Italy
| | Sample_contact_web_link | http://www.nervianoms.com/cont/en/
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM460nnn/GSM460261/suppl/GSM460261.CEL.gz
| | Sample_series_id | GSE18486
| | Sample_series_id | GSE18552
| | Sample_data_row_count | 54675
| | |
|
GSM460262 | GPL570 |
|
A2780 treated with CDk-509, rep2
|
A2780, CDk-509
|
cell line: A2780
cell type: adenocarcinoma ovary
treatment: CDk-509
|
Gene expression data from A2780 treated with CDK-509.
|
| Sample_geo_accession | GSM460262
| | Sample_status | Public on Jul 14 2010
| | Sample_submission_date | Oct 08 2009
| | Sample_last_update_date | Jul 09 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | 24 hours after seeding, cells were treated with different compounds at a dose equal to 5 time the IC50 for 6 hours and collected using Qiagen lysis buffer RLT (Qiagen cat no. 79216).
| | Sample_growth_protocol_ch1 | A2780 (human adenocarcinoma ovary) from ECACC were seeded in T-75 tissue culture flasks (Corning), 25.000 cells/cm2 in RPMI 1640 (Gibco), pH 7.4, 10% FBS (EUROCLONE Australia-USDA approved, cat. ECSO170D, lot.EUS003383), 2mM L-Glutamine (Gibco), 1x Penicillin-Streptomycin (Gibco) and maintained in 5% CO2 at 37°C with 96% relative humidity.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using Qiagen Rneasy kit (Qiagen cat. no. 74104), starting from total cell lysates.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin-labeled, fragmented cRNA probes were prepared starting from 1.5 µg of total RNA per replicate sample, using the ‘One-Cycle Target Labeling and Control Reagents’ (Affymetrix, Santa Clara, CA) according to the protocols included in the Affymetrix GeneChip Expression Analysis Technical Manual (www.affymetrix.com).
| | Sample_hyb_protocol | Samples were hybridized onto Affymetrix GeneChip® Human Genome U133 Plus 2.0 Arrays and processed as manufacturer’s instructions using ‘GeneChip® Hybridization, Wash, and Stain Kit’ components (Affymetrix, Santa Clara, CA).
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip® Scanner 3000.
| | Sample_data_processing | Scanned images were first inspected for quality control (QC) using a variety of built-in QC tools from the Bioconductor package [www.bioconductor.org] of R, the open source environment for statistical analysis. Feature intensity values from scanned arrays were normalised and reduced to expression summaries using MAS5 implemented in the R statistical environment.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Roberta,,Bosotti
| | Sample_contact_email | roberta.bosotti@nervianoms.com
| | Sample_contact_laboratory | Genomics
| | Sample_contact_department | Biotechnology
| | Sample_contact_institute | Nerviano Medical Sciences srl
| | Sample_contact_address | viale Pasteur,10
| | Sample_contact_city | Nerviano
| | Sample_contact_state | MI
| | Sample_contact_zip/postal_code | 20014
| | Sample_contact_country | Italy
| | Sample_contact_web_link | http://www.nervianoms.com/cont/en/
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM460nnn/GSM460262/suppl/GSM460262.CEL.gz
| | Sample_series_id | GSE18486
| | Sample_series_id | GSE18552
| | Sample_data_row_count | 54675
| | |
|
GSM460263 | GPL570 |
|
A2780 treated with CDk-509, rep3
|
A2780, CDk-509
|
cell line: A2780
cell type: adenocarcinoma ovary
treatment: CDk-509
|
Gene expression data from A2780 treated with CDK-509.
|
| Sample_geo_accession | GSM460263
| | Sample_status | Public on Jul 14 2010
| | Sample_submission_date | Oct 08 2009
| | Sample_last_update_date | Jul 09 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | 24 hours after seeding, cells were treated with different compounds at a dose equal to 5 time the IC50 for 6 hours and collected using Qiagen lysis buffer RLT (Qiagen cat no. 79216).
| | Sample_growth_protocol_ch1 | A2780 (human adenocarcinoma ovary) from ECACC were seeded in T-75 tissue culture flasks (Corning), 25.000 cells/cm2 in RPMI 1640 (Gibco), pH 7.4, 10% FBS (EUROCLONE Australia-USDA approved, cat. ECSO170D, lot.EUS003383), 2mM L-Glutamine (Gibco), 1x Penicillin-Streptomycin (Gibco) and maintained in 5% CO2 at 37°C with 96% relative humidity.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using Qiagen Rneasy kit (Qiagen cat. no. 74104), starting from total cell lysates.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin-labeled, fragmented cRNA probes were prepared starting from 1.5 µg of total RNA per replicate sample, using the ‘One-Cycle Target Labeling and Control Reagents’ (Affymetrix, Santa Clara, CA) according to the protocols included in the Affymetrix GeneChip Expression Analysis Technical Manual (www.affymetrix.com).
| | Sample_hyb_protocol | Samples were hybridized onto Affymetrix GeneChip® Human Genome U133 Plus 2.0 Arrays and processed as manufacturer’s instructions using ‘GeneChip® Hybridization, Wash, and Stain Kit’ components (Affymetrix, Santa Clara, CA).
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip® Scanner 3000.
| | Sample_data_processing | Scanned images were first inspected for quality control (QC) using a variety of built-in QC tools from the Bioconductor package [www.bioconductor.org] of R, the open source environment for statistical analysis. Feature intensity values from scanned arrays were normalised and reduced to expression summaries using MAS5 implemented in the R statistical environment.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Roberta,,Bosotti
| | Sample_contact_email | roberta.bosotti@nervianoms.com
| | Sample_contact_laboratory | Genomics
| | Sample_contact_department | Biotechnology
| | Sample_contact_institute | Nerviano Medical Sciences srl
| | Sample_contact_address | viale Pasteur,10
| | Sample_contact_city | Nerviano
| | Sample_contact_state | MI
| | Sample_contact_zip/postal_code | 20014
| | Sample_contact_country | Italy
| | Sample_contact_web_link | http://www.nervianoms.com/cont/en/
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM460nnn/GSM460263/suppl/GSM460263.CEL.gz
| | Sample_series_id | GSE18486
| | Sample_series_id | GSE18552
| | Sample_data_row_count | 54675
| | |
|
GSM461094 | GPL570 |
|
A2780 untreated cells, rep1
|
A2780, untreated
|
cell line: A2780
cell type: adenocarcinoma ovary
treatment: Untreated
|
Gene expression data from A2780 untreated.
|
| Sample_geo_accession | GSM461094
| | Sample_status | Public on Jul 14 2010
| | Sample_submission_date | Oct 09 2009
| | Sample_last_update_date | Jul 09 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | After 24 hours, cells were treated with the compound at a dose equal to 5 times the IC50 for 6 hours and collected using Qiagen lysis buffer RLT (Qiagen cat no. 79216).
| | Sample_growth_protocol_ch1 | A2780 (human adenocarcinoma ovary) from ECACC were seeded in T-75 tissue culture flasks (Corning), 25.000 cells/cm2 in RPMI 1640 (Gibco), pH 7.4, 10% FBS (EUROCLONE Australia-USDA approved, cat. ECSO170D, lot.EUS003383), 2mM L-Glutamine (Gibco), 1x Penicillin-Streptomycin (Gibco) and maintained in 5% CO2 at 37°C with 96% relative humidity.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using Qiagen Rneasy kit (Qiagen cat. no. 74104), starting from total cell lysates.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin-labeled, fragmented cRNA probes were prepared starting from 1.5 µg of total RNA per replicate sample, using the ‘One-Cycle Target Labeling and Control Reagents’ (Affymetrix, Santa Clara, CA) according to the protocols included in the Affymetrix GeneChip Expression Analysis Technical Manual (www.affymetrix.com).
| | Sample_hyb_protocol | Samples were hybridized onto Affymetrix GeneChip® Human Genome U133 Plus 2.0 Arrays and processed as per manufacturer’s instructions using ‘GeneChip® Hybridization, Wash, and Stain Kit’ components (Affymetrix, Santa Clara, CA).
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip® Scanner 3000.
| | Sample_data_processing | Scanned images were first inspected for quality control (QC) using a variety of built-in QC tools from the Bioconductor package [www.bioconductor.org] of R, the open source environment for statistical analysis. Feature intensity values from scanned arrays were normalised and reduced to expression summaries using MAS5 implemented in the R statistical environment.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Roberta,,Bosotti
| | Sample_contact_email | roberta.bosotti@nervianoms.com
| | Sample_contact_laboratory | Genomics
| | Sample_contact_department | Biotechnology
| | Sample_contact_institute | Nerviano Medical Sciences srl
| | Sample_contact_address | viale Pasteur,10
| | Sample_contact_city | Nerviano
| | Sample_contact_state | MI
| | Sample_contact_zip/postal_code | 20014
| | Sample_contact_country | Italy
| | Sample_contact_web_link | http://www.nervianoms.com/cont/en/
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM461nnn/GSM461094/suppl/GSM461094.CEL.gz
| | Sample_series_id | GSE18498
| | Sample_series_id | GSE18552
| | Sample_data_row_count | 54675
| | |
|
GSM461095 | GPL570 |
|
A2780 untreated cells, rep2
|
A2780, untreated
|
cell line: A2780
cell type: adenocarcinoma ovary
treatment: Untreated
|
Gene expression data from A2780 untreated.
|
| Sample_geo_accession | GSM461095
| | Sample_status | Public on Jul 14 2010
| | Sample_submission_date | Oct 09 2009
| | Sample_last_update_date | Jul 09 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | After 24 hours, cells were treated with the compound at a dose equal to 5 times the IC50 for 6 hours and collected using Qiagen lysis buffer RLT (Qiagen cat no. 79216).
| | Sample_growth_protocol_ch1 | A2780 (human adenocarcinoma ovary) from ECACC were seeded in T-75 tissue culture flasks (Corning), 25.000 cells/cm2 in RPMI 1640 (Gibco), pH 7.4, 10% FBS (EUROCLONE Australia-USDA approved, cat. ECSO170D, lot.EUS003383), 2mM L-Glutamine (Gibco), 1x Penicillin-Streptomycin (Gibco) and maintained in 5% CO2 at 37°C with 96% relative humidity.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using Qiagen Rneasy kit (Qiagen cat. no. 74104), starting from total cell lysates.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin-labeled, fragmented cRNA probes were prepared starting from 1.5 µg of total RNA per replicate sample, using the ‘One-Cycle Target Labeling and Control Reagents’ (Affymetrix, Santa Clara, CA) according to the protocols included in the Affymetrix GeneChip Expression Analysis Technical Manual (www.affymetrix.com).
| | Sample_hyb_protocol | Samples were hybridized onto Affymetrix GeneChip® Human Genome U133 Plus 2.0 Arrays and processed as per manufacturer’s instructions using ‘GeneChip® Hybridization, Wash, and Stain Kit’ components (Affymetrix, Santa Clara, CA).
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip® Scanner 3000.
| | Sample_data_processing | Scanned images were first inspected for quality control (QC) using a variety of built-in QC tools from the Bioconductor package [www.bioconductor.org] of R, the open source environment for statistical analysis. Feature intensity values from scanned arrays were normalised and reduced to expression summaries using MAS5 implemented in the R statistical environment.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Roberta,,Bosotti
| | Sample_contact_email | roberta.bosotti@nervianoms.com
| | Sample_contact_laboratory | Genomics
| | Sample_contact_department | Biotechnology
| | Sample_contact_institute | Nerviano Medical Sciences srl
| | Sample_contact_address | viale Pasteur,10
| | Sample_contact_city | Nerviano
| | Sample_contact_state | MI
| | Sample_contact_zip/postal_code | 20014
| | Sample_contact_country | Italy
| | Sample_contact_web_link | http://www.nervianoms.com/cont/en/
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM461nnn/GSM461095/suppl/GSM461095.CEL.gz
| | Sample_series_id | GSE18498
| | Sample_series_id | GSE18552
| | Sample_data_row_count | 54675
| | |
|
GSM461096 | GPL570 |
|
A2780 treated with CDK-887, rep1
|
A2780, CDK-887
|
cell line: A2780
cell type: adenocarcinoma ovary
treatment: CDK-887
|
Gene expression data from A2780 treated with CDK-887.
|
| Sample_geo_accession | GSM461096
| | Sample_status | Public on Jul 14 2010
| | Sample_submission_date | Oct 09 2009
| | Sample_last_update_date | Jul 09 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | After 24 hours, cells were treated with the compound at a dose equal to 5 times the IC50 for 6 hours and collected using Qiagen lysis buffer RLT (Qiagen cat no. 79216).
| | Sample_growth_protocol_ch1 | A2780 (human adenocarcinoma ovary) from ECACC were seeded in T-75 tissue culture flasks (Corning), 25.000 cells/cm2 in RPMI 1640 (Gibco), pH 7.4, 10% FBS (EUROCLONE Australia-USDA approved, cat. ECSO170D, lot.EUS003383), 2mM L-Glutamine (Gibco), 1x Penicillin-Streptomycin (Gibco) and maintained in 5% CO2 at 37°C with 96% relative humidity.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using Qiagen Rneasy kit (Qiagen cat. no. 74104), starting from total cell lysates.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin-labeled, fragmented cRNA probes were prepared starting from 1.5 µg of total RNA per replicate sample, using the ‘One-Cycle Target Labeling and Control Reagents’ (Affymetrix, Santa Clara, CA) according to the protocols included in the Affymetrix GeneChip Expression Analysis Technical Manual (www.affymetrix.com).
| | Sample_hyb_protocol | Samples were hybridized onto Affymetrix GeneChip® Human Genome U133 Plus 2.0 Arrays and processed as per manufacturer’s instructions using ‘GeneChip® Hybridization, Wash, and Stain Kit’ components (Affymetrix, Santa Clara, CA).
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip® Scanner 3000.
| | Sample_data_processing | Scanned images were first inspected for quality control (QC) using a variety of built-in QC tools from the Bioconductor package [www.bioconductor.org] of R, the open source environment for statistical analysis. Feature intensity values from scanned arrays were normalised and reduced to expression summaries using MAS5 implemented in the R statistical environment.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Roberta,,Bosotti
| | Sample_contact_email | roberta.bosotti@nervianoms.com
| | Sample_contact_laboratory | Genomics
| | Sample_contact_department | Biotechnology
| | Sample_contact_institute | Nerviano Medical Sciences srl
| | Sample_contact_address | viale Pasteur,10
| | Sample_contact_city | Nerviano
| | Sample_contact_state | MI
| | Sample_contact_zip/postal_code | 20014
| | Sample_contact_country | Italy
| | Sample_contact_web_link | http://www.nervianoms.com/cont/en/
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM461nnn/GSM461096/suppl/GSM461096.CEL.gz
| | Sample_series_id | GSE18498
| | Sample_series_id | GSE18552
| | Sample_data_row_count | 54675
| | |
|
GSM461097 | GPL570 |
|
A2780 treated with CDK-887, rep2
|
A2780, CDK-887
|
cell line: A2780
cell type: adenocarcinoma ovary
treatment: CDK-887
|
Gene expression data from A2780 treated with CDK-887.
|
| Sample_geo_accession | GSM461097
| | Sample_status | Public on Jul 14 2010
| | Sample_submission_date | Oct 09 2009
| | Sample_last_update_date | Jul 09 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | After 24 hours, cells were treated with the compound at a dose equal to 5 times the IC50 for 6 hours and collected using Qiagen lysis buffer RLT (Qiagen cat no. 79216).
| | Sample_growth_protocol_ch1 | A2780 (human adenocarcinoma ovary) from ECACC were seeded in T-75 tissue culture flasks (Corning), 25.000 cells/cm2 in RPMI 1640 (Gibco), pH 7.4, 10% FBS (EUROCLONE Australia-USDA approved, cat. ECSO170D, lot.EUS003383), 2mM L-Glutamine (Gibco), 1x Penicillin-Streptomycin (Gibco) and maintained in 5% CO2 at 37°C with 96% relative humidity.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using Qiagen Rneasy kit (Qiagen cat. no. 74104), starting from total cell lysates.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin-labeled, fragmented cRNA probes were prepared starting from 1.5 µg of total RNA per replicate sample, using the ‘One-Cycle Target Labeling and Control Reagents’ (Affymetrix, Santa Clara, CA) according to the protocols included in the Affymetrix GeneChip Expression Analysis Technical Manual (www.affymetrix.com).
| | Sample_hyb_protocol | Samples were hybridized onto Affymetrix GeneChip® Human Genome U133 Plus 2.0 Arrays and processed as per manufacturer’s instructions using ‘GeneChip® Hybridization, Wash, and Stain Kit’ components (Affymetrix, Santa Clara, CA).
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip® Scanner 3000.
| | Sample_data_processing | Scanned images were first inspected for quality control (QC) using a variety of built-in QC tools from the Bioconductor package [www.bioconductor.org] of R, the open source environment for statistical analysis. Feature intensity values from scanned arrays were normalised and reduced to expression summaries using MAS5 implemented in the R statistical environment.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Roberta,,Bosotti
| | Sample_contact_email | roberta.bosotti@nervianoms.com
| | Sample_contact_laboratory | Genomics
| | Sample_contact_department | Biotechnology
| | Sample_contact_institute | Nerviano Medical Sciences srl
| | Sample_contact_address | viale Pasteur,10
| | Sample_contact_city | Nerviano
| | Sample_contact_state | MI
| | Sample_contact_zip/postal_code | 20014
| | Sample_contact_country | Italy
| | Sample_contact_web_link | http://www.nervianoms.com/cont/en/
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM461nnn/GSM461097/suppl/GSM461097.CEL.gz
| | Sample_series_id | GSE18498
| | Sample_series_id | GSE18552
| | Sample_data_row_count | 54675
| | |
|
GSM461114 | GPL570 |
|
MCF7 untreated, rep1
|
MCF7, untreated
|
cell line: MCF7
cell type: adenocarcinoma mammary cells
treatment: untreated
|
Gene expression data from MCF7 untreated.
|
| Sample_geo_accession | GSM461114
| | Sample_status | Public on Jul 14 2010
| | Sample_submission_date | Oct 09 2009
| | Sample_last_update_date | Jul 09 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | After 24 hours, cells were treated with the compound at a dose equal to 5 times the IC50 for 6 hours and collected using Qiagen lysis buffer RLT (Qiagen cat no. 79216).
| | Sample_growth_protocol_ch1 | MCF7 (human adenocarcinoma mammary) from ECACC were seeded in T-75 tissue culture flasks (Corning), 25.000 cells/cm2 in RPMI 1640 (Gibco), pH 7.4, 10% FBS (EUROCLONE Australia-USDA approved, cat. ECSO170D, lot.EUS003383), 2mM L-Glutamine (Gibco), 1x Penicillin-Streptomycin (Gibco) and maintained in 5% CO2 at 37°C with 96% relative humidity.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using Qiagen Rneasy kit (Qiagen cat. no. 74104), starting from total cell lysates.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin-labeled, fragmented cRNA probes were prepared starting from 1.5 µg of total RNA per replicate sample, using the ‘One-Cycle Target Labeling and Control Reagents’ (Affymetrix, Santa Clara, CA) according to the protocols included in the Affymetrix GeneChip Expression Analysis Technical Manual (www.affymetrix.com).
| | Sample_hyb_protocol | Samples were hybridized onto Affymetrix GeneChip® Human Genome U133 Plus 2.0 Arrays and processed as per manufacturer’s instructions using ‘GeneChip® Hybridization, Wash, and Stain Kit’ components (Affymetrix, Santa Clara, CA).
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip® Scanner 3000.
| | Sample_data_processing | Scanned images were first inspected for quality control (QC) using a variety of built-in QC tools from the Bioconductor package [www.bioconductor.org] of R, the open source environment for statistical analysis. Feature intensity values from scanned arrays were normalised and reduced to expression summaries using MAS5 implemented in the R statistical environment.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Roberta,,Bosotti
| | Sample_contact_email | roberta.bosotti@nervianoms.com
| | Sample_contact_laboratory | Genomics
| | Sample_contact_department | Biotechnology
| | Sample_contact_institute | Nerviano Medical Sciences srl
| | Sample_contact_address | viale Pasteur,10
| | Sample_contact_city | Nerviano
| | Sample_contact_state | MI
| | Sample_contact_zip/postal_code | 20014
| | Sample_contact_country | Italy
| | Sample_contact_web_link | http://www.nervianoms.com/cont/en/
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM461nnn/GSM461114/suppl/GSM461114.CEL.gz
| | Sample_series_id | GSE18501
| | Sample_series_id | GSE18552
| | Sample_data_row_count | 54675
| | |
|
GSM461115 | GPL570 |
|
MCF7 untreated, rep2
|
MCF7, untreated
|
cell line: MCF7
cell type: adenocarcinoma mammary cells
treatment: untreated
|
Gene expression data from MCF7 untreated.
|
| Sample_geo_accession | GSM461115
| | Sample_status | Public on Jul 14 2010
| | Sample_submission_date | Oct 09 2009
| | Sample_last_update_date | Jul 09 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | After 24 hours, cells were treated with the compound at a dose equal to 5 times the IC50 for 6 hours and collected using Qiagen lysis buffer RLT (Qiagen cat no. 79216).
| | Sample_growth_protocol_ch1 | MCF7 (human adenocarcinoma mammary) from ECACC were seeded in T-75 tissue culture flasks (Corning), 25.000 cells/cm2 in RPMI 1640 (Gibco), pH 7.4, 10% FBS (EUROCLONE Australia-USDA approved, cat. ECSO170D, lot.EUS003383), 2mM L-Glutamine (Gibco), 1x Penicillin-Streptomycin (Gibco) and maintained in 5% CO2 at 37°C with 96% relative humidity.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using Qiagen Rneasy kit (Qiagen cat. no. 74104), starting from total cell lysates.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin-labeled, fragmented cRNA probes were prepared starting from 1.5 µg of total RNA per replicate sample, using the ‘One-Cycle Target Labeling and Control Reagents’ (Affymetrix, Santa Clara, CA) according to the protocols included in the Affymetrix GeneChip Expression Analysis Technical Manual (www.affymetrix.com).
| | Sample_hyb_protocol | Samples were hybridized onto Affymetrix GeneChip® Human Genome U133 Plus 2.0 Arrays and processed as per manufacturer’s instructions using ‘GeneChip® Hybridization, Wash, and Stain Kit’ components (Affymetrix, Santa Clara, CA).
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip® Scanner 3000.
| | Sample_data_processing | Scanned images were first inspected for quality control (QC) using a variety of built-in QC tools from the Bioconductor package [www.bioconductor.org] of R, the open source environment for statistical analysis. Feature intensity values from scanned arrays were normalised and reduced to expression summaries using MAS5 implemented in the R statistical environment.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Roberta,,Bosotti
| | Sample_contact_email | roberta.bosotti@nervianoms.com
| | Sample_contact_laboratory | Genomics
| | Sample_contact_department | Biotechnology
| | Sample_contact_institute | Nerviano Medical Sciences srl
| | Sample_contact_address | viale Pasteur,10
| | Sample_contact_city | Nerviano
| | Sample_contact_state | MI
| | Sample_contact_zip/postal_code | 20014
| | Sample_contact_country | Italy
| | Sample_contact_web_link | http://www.nervianoms.com/cont/en/
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM461nnn/GSM461115/suppl/GSM461115.CEL.gz
| | Sample_series_id | GSE18501
| | Sample_series_id | GSE18552
| | Sample_data_row_count | 54675
| | |
|
GSM461116 | GPL570 |
|
MCF7 treated with CDK-125, rep1
|
MCF7, CDK-125
|
cell line: MCF7
cell type: adenocarcinoma mammary cells
treatment: CDK-125
|
Gene expression data from MCF7 treated with CDK-125.
|
| Sample_geo_accession | GSM461116
| | Sample_status | Public on Jul 14 2010
| | Sample_submission_date | Oct 09 2009
| | Sample_last_update_date | Jul 09 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | After 24 hours, cells were treated with the compound at a dose equal to 5 times the IC50 for 6 hours and collected using Qiagen lysis buffer RLT (Qiagen cat no. 79216).
| | Sample_growth_protocol_ch1 | MCF7 (human adenocarcinoma mammary) from ECACC were seeded in T-75 tissue culture flasks (Corning), 25.000 cells/cm2 in RPMI 1640 (Gibco), pH 7.4, 10% FBS (EUROCLONE Australia-USDA approved, cat. ECSO170D, lot.EUS003383), 2mM L-Glutamine (Gibco), 1x Penicillin-Streptomycin (Gibco) and maintained in 5% CO2 at 37°C with 96% relative humidity.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using Qiagen Rneasy kit (Qiagen cat. no. 74104), starting from total cell lysates.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin-labeled, fragmented cRNA probes were prepared starting from 1.5 µg of total RNA per replicate sample, using the ‘One-Cycle Target Labeling and Control Reagents’ (Affymetrix, Santa Clara, CA) according to the protocols included in the Affymetrix GeneChip Expression Analysis Technical Manual (www.affymetrix.com).
| | Sample_hyb_protocol | Samples were hybridized onto Affymetrix GeneChip® Human Genome U133 Plus 2.0 Arrays and processed as per manufacturer’s instructions using ‘GeneChip® Hybridization, Wash, and Stain Kit’ components (Affymetrix, Santa Clara, CA).
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip® Scanner 3000.
| | Sample_data_processing | Scanned images were first inspected for quality control (QC) using a variety of built-in QC tools from the Bioconductor package [www.bioconductor.org] of R, the open source environment for statistical analysis. Feature intensity values from scanned arrays were normalised and reduced to expression summaries using MAS5 implemented in the R statistical environment.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Roberta,,Bosotti
| | Sample_contact_email | roberta.bosotti@nervianoms.com
| | Sample_contact_laboratory | Genomics
| | Sample_contact_department | Biotechnology
| | Sample_contact_institute | Nerviano Medical Sciences srl
| | Sample_contact_address | viale Pasteur,10
| | Sample_contact_city | Nerviano
| | Sample_contact_state | MI
| | Sample_contact_zip/postal_code | 20014
| | Sample_contact_country | Italy
| | Sample_contact_web_link | http://www.nervianoms.com/cont/en/
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM461nnn/GSM461116/suppl/GSM461116.CEL.gz
| | Sample_series_id | GSE18501
| | Sample_series_id | GSE18552
| | Sample_data_row_count | 54675
| | |
|
GSM461117 | GPL570 |
|
MCF7 treated with CDK-125, rep2
|
MCF7, CDK-125
|
cell line: MCF7
cell type: adenocarcinoma mammary cells
treatment: CDK-125
|
Gene expression data from MCF7 treated with CDK-125.
|
| Sample_geo_accession | GSM461117
| | Sample_status | Public on Jul 14 2010
| | Sample_submission_date | Oct 09 2009
| | Sample_last_update_date | Jul 09 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | After 24 hours, cells were treated with the compound at a dose equal to 5 times the IC50 for 6 hours and collected using Qiagen lysis buffer RLT (Qiagen cat no. 79216).
| | Sample_growth_protocol_ch1 | MCF7 (human adenocarcinoma mammary) from ECACC were seeded in T-75 tissue culture flasks (Corning), 25.000 cells/cm2 in RPMI 1640 (Gibco), pH 7.4, 10% FBS (EUROCLONE Australia-USDA approved, cat. ECSO170D, lot.EUS003383), 2mM L-Glutamine (Gibco), 1x Penicillin-Streptomycin (Gibco) and maintained in 5% CO2 at 37°C with 96% relative humidity.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using Qiagen Rneasy kit (Qiagen cat. no. 74104), starting from total cell lysates.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin-labeled, fragmented cRNA probes were prepared starting from 1.5 µg of total RNA per replicate sample, using the ‘One-Cycle Target Labeling and Control Reagents’ (Affymetrix, Santa Clara, CA) according to the protocols included in the Affymetrix GeneChip Expression Analysis Technical Manual (www.affymetrix.com).
| | Sample_hyb_protocol | Samples were hybridized onto Affymetrix GeneChip® Human Genome U133 Plus 2.0 Arrays and processed as per manufacturer’s instructions using ‘GeneChip® Hybridization, Wash, and Stain Kit’ components (Affymetrix, Santa Clara, CA).
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip® Scanner 3000.
| | Sample_data_processing | Scanned images were first inspected for quality control (QC) using a variety of built-in QC tools from the Bioconductor package [www.bioconductor.org] of R, the open source environment for statistical analysis. Feature intensity values from scanned arrays were normalised and reduced to expression summaries using MAS5 implemented in the R statistical environment.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Roberta,,Bosotti
| | Sample_contact_email | roberta.bosotti@nervianoms.com
| | Sample_contact_laboratory | Genomics
| | Sample_contact_department | Biotechnology
| | Sample_contact_institute | Nerviano Medical Sciences srl
| | Sample_contact_address | viale Pasteur,10
| | Sample_contact_city | Nerviano
| | Sample_contact_state | MI
| | Sample_contact_zip/postal_code | 20014
| | Sample_contact_country | Italy
| | Sample_contact_web_link | http://www.nervianoms.com/cont/en/
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM461nnn/GSM461117/suppl/GSM461117.CEL.gz
| | Sample_series_id | GSE18501
| | Sample_series_id | GSE18552
| | Sample_data_row_count | 54675
| | |
|
GSM461152 | GPL570 |
|
A2780 cells untreated, rep1
|
A2780, untreated
|
cell line: A2780
cell type: adenocarcinoma ovary
treatment: untreated
|
Gene expression data from A2780 untreated.
|
| Sample_geo_accession | GSM461152
| | Sample_status | Public on Jul 14 2010
| | Sample_submission_date | Oct 09 2009
| | Sample_last_update_date | Jul 09 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | After 24 hours, cells were treated with the compound at a dose equal to 5 times the IC50 for 6 hours and collected using Qiagen lysis buffer RLT (Qiagen cat no. 79216).
| | Sample_growth_protocol_ch1 | A2780 (human adenocarcinoma ovary) from ECACC were seeded in T-75 tissue culture flasks (Corning), 25.000 cells/cm2 in RPMI 1640 (Gibco), pH 7.4, 10% FBS (EUROCLONE Australia-USDA approved, cat. ECSO170D, lot.EUS003383), 2mM L-Glutamine (Gibco), 1x Penicillin-Streptomycin (Gibco) and maintained in 5% CO2 at 37°C with 96% relative humidity.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using Qiagen Rneasy kit (Qiagen cat. no. 74104), starting from total cell lysates.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin-labeled, fragmented cRNA probes were prepared starting from 1.5 µg of total RNA per replicate sample, using the ‘One-Cycle Target Labeling and Control Reagents’ (Affymetrix, Santa Clara, CA) according to the protocols included in the Affymetrix GeneChip Expression Analysis Technical Manual (www.affymetrix.com).
| | Sample_hyb_protocol | Samples were hybridized onto Affymetrix GeneChip® Human Genome U133 Plus 2.0 Arrays and processed as per manufacturer’s instructions using ‘GeneChip® Hybridization, Wash, and Stain Kit’ components (Affymetrix, Santa Clara, CA).
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip® Scanner 3000.
| | Sample_data_processing | Scanned images were first inspected for quality control (QC) using a variety of built-in QC tools from the Bioconductor package [www.bioconductor.org] of R, the open source environment for statistical analysis. Feature intensity values from scanned arrays were normalised and reduced to expression summaries using MAS5 implemented in the R statistical environment.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Roberta,,Bosotti
| | Sample_contact_email | roberta.bosotti@nervianoms.com
| | Sample_contact_laboratory | Genomics
| | Sample_contact_department | Biotechnology
| | Sample_contact_institute | Nerviano Medical Sciences srl
| | Sample_contact_address | viale Pasteur,10
| | Sample_contact_city | Nerviano
| | Sample_contact_state | MI
| | Sample_contact_zip/postal_code | 20014
| | Sample_contact_country | Italy
| | Sample_contact_web_link | http://www.nervianoms.com/cont/en/
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM461nnn/GSM461152/suppl/GSM461152.CEL.gz
| | Sample_series_id | GSE18504
| | Sample_series_id | GSE18552
| | Sample_data_row_count | 54675
| | |
|
GSM461153 | GPL570 |
|
A2780 cells untreated, rep2
|
A2780, untreated
|
cell line: A2780
cell type: adenocarcinoma ovary
treatment: untreated
|
Gene expression data from A2780 untreated.
|
| Sample_geo_accession | GSM461153
| | Sample_status | Public on Jul 14 2010
| | Sample_submission_date | Oct 09 2009
| | Sample_last_update_date | Jul 09 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | After 24 hours, cells were treated with the compound at a dose equal to 5 times the IC50 for 6 hours and collected using Qiagen lysis buffer RLT (Qiagen cat no. 79216).
| | Sample_growth_protocol_ch1 | A2780 (human adenocarcinoma ovary) from ECACC were seeded in T-75 tissue culture flasks (Corning), 25.000 cells/cm2 in RPMI 1640 (Gibco), pH 7.4, 10% FBS (EUROCLONE Australia-USDA approved, cat. ECSO170D, lot.EUS003383), 2mM L-Glutamine (Gibco), 1x Penicillin-Streptomycin (Gibco) and maintained in 5% CO2 at 37°C with 96% relative humidity.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using Qiagen Rneasy kit (Qiagen cat. no. 74104), starting from total cell lysates.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin-labeled, fragmented cRNA probes were prepared starting from 1.5 µg of total RNA per replicate sample, using the ‘One-Cycle Target Labeling and Control Reagents’ (Affymetrix, Santa Clara, CA) according to the protocols included in the Affymetrix GeneChip Expression Analysis Technical Manual (www.affymetrix.com).
| | Sample_hyb_protocol | Samples were hybridized onto Affymetrix GeneChip® Human Genome U133 Plus 2.0 Arrays and processed as per manufacturer’s instructions using ‘GeneChip® Hybridization, Wash, and Stain Kit’ components (Affymetrix, Santa Clara, CA).
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip® Scanner 3000.
| | Sample_data_processing | Scanned images were first inspected for quality control (QC) using a variety of built-in QC tools from the Bioconductor package [www.bioconductor.org] of R, the open source environment for statistical analysis. Feature intensity values from scanned arrays were normalised and reduced to expression summaries using MAS5 implemented in the R statistical environment.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Roberta,,Bosotti
| | Sample_contact_email | roberta.bosotti@nervianoms.com
| | Sample_contact_laboratory | Genomics
| | Sample_contact_department | Biotechnology
| | Sample_contact_institute | Nerviano Medical Sciences srl
| | Sample_contact_address | viale Pasteur,10
| | Sample_contact_city | Nerviano
| | Sample_contact_state | MI
| | Sample_contact_zip/postal_code | 20014
| | Sample_contact_country | Italy
| | Sample_contact_web_link | http://www.nervianoms.com/cont/en/
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM461nnn/GSM461153/suppl/GSM461153.CEL.gz
| | Sample_series_id | GSE18504
| | Sample_series_id | GSE18552
| | Sample_data_row_count | 54675
| | |
|
GSM461154 | GPL570 |
|
A2780 treated with Flavo, rep1
|
A2780, Flavopiridol
|
cell line: A2780
cell type: adenocarcinoma ovary
treatment: Flavopiridol
|
Gene expression data from A2780 treated with Flavopiridol.
|
| Sample_geo_accession | GSM461154
| | Sample_status | Public on Jul 14 2010
| | Sample_submission_date | Oct 09 2009
| | Sample_last_update_date | Jul 09 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | After 24 hours, cells were treated with the compound at a dose equal to 5 times the IC50 for 6 hours and collected using Qiagen lysis buffer RLT (Qiagen cat no. 79216).
| | Sample_growth_protocol_ch1 | A2780 (human adenocarcinoma ovary) from ECACC were seeded in T-75 tissue culture flasks (Corning), 25.000 cells/cm2 in RPMI 1640 (Gibco), pH 7.4, 10% FBS (EUROCLONE Australia-USDA approved, cat. ECSO170D, lot.EUS003383), 2mM L-Glutamine (Gibco), 1x Penicillin-Streptomycin (Gibco) and maintained in 5% CO2 at 37°C with 96% relative humidity.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using Qiagen Rneasy kit (Qiagen cat. no. 74104), starting from total cell lysates.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin-labeled, fragmented cRNA probes were prepared starting from 1.5 µg of total RNA per replicate sample, using the ‘One-Cycle Target Labeling and Control Reagents’ (Affymetrix, Santa Clara, CA) according to the protocols included in the Affymetrix GeneChip Expression Analysis Technical Manual (www.affymetrix.com).
| | Sample_hyb_protocol | Samples were hybridized onto Affymetrix GeneChip® Human Genome U133 Plus 2.0 Arrays and processed as per manufacturer’s instructions using ‘GeneChip® Hybridization, Wash, and Stain Kit’ components (Affymetrix, Santa Clara, CA).
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip® Scanner 3000.
| | Sample_data_processing | Scanned images were first inspected for quality control (QC) using a variety of built-in QC tools from the Bioconductor package [www.bioconductor.org] of R, the open source environment for statistical analysis. Feature intensity values from scanned arrays were normalised and reduced to expression summaries using MAS5 implemented in the R statistical environment.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Roberta,,Bosotti
| | Sample_contact_email | roberta.bosotti@nervianoms.com
| | Sample_contact_laboratory | Genomics
| | Sample_contact_department | Biotechnology
| | Sample_contact_institute | Nerviano Medical Sciences srl
| | Sample_contact_address | viale Pasteur,10
| | Sample_contact_city | Nerviano
| | Sample_contact_state | MI
| | Sample_contact_zip/postal_code | 20014
| | Sample_contact_country | Italy
| | Sample_contact_web_link | http://www.nervianoms.com/cont/en/
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM461nnn/GSM461154/suppl/GSM461154.CEL.gz
| | Sample_series_id | GSE18504
| | Sample_series_id | GSE18552
| | Sample_data_row_count | 54675
| | |
|
GSM461155 | GPL570 |
|
A2780 treated with Flavo, rep2
|
A2780, Flavopiridol
|
cell line: A2780
cell type: adenocarcinoma ovary
treatment: Flavopiridol
|
Gene expression data from A2780 treated with Flavopiridol.
|
| Sample_geo_accession | GSM461155
| | Sample_status | Public on Jul 14 2010
| | Sample_submission_date | Oct 09 2009
| | Sample_last_update_date | Jul 09 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | After 24 hours, cells were treated with the compound at a dose equal to 5 times the IC50 for 6 hours and collected using Qiagen lysis buffer RLT (Qiagen cat no. 79216).
| | Sample_growth_protocol_ch1 | A2780 (human adenocarcinoma ovary) from ECACC were seeded in T-75 tissue culture flasks (Corning), 25.000 cells/cm2 in RPMI 1640 (Gibco), pH 7.4, 10% FBS (EUROCLONE Australia-USDA approved, cat. ECSO170D, lot.EUS003383), 2mM L-Glutamine (Gibco), 1x Penicillin-Streptomycin (Gibco) and maintained in 5% CO2 at 37°C with 96% relative humidity.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using Qiagen Rneasy kit (Qiagen cat. no. 74104), starting from total cell lysates.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin-labeled, fragmented cRNA probes were prepared starting from 1.5 µg of total RNA per replicate sample, using the ‘One-Cycle Target Labeling and Control Reagents’ (Affymetrix, Santa Clara, CA) according to the protocols included in the Affymetrix GeneChip Expression Analysis Technical Manual (www.affymetrix.com).
| | Sample_hyb_protocol | Samples were hybridized onto Affymetrix GeneChip® Human Genome U133 Plus 2.0 Arrays and processed as per manufacturer’s instructions using ‘GeneChip® Hybridization, Wash, and Stain Kit’ components (Affymetrix, Santa Clara, CA).
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip® Scanner 3000.
| | Sample_data_processing | Scanned images were first inspected for quality control (QC) using a variety of built-in QC tools from the Bioconductor package [www.bioconductor.org] of R, the open source environment for statistical analysis. Feature intensity values from scanned arrays were normalised and reduced to expression summaries using MAS5 implemented in the R statistical environment.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Roberta,,Bosotti
| | Sample_contact_email | roberta.bosotti@nervianoms.com
| | Sample_contact_laboratory | Genomics
| | Sample_contact_department | Biotechnology
| | Sample_contact_institute | Nerviano Medical Sciences srl
| | Sample_contact_address | viale Pasteur,10
| | Sample_contact_city | Nerviano
| | Sample_contact_state | MI
| | Sample_contact_zip/postal_code | 20014
| | Sample_contact_country | Italy
| | Sample_contact_web_link | http://www.nervianoms.com/cont/en/
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM461nnn/GSM461155/suppl/GSM461155.CEL.gz
| | Sample_series_id | GSE18504
| | Sample_series_id | GSE18552
| | Sample_data_row_count | 54675
| | |
|
GSM490029 | GPL570 |
|
MCF7 untreated cells, rep1
|
MCF7, untreated
|
cell line: MCF7
cell type: adenocarcinoma mammary cells
treatment: untreated
|
Gene expression data from MCF7 untreated.
|
| Sample_geo_accession | GSM490029
| | Sample_status | Public on Jul 14 2010
| | Sample_submission_date | Dec 23 2009
| | Sample_last_update_date | Jul 09 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | After 24 hours, cells were treated with the different compounds at a dose equal to 5 times the IC50 for 6 hours and collected using Qiagen lysis buffer RLT (Qiagen cat no. 79216).
| | Sample_growth_protocol_ch1 | MCF7 (human adenocarcinoma mammary) from ECACC were seeded in T-75 tissue culture flasks (Corning), 25.000 cells/cm2 in RPMI 1640 (Gibco), pH 7.4, 10% FBS (EUROCLONE Australia-USDA approved, cat. ECSO170D, lot.EUS003383), 2mM L-Glutamine (Gibco), 1x Penicillin-Streptomycin (Gibco) and maintained in 5% CO2 at 37°C with 96% relative humidity.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using Qiagen Rneasy kit (Qiagen cat. no. 74104), starting from total cell lysates.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin-labeled, fragmented cRNA probes were prepared starting from 1.5 µg of total RNA per replicate sample, using the ‘One-Cycle Target Labeling and Control Reagents’ (Affymetrix, Santa Clara, CA) according to the protocols included in the Affymetrix GeneChip Expression Analysis Technical Manual (www.affymetrix.com).
| | Sample_hyb_protocol | Samples were hybridized onto Affymetrix GeneChip® Human Genome U133 Plus 2.0 Arrays and processed as per manufacturer’s instructions using ‘GeneChip® Hybridization, Wash, and Stain Kit’ components (Affymetrix, Santa Clara, CA).
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip® Scanner 3000.
| | Sample_data_processing | Scanned images were first inspected for quality control (QC) using a variety of built-in QC tools from the Bioconductor package [www.bioconductor.org] of R, the open source environment for statistical analysis. Feature intensity values from scanned arrays were normalised and reduced to expression summaries using MAS5 implemented in the R statistical environment.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Roberta,,Bosotti
| | Sample_contact_email | roberta.bosotti@nervianoms.com
| | Sample_contact_laboratory | Genomics
| | Sample_contact_department | Biotechnology
| | Sample_contact_institute | Nerviano Medical Sciences srl
| | Sample_contact_address | viale Pasteur,10
| | Sample_contact_city | Nerviano
| | Sample_contact_state | MI
| | Sample_contact_zip/postal_code | 20014
| | Sample_contact_country | Italy
| | Sample_contact_web_link | http://www.nervianoms.com/cont/en/
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM490nnn/GSM490029/suppl/GSM490029.CEL.gz
| | Sample_series_id | GSE18552
| | Sample_series_id | GSE19638
| | Sample_data_row_count | 54675
| | |
|
GSM490030 | GPL570 |
|
MCF7 untreated cells, rep2
|
MCF7, untreated
|
cell line: MCF7
cell type: adenocarcinoma mammary cells
treatment: untreated
|
Gene expression data from MCF7 untreated.
|
| Sample_geo_accession | GSM490030
| | Sample_status | Public on Jul 14 2010
| | Sample_submission_date | Dec 23 2009
| | Sample_last_update_date | Jul 09 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | After 24 hours, cells were treated with the different compounds at a dose equal to 5 times the IC50 for 6 hours and collected using Qiagen lysis buffer RLT (Qiagen cat no. 79216).
| | Sample_growth_protocol_ch1 | MCF7 (human adenocarcinoma mammary) from ECACC were seeded in T-75 tissue culture flasks (Corning), 25.000 cells/cm2 in RPMI 1640 (Gibco), pH 7.4, 10% FBS (EUROCLONE Australia-USDA approved, cat. ECSO170D, lot.EUS003383), 2mM L-Glutamine (Gibco), 1x Penicillin-Streptomycin (Gibco) and maintained in 5% CO2 at 37°C with 96% relative humidity.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using Qiagen Rneasy kit (Qiagen cat. no. 74104), starting from total cell lysates.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin-labeled, fragmented cRNA probes were prepared starting from 1.5 µg of total RNA per replicate sample, using the ‘One-Cycle Target Labeling and Control Reagents’ (Affymetrix, Santa Clara, CA) according to the protocols included in the Affymetrix GeneChip Expression Analysis Technical Manual (www.affymetrix.com).
| | Sample_hyb_protocol | Samples were hybridized onto Affymetrix GeneChip® Human Genome U133 Plus 2.0 Arrays and processed as per manufacturer’s instructions using ‘GeneChip® Hybridization, Wash, and Stain Kit’ components (Affymetrix, Santa Clara, CA).
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip® Scanner 3000.
| | Sample_data_processing | Scanned images were first inspected for quality control (QC) using a variety of built-in QC tools from the Bioconductor package [www.bioconductor.org] of R, the open source environment for statistical analysis. Feature intensity values from scanned arrays were normalised and reduced to expression summaries using MAS5 implemented in the R statistical environment.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Roberta,,Bosotti
| | Sample_contact_email | roberta.bosotti@nervianoms.com
| | Sample_contact_laboratory | Genomics
| | Sample_contact_department | Biotechnology
| | Sample_contact_institute | Nerviano Medical Sciences srl
| | Sample_contact_address | viale Pasteur,10
| | Sample_contact_city | Nerviano
| | Sample_contact_state | MI
| | Sample_contact_zip/postal_code | 20014
| | Sample_contact_country | Italy
| | Sample_contact_web_link | http://www.nervianoms.com/cont/en/
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM490nnn/GSM490030/suppl/GSM490030.CEL.gz
| | Sample_series_id | GSE18552
| | Sample_series_id | GSE19638
| | Sample_data_row_count | 54675
| | |
|
GSM490031 | GPL570 |
|
MCF7 treated with 17AAG, rep1
|
MCF7, 17AAG
|
cell line: MCF7
cell type: adenocarcinoma mammary cells
treatment: 17AAG
|
Gene expression data from MCF7 treated with 17AAG.
|
| Sample_geo_accession | GSM490031
| | Sample_status | Public on Jul 14 2010
| | Sample_submission_date | Dec 23 2009
| | Sample_last_update_date | Jul 09 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | After 24 hours, cells were treated with the different compounds at a dose equal to 5 times the IC50 for 6 hours and collected using Qiagen lysis buffer RLT (Qiagen cat no. 79216).
| | Sample_growth_protocol_ch1 | MCF7 (human adenocarcinoma mammary) from ECACC were seeded in T-75 tissue culture flasks (Corning), 25.000 cells/cm2 in RPMI 1640 (Gibco), pH 7.4, 10% FBS (EUROCLONE Australia-USDA approved, cat. ECSO170D, lot.EUS003383), 2mM L-Glutamine (Gibco), 1x Penicillin-Streptomycin (Gibco) and maintained in 5% CO2 at 37°C with 96% relative humidity.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using Qiagen Rneasy kit (Qiagen cat. no. 74104), starting from total cell lysates.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin-labeled, fragmented cRNA probes were prepared starting from 1.5 µg of total RNA per replicate sample, using the ‘One-Cycle Target Labeling and Control Reagents’ (Affymetrix, Santa Clara, CA) according to the protocols included in the Affymetrix GeneChip Expression Analysis Technical Manual (www.affymetrix.com).
| | Sample_hyb_protocol | Samples were hybridized onto Affymetrix GeneChip® Human Genome U133 Plus 2.0 Arrays and processed as per manufacturer’s instructions using ‘GeneChip® Hybridization, Wash, and Stain Kit’ components (Affymetrix, Santa Clara, CA).
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip® Scanner 3000.
| | Sample_data_processing | Scanned images were first inspected for quality control (QC) using a variety of built-in QC tools from the Bioconductor package [www.bioconductor.org] of R, the open source environment for statistical analysis. Feature intensity values from scanned arrays were normalised and reduced to expression summaries using MAS5 implemented in the R statistical environment.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Roberta,,Bosotti
| | Sample_contact_email | roberta.bosotti@nervianoms.com
| | Sample_contact_laboratory | Genomics
| | Sample_contact_department | Biotechnology
| | Sample_contact_institute | Nerviano Medical Sciences srl
| | Sample_contact_address | viale Pasteur,10
| | Sample_contact_city | Nerviano
| | Sample_contact_state | MI
| | Sample_contact_zip/postal_code | 20014
| | Sample_contact_country | Italy
| | Sample_contact_web_link | http://www.nervianoms.com/cont/en/
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM490nnn/GSM490031/suppl/GSM490031.CEL.gz
| | Sample_series_id | GSE18552
| | Sample_series_id | GSE19638
| | Sample_data_row_count | 54675
| | |
|
GSM490032 | GPL570 |
|
MCF7 treated with 17AAG, rep2
|
MCF7, 17AAG
|
cell line: MCF7
cell type: adenocarcinoma mammary cells
treatment: 17AAG
|
Gene expression data from MCF7 treated with 17AAG.
|
| Sample_geo_accession | GSM490032
| | Sample_status | Public on Jul 14 2010
| | Sample_submission_date | Dec 23 2009
| | Sample_last_update_date | Jul 09 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | After 24 hours, cells were treated with the different compounds at a dose equal to 5 times the IC50 for 6 hours and collected using Qiagen lysis buffer RLT (Qiagen cat no. 79216).
| | Sample_growth_protocol_ch1 | MCF7 (human adenocarcinoma mammary) from ECACC were seeded in T-75 tissue culture flasks (Corning), 25.000 cells/cm2 in RPMI 1640 (Gibco), pH 7.4, 10% FBS (EUROCLONE Australia-USDA approved, cat. ECSO170D, lot.EUS003383), 2mM L-Glutamine (Gibco), 1x Penicillin-Streptomycin (Gibco) and maintained in 5% CO2 at 37°C with 96% relative humidity.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using Qiagen Rneasy kit (Qiagen cat. no. 74104), starting from total cell lysates.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin-labeled, fragmented cRNA probes were prepared starting from 1.5 µg of total RNA per replicate sample, using the ‘One-Cycle Target Labeling and Control Reagents’ (Affymetrix, Santa Clara, CA) according to the protocols included in the Affymetrix GeneChip Expression Analysis Technical Manual (www.affymetrix.com).
| | Sample_hyb_protocol | Samples were hybridized onto Affymetrix GeneChip® Human Genome U133 Plus 2.0 Arrays and processed as per manufacturer’s instructions using ‘GeneChip® Hybridization, Wash, and Stain Kit’ components (Affymetrix, Santa Clara, CA).
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip® Scanner 3000.
| | Sample_data_processing | Scanned images were first inspected for quality control (QC) using a variety of built-in QC tools from the Bioconductor package [www.bioconductor.org] of R, the open source environment for statistical analysis. Feature intensity values from scanned arrays were normalised and reduced to expression summaries using MAS5 implemented in the R statistical environment.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Roberta,,Bosotti
| | Sample_contact_email | roberta.bosotti@nervianoms.com
| | Sample_contact_laboratory | Genomics
| | Sample_contact_department | Biotechnology
| | Sample_contact_institute | Nerviano Medical Sciences srl
| | Sample_contact_address | viale Pasteur,10
| | Sample_contact_city | Nerviano
| | Sample_contact_state | MI
| | Sample_contact_zip/postal_code | 20014
| | Sample_contact_country | Italy
| | Sample_contact_web_link | http://www.nervianoms.com/cont/en/
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM490nnn/GSM490032/suppl/GSM490032.CEL.gz
| | Sample_series_id | GSE18552
| | Sample_series_id | GSE19638
| | Sample_data_row_count | 54675
| | |
|
GSM490033 | GPL570 |
|
MCF7 treated with AUY922, rep1
|
MCF7, AUY922
|
cell line: MCF7
cell type: adenocarcinoma mammary cells
treatment: AUY922
|
Gene expression data from MCF7 treated with AUY922.
|
| Sample_geo_accession | GSM490033
| | Sample_status | Public on Jul 14 2010
| | Sample_submission_date | Dec 23 2009
| | Sample_last_update_date | Jul 09 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | After 24 hours, cells were treated with the different compounds at a dose equal to 5 times the IC50 for 6 hours and collected using Qiagen lysis buffer RLT (Qiagen cat no. 79216).
| | Sample_growth_protocol_ch1 | MCF7 (human adenocarcinoma mammary) from ECACC were seeded in T-75 tissue culture flasks (Corning), 25.000 cells/cm2 in RPMI 1640 (Gibco), pH 7.4, 10% FBS (EUROCLONE Australia-USDA approved, cat. ECSO170D, lot.EUS003383), 2mM L-Glutamine (Gibco), 1x Penicillin-Streptomycin (Gibco) and maintained in 5% CO2 at 37°C with 96% relative humidity.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using Qiagen Rneasy kit (Qiagen cat. no. 74104), starting from total cell lysates.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin-labeled, fragmented cRNA probes were prepared starting from 1.5 µg of total RNA per replicate sample, using the ‘One-Cycle Target Labeling and Control Reagents’ (Affymetrix, Santa Clara, CA) according to the protocols included in the Affymetrix GeneChip Expression Analysis Technical Manual (www.affymetrix.com).
| | Sample_hyb_protocol | Samples were hybridized onto Affymetrix GeneChip® Human Genome U133 Plus 2.0 Arrays and processed as per manufacturer’s instructions using ‘GeneChip® Hybridization, Wash, and Stain Kit’ components (Affymetrix, Santa Clara, CA).
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip® Scanner 3000.
| | Sample_data_processing | Scanned images were first inspected for quality control (QC) using a variety of built-in QC tools from the Bioconductor package [www.bioconductor.org] of R, the open source environment for statistical analysis. Feature intensity values from scanned arrays were normalised and reduced to expression summaries using MAS5 implemented in the R statistical environment.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Roberta,,Bosotti
| | Sample_contact_email | roberta.bosotti@nervianoms.com
| | Sample_contact_laboratory | Genomics
| | Sample_contact_department | Biotechnology
| | Sample_contact_institute | Nerviano Medical Sciences srl
| | Sample_contact_address | viale Pasteur,10
| | Sample_contact_city | Nerviano
| | Sample_contact_state | MI
| | Sample_contact_zip/postal_code | 20014
| | Sample_contact_country | Italy
| | Sample_contact_web_link | http://www.nervianoms.com/cont/en/
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM490nnn/GSM490033/suppl/GSM490033.CEL.gz
| | Sample_series_id | GSE18552
| | Sample_series_id | GSE19638
| | Sample_data_row_count | 54675
| | |
|
GSM490034 | GPL570 |
|
MCF7 treated with AUY922, rep2
|
MCF7, AUY922
|
cell line: MCF7
cell type: adenocarcinoma mammary cells
treatment: AUY922
|
Gene expression data from MCF7 treated with AUY922.
|
| Sample_geo_accession | GSM490034
| | Sample_status | Public on Jul 14 2010
| | Sample_submission_date | Dec 23 2009
| | Sample_last_update_date | Jul 09 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | After 24 hours, cells were treated with the different compounds at a dose equal to 5 times the IC50 for 6 hours and collected using Qiagen lysis buffer RLT (Qiagen cat no. 79216).
| | Sample_growth_protocol_ch1 | MCF7 (human adenocarcinoma mammary) from ECACC were seeded in T-75 tissue culture flasks (Corning), 25.000 cells/cm2 in RPMI 1640 (Gibco), pH 7.4, 10% FBS (EUROCLONE Australia-USDA approved, cat. ECSO170D, lot.EUS003383), 2mM L-Glutamine (Gibco), 1x Penicillin-Streptomycin (Gibco) and maintained in 5% CO2 at 37°C with 96% relative humidity.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using Qiagen Rneasy kit (Qiagen cat. no. 74104), starting from total cell lysates.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin-labeled, fragmented cRNA probes were prepared starting from 1.5 µg of total RNA per replicate sample, using the ‘One-Cycle Target Labeling and Control Reagents’ (Affymetrix, Santa Clara, CA) according to the protocols included in the Affymetrix GeneChip Expression Analysis Technical Manual (www.affymetrix.com).
| | Sample_hyb_protocol | Samples were hybridized onto Affymetrix GeneChip® Human Genome U133 Plus 2.0 Arrays and processed as per manufacturer’s instructions using ‘GeneChip® Hybridization, Wash, and Stain Kit’ components (Affymetrix, Santa Clara, CA).
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip® Scanner 3000.
| | Sample_data_processing | Scanned images were first inspected for quality control (QC) using a variety of built-in QC tools from the Bioconductor package [www.bioconductor.org] of R, the open source environment for statistical analysis. Feature intensity values from scanned arrays were normalised and reduced to expression summaries using MAS5 implemented in the R statistical environment.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Roberta,,Bosotti
| | Sample_contact_email | roberta.bosotti@nervianoms.com
| | Sample_contact_laboratory | Genomics
| | Sample_contact_department | Biotechnology
| | Sample_contact_institute | Nerviano Medical Sciences srl
| | Sample_contact_address | viale Pasteur,10
| | Sample_contact_city | Nerviano
| | Sample_contact_state | MI
| | Sample_contact_zip/postal_code | 20014
| | Sample_contact_country | Italy
| | Sample_contact_web_link | http://www.nervianoms.com/cont/en/
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM490nnn/GSM490034/suppl/GSM490034.CEL.gz
| | Sample_series_id | GSE18552
| | Sample_series_id | GSE19638
| | Sample_data_row_count | 54675
| | |
|
GSM490035 | GPL570 |
|
MCF7 treated with CDK-887, rep1
|
MCF7, CDK-887
|
cell line: MCF7
cell type: adenocarcinoma mammary cells
treatment: CDK-887
|
Gene expression data from MCF7 treated with CDK-887.
|
| Sample_geo_accession | GSM490035
| | Sample_status | Public on Jul 14 2010
| | Sample_submission_date | Dec 23 2009
| | Sample_last_update_date | Jul 09 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | After 24 hours, cells were treated with the different compounds at a dose equal to 5 times the IC50 for 6 hours and collected using Qiagen lysis buffer RLT (Qiagen cat no. 79216).
| | Sample_growth_protocol_ch1 | MCF7 (human adenocarcinoma mammary) from ECACC were seeded in T-75 tissue culture flasks (Corning), 25.000 cells/cm2 in RPMI 1640 (Gibco), pH 7.4, 10% FBS (EUROCLONE Australia-USDA approved, cat. ECSO170D, lot.EUS003383), 2mM L-Glutamine (Gibco), 1x Penicillin-Streptomycin (Gibco) and maintained in 5% CO2 at 37°C with 96% relative humidity.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using Qiagen Rneasy kit (Qiagen cat. no. 74104), starting from total cell lysates.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin-labeled, fragmented cRNA probes were prepared starting from 1.5 µg of total RNA per replicate sample, using the ‘One-Cycle Target Labeling and Control Reagents’ (Affymetrix, Santa Clara, CA) according to the protocols included in the Affymetrix GeneChip Expression Analysis Technical Manual (www.affymetrix.com).
| | Sample_hyb_protocol | Samples were hybridized onto Affymetrix GeneChip® Human Genome U133 Plus 2.0 Arrays and processed as per manufacturer’s instructions using ‘GeneChip® Hybridization, Wash, and Stain Kit’ components (Affymetrix, Santa Clara, CA).
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip® Scanner 3000.
| | Sample_data_processing | Scanned images were first inspected for quality control (QC) using a variety of built-in QC tools from the Bioconductor package [www.bioconductor.org] of R, the open source environment for statistical analysis. Feature intensity values from scanned arrays were normalised and reduced to expression summaries using MAS5 implemented in the R statistical environment.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Roberta,,Bosotti
| | Sample_contact_email | roberta.bosotti@nervianoms.com
| | Sample_contact_laboratory | Genomics
| | Sample_contact_department | Biotechnology
| | Sample_contact_institute | Nerviano Medical Sciences srl
| | Sample_contact_address | viale Pasteur,10
| | Sample_contact_city | Nerviano
| | Sample_contact_state | MI
| | Sample_contact_zip/postal_code | 20014
| | Sample_contact_country | Italy
| | Sample_contact_web_link | http://www.nervianoms.com/cont/en/
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM490nnn/GSM490035/suppl/GSM490035.CEL.gz
| | Sample_series_id | GSE18552
| | Sample_series_id | GSE19638
| | Sample_data_row_count | 54675
| | |
|
GSM490036 | GPL570 |
|
MCF7 treated with CDK-887, rep2
|
MCF7, CDK-887
|
cell line: MCF7
cell type: adenocarcinoma mammary cells
treatment: CDK-887
|
Gene expression data from MCF7 treated with CDK-887.
|
| Sample_geo_accession | GSM490036
| | Sample_status | Public on Jul 14 2010
| | Sample_submission_date | Dec 23 2009
| | Sample_last_update_date | Jul 09 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | After 24 hours, cells were treated with the different compounds at a dose equal to 5 times the IC50 for 6 hours and collected using Qiagen lysis buffer RLT (Qiagen cat no. 79216).
| | Sample_growth_protocol_ch1 | MCF7 (human adenocarcinoma mammary) from ECACC were seeded in T-75 tissue culture flasks (Corning), 25.000 cells/cm2 in RPMI 1640 (Gibco), pH 7.4, 10% FBS (EUROCLONE Australia-USDA approved, cat. ECSO170D, lot.EUS003383), 2mM L-Glutamine (Gibco), 1x Penicillin-Streptomycin (Gibco) and maintained in 5% CO2 at 37°C with 96% relative humidity.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using Qiagen Rneasy kit (Qiagen cat. no. 74104), starting from total cell lysates.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin-labeled, fragmented cRNA probes were prepared starting from 1.5 µg of total RNA per replicate sample, using the ‘One-Cycle Target Labeling and Control Reagents’ (Affymetrix, Santa Clara, CA) according to the protocols included in the Affymetrix GeneChip Expression Analysis Technical Manual (www.affymetrix.com).
| | Sample_hyb_protocol | Samples were hybridized onto Affymetrix GeneChip® Human Genome U133 Plus 2.0 Arrays and processed as per manufacturer’s instructions using ‘GeneChip® Hybridization, Wash, and Stain Kit’ components (Affymetrix, Santa Clara, CA).
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip® Scanner 3000.
| | Sample_data_processing | Scanned images were first inspected for quality control (QC) using a variety of built-in QC tools from the Bioconductor package [www.bioconductor.org] of R, the open source environment for statistical analysis. Feature intensity values from scanned arrays were normalised and reduced to expression summaries using MAS5 implemented in the R statistical environment.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Roberta,,Bosotti
| | Sample_contact_email | roberta.bosotti@nervianoms.com
| | Sample_contact_laboratory | Genomics
| | Sample_contact_department | Biotechnology
| | Sample_contact_institute | Nerviano Medical Sciences srl
| | Sample_contact_address | viale Pasteur,10
| | Sample_contact_city | Nerviano
| | Sample_contact_state | MI
| | Sample_contact_zip/postal_code | 20014
| | Sample_contact_country | Italy
| | Sample_contact_web_link | http://www.nervianoms.com/cont/en/
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM490nnn/GSM490036/suppl/GSM490036.CEL.gz
| | Sample_series_id | GSE18552
| | Sample_series_id | GSE19638
| | Sample_data_row_count | 54675
| | |
|
GSM490037 | GPL570 |
|
MCF7 treated with doxo, rep1
|
MCF7, doxo
|
cell line: MCF7
cell type: adenocarcinoma mammary cells
treatment: doxorubicin
|
Gene expression data from MCF7 treated with doxo.
|
| Sample_geo_accession | GSM490037
| | Sample_status | Public on Jul 14 2010
| | Sample_submission_date | Dec 23 2009
| | Sample_last_update_date | Jul 09 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | After 24 hours, cells were treated with the different compounds at a dose equal to 5 times the IC50 for 6 hours and collected using Qiagen lysis buffer RLT (Qiagen cat no. 79216).
| | Sample_growth_protocol_ch1 | MCF7 (human adenocarcinoma mammary) from ECACC were seeded in T-75 tissue culture flasks (Corning), 25.000 cells/cm2 in RPMI 1640 (Gibco), pH 7.4, 10% FBS (EUROCLONE Australia-USDA approved, cat. ECSO170D, lot.EUS003383), 2mM L-Glutamine (Gibco), 1x Penicillin-Streptomycin (Gibco) and maintained in 5% CO2 at 37°C with 96% relative humidity.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using Qiagen Rneasy kit (Qiagen cat. no. 74104), starting from total cell lysates.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin-labeled, fragmented cRNA probes were prepared starting from 1.5 µg of total RNA per replicate sample, using the ‘One-Cycle Target Labeling and Control Reagents’ (Affymetrix, Santa Clara, CA) according to the protocols included in the Affymetrix GeneChip Expression Analysis Technical Manual (www.affymetrix.com).
| | Sample_hyb_protocol | Samples were hybridized onto Affymetrix GeneChip® Human Genome U133 Plus 2.0 Arrays and processed as per manufacturer’s instructions using ‘GeneChip® Hybridization, Wash, and Stain Kit’ components (Affymetrix, Santa Clara, CA).
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip® Scanner 3000.
| | Sample_data_processing | Scanned images were first inspected for quality control (QC) using a variety of built-in QC tools from the Bioconductor package [www.bioconductor.org] of R, the open source environment for statistical analysis. Feature intensity values from scanned arrays were normalised and reduced to expression summaries using MAS5 implemented in the R statistical environment.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Roberta,,Bosotti
| | Sample_contact_email | roberta.bosotti@nervianoms.com
| | Sample_contact_laboratory | Genomics
| | Sample_contact_department | Biotechnology
| | Sample_contact_institute | Nerviano Medical Sciences srl
| | Sample_contact_address | viale Pasteur,10
| | Sample_contact_city | Nerviano
| | Sample_contact_state | MI
| | Sample_contact_zip/postal_code | 20014
| | Sample_contact_country | Italy
| | Sample_contact_web_link | http://www.nervianoms.com/cont/en/
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM490nnn/GSM490037/suppl/GSM490037.CEL.gz
| | Sample_series_id | GSE18552
| | Sample_series_id | GSE19638
| | Sample_data_row_count | 54675
| | |
|
GSM490038 | GPL570 |
|
MCF7 treated with doxo, rep2
|
MCF7, doxo
|
cell line: MCF7
cell type: adenocarcinoma mammary cells
treatment: doxorubicin
|
Gene expression data from MCF7 treated with doxo.
|
| Sample_geo_accession | GSM490038
| | Sample_status | Public on Jul 14 2010
| | Sample_submission_date | Dec 23 2009
| | Sample_last_update_date | Jul 09 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | After 24 hours, cells were treated with the different compounds at a dose equal to 5 times the IC50 for 6 hours and collected using Qiagen lysis buffer RLT (Qiagen cat no. 79216).
| | Sample_growth_protocol_ch1 | MCF7 (human adenocarcinoma mammary) from ECACC were seeded in T-75 tissue culture flasks (Corning), 25.000 cells/cm2 in RPMI 1640 (Gibco), pH 7.4, 10% FBS (EUROCLONE Australia-USDA approved, cat. ECSO170D, lot.EUS003383), 2mM L-Glutamine (Gibco), 1x Penicillin-Streptomycin (Gibco) and maintained in 5% CO2 at 37°C with 96% relative humidity.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using Qiagen Rneasy kit (Qiagen cat. no. 74104), starting from total cell lysates.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin-labeled, fragmented cRNA probes were prepared starting from 1.5 µg of total RNA per replicate sample, using the ‘One-Cycle Target Labeling and Control Reagents’ (Affymetrix, Santa Clara, CA) according to the protocols included in the Affymetrix GeneChip Expression Analysis Technical Manual (www.affymetrix.com).
| | Sample_hyb_protocol | Samples were hybridized onto Affymetrix GeneChip® Human Genome U133 Plus 2.0 Arrays and processed as per manufacturer’s instructions using ‘GeneChip® Hybridization, Wash, and Stain Kit’ components (Affymetrix, Santa Clara, CA).
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip® Scanner 3000.
| | Sample_data_processing | Scanned images were first inspected for quality control (QC) using a variety of built-in QC tools from the Bioconductor package [www.bioconductor.org] of R, the open source environment for statistical analysis. Feature intensity values from scanned arrays were normalised and reduced to expression summaries using MAS5 implemented in the R statistical environment.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Roberta,,Bosotti
| | Sample_contact_email | roberta.bosotti@nervianoms.com
| | Sample_contact_laboratory | Genomics
| | Sample_contact_department | Biotechnology
| | Sample_contact_institute | Nerviano Medical Sciences srl
| | Sample_contact_address | viale Pasteur,10
| | Sample_contact_city | Nerviano
| | Sample_contact_state | MI
| | Sample_contact_zip/postal_code | 20014
| | Sample_contact_country | Italy
| | Sample_contact_web_link | http://www.nervianoms.com/cont/en/
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM490nnn/GSM490038/suppl/GSM490038.CEL.gz
| | Sample_series_id | GSE18552
| | Sample_series_id | GSE19638
| | Sample_data_row_count | 54675
| | |
|
GSM490039 | GPL570 |
|
MCF7 treated with E973, rep1
|
MCF7, E973
|
cell line: MCF7
cell type: adenocarcinoma mammary cells
treatment: E973
|
Gene expression data from MCF7 treated with E973.
|
| Sample_geo_accession | GSM490039
| | Sample_status | Public on Jul 14 2010
| | Sample_submission_date | Dec 23 2009
| | Sample_last_update_date | Jul 09 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | After 24 hours, cells were treated with the different compounds at a dose equal to 5 times the IC50 for 6 hours and collected using Qiagen lysis buffer RLT (Qiagen cat no. 79216).
| | Sample_growth_protocol_ch1 | MCF7 (human adenocarcinoma mammary) from ECACC were seeded in T-75 tissue culture flasks (Corning), 25.000 cells/cm2 in RPMI 1640 (Gibco), pH 7.4, 10% FBS (EUROCLONE Australia-USDA approved, cat. ECSO170D, lot.EUS003383), 2mM L-Glutamine (Gibco), 1x Penicillin-Streptomycin (Gibco) and maintained in 5% CO2 at 37°C with 96% relative humidity.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using Qiagen Rneasy kit (Qiagen cat. no. 74104), starting from total cell lysates.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin-labeled, fragmented cRNA probes were prepared starting from 1.5 µg of total RNA per replicate sample, using the ‘One-Cycle Target Labeling and Control Reagents’ (Affymetrix, Santa Clara, CA) according to the protocols included in the Affymetrix GeneChip Expression Analysis Technical Manual (www.affymetrix.com).
| | Sample_hyb_protocol | Samples were hybridized onto Affymetrix GeneChip® Human Genome U133 Plus 2.0 Arrays and processed as per manufacturer’s instructions using ‘GeneChip® Hybridization, Wash, and Stain Kit’ components (Affymetrix, Santa Clara, CA).
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip® Scanner 3000.
| | Sample_data_processing | Scanned images were first inspected for quality control (QC) using a variety of built-in QC tools from the Bioconductor package [www.bioconductor.org] of R, the open source environment for statistical analysis. Feature intensity values from scanned arrays were normalised and reduced to expression summaries using MAS5 implemented in the R statistical environment.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Roberta,,Bosotti
| | Sample_contact_email | roberta.bosotti@nervianoms.com
| | Sample_contact_laboratory | Genomics
| | Sample_contact_department | Biotechnology
| | Sample_contact_institute | Nerviano Medical Sciences srl
| | Sample_contact_address | viale Pasteur,10
| | Sample_contact_city | Nerviano
| | Sample_contact_state | MI
| | Sample_contact_zip/postal_code | 20014
| | Sample_contact_country | Italy
| | Sample_contact_web_link | http://www.nervianoms.com/cont/en/
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM490nnn/GSM490039/suppl/GSM490039.CEL.gz
| | Sample_series_id | GSE18552
| | Sample_series_id | GSE19638
| | Sample_data_row_count | 54675
| | |
|
GSM490040 | GPL570 |
|
MCF7 treated with E973, rep2
|
MCF7, E973
|
cell line: MCF7
cell type: adenocarcinoma mammary cells
treatment: E973
|
Gene expression data from MCF7 treated with E973.
|
| Sample_geo_accession | GSM490040
| | Sample_status | Public on Jul 14 2010
| | Sample_submission_date | Dec 23 2009
| | Sample_last_update_date | Jul 09 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | After 24 hours, cells were treated with the different compounds at a dose equal to 5 times the IC50 for 6 hours and collected using Qiagen lysis buffer RLT (Qiagen cat no. 79216).
| | Sample_growth_protocol_ch1 | MCF7 (human adenocarcinoma mammary) from ECACC were seeded in T-75 tissue culture flasks (Corning), 25.000 cells/cm2 in RPMI 1640 (Gibco), pH 7.4, 10% FBS (EUROCLONE Australia-USDA approved, cat. ECSO170D, lot.EUS003383), 2mM L-Glutamine (Gibco), 1x Penicillin-Streptomycin (Gibco) and maintained in 5% CO2 at 37°C with 96% relative humidity.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using Qiagen Rneasy kit (Qiagen cat. no. 74104), starting from total cell lysates.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin-labeled, fragmented cRNA probes were prepared starting from 1.5 µg of total RNA per replicate sample, using the ‘One-Cycle Target Labeling and Control Reagents’ (Affymetrix, Santa Clara, CA) according to the protocols included in the Affymetrix GeneChip Expression Analysis Technical Manual (www.affymetrix.com).
| | Sample_hyb_protocol | Samples were hybridized onto Affymetrix GeneChip® Human Genome U133 Plus 2.0 Arrays and processed as per manufacturer’s instructions using ‘GeneChip® Hybridization, Wash, and Stain Kit’ components (Affymetrix, Santa Clara, CA).
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip® Scanner 3000.
| | Sample_data_processing | Scanned images were first inspected for quality control (QC) using a variety of built-in QC tools from the Bioconductor package [www.bioconductor.org] of R, the open source environment for statistical analysis. Feature intensity values from scanned arrays were normalised and reduced to expression summaries using MAS5 implemented in the R statistical environment.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Roberta,,Bosotti
| | Sample_contact_email | roberta.bosotti@nervianoms.com
| | Sample_contact_laboratory | Genomics
| | Sample_contact_department | Biotechnology
| | Sample_contact_institute | Nerviano Medical Sciences srl
| | Sample_contact_address | viale Pasteur,10
| | Sample_contact_city | Nerviano
| | Sample_contact_state | MI
| | Sample_contact_zip/postal_code | 20014
| | Sample_contact_country | Italy
| | Sample_contact_web_link | http://www.nervianoms.com/cont/en/
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM490nnn/GSM490040/suppl/GSM490040.CEL.gz
| | Sample_series_id | GSE18552
| | Sample_series_id | GSE19638
| | Sample_data_row_count | 54675
| | |
|
GSM490041 | GPL570 |
|
MCF7 treated with SN38, rep1
|
MCF7, SN38
|
cell line: MCF7
cell type: adenocarcinoma mammary cells
treatment: SN38
|
Gene expression data from MCF7 treated with SN38.
|
| Sample_geo_accession | GSM490041
| | Sample_status | Public on Jul 14 2010
| | Sample_submission_date | Dec 23 2009
| | Sample_last_update_date | Jul 09 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | After 24 hours, cells were treated with the different compounds at a dose equal to 5 times the IC50 for 6 hours and collected using Qiagen lysis buffer RLT (Qiagen cat no. 79216).
| | Sample_growth_protocol_ch1 | MCF7 (human adenocarcinoma mammary) from ECACC were seeded in T-75 tissue culture flasks (Corning), 25.000 cells/cm2 in RPMI 1640 (Gibco), pH 7.4, 10% FBS (EUROCLONE Australia-USDA approved, cat. ECSO170D, lot.EUS003383), 2mM L-Glutamine (Gibco), 1x Penicillin-Streptomycin (Gibco) and maintained in 5% CO2 at 37°C with 96% relative humidity.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using Qiagen Rneasy kit (Qiagen cat. no. 74104), starting from total cell lysates.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin-labeled, fragmented cRNA probes were prepared starting from 1.5 µg of total RNA per replicate sample, using the ‘One-Cycle Target Labeling and Control Reagents’ (Affymetrix, Santa Clara, CA) according to the protocols included in the Affymetrix GeneChip Expression Analysis Technical Manual (www.affymetrix.com).
| | Sample_hyb_protocol | Samples were hybridized onto Affymetrix GeneChip® Human Genome U133 Plus 2.0 Arrays and processed as per manufacturer’s instructions using ‘GeneChip® Hybridization, Wash, and Stain Kit’ components (Affymetrix, Santa Clara, CA).
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip® Scanner 3000.
| | Sample_data_processing | Scanned images were first inspected for quality control (QC) using a variety of built-in QC tools from the Bioconductor package [www.bioconductor.org] of R, the open source environment for statistical analysis. Feature intensity values from scanned arrays were normalised and reduced to expression summaries using MAS5 implemented in the R statistical environment.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Roberta,,Bosotti
| | Sample_contact_email | roberta.bosotti@nervianoms.com
| | Sample_contact_laboratory | Genomics
| | Sample_contact_department | Biotechnology
| | Sample_contact_institute | Nerviano Medical Sciences srl
| | Sample_contact_address | viale Pasteur,10
| | Sample_contact_city | Nerviano
| | Sample_contact_state | MI
| | Sample_contact_zip/postal_code | 20014
| | Sample_contact_country | Italy
| | Sample_contact_web_link | http://www.nervianoms.com/cont/en/
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM490nnn/GSM490041/suppl/GSM490041.CEL.gz
| | Sample_series_id | GSE18552
| | Sample_series_id | GSE19638
| | Sample_data_row_count | 54675
| | |
|
GSM490042 | GPL570 |
|
MCF7 treated with SN38, rep2
|
MCF7, SN38
|
cell line: MCF7
cell type: adenocarcinoma mammary cells
treatment: SN38
|
Gene expression data from MCF7 treated with SN38.
|
| Sample_geo_accession | GSM490042
| | Sample_status | Public on Jul 14 2010
| | Sample_submission_date | Dec 23 2009
| | Sample_last_update_date | Jul 09 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | After 24 hours, cells were treated with the different compounds at a dose equal to 5 times the IC50 for 6 hours and collected using Qiagen lysis buffer RLT (Qiagen cat no. 79216).
| | Sample_growth_protocol_ch1 | MCF7 (human adenocarcinoma mammary) from ECACC were seeded in T-75 tissue culture flasks (Corning), 25.000 cells/cm2 in RPMI 1640 (Gibco), pH 7.4, 10% FBS (EUROCLONE Australia-USDA approved, cat. ECSO170D, lot.EUS003383), 2mM L-Glutamine (Gibco), 1x Penicillin-Streptomycin (Gibco) and maintained in 5% CO2 at 37°C with 96% relative humidity.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using Qiagen Rneasy kit (Qiagen cat. no. 74104), starting from total cell lysates.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin-labeled, fragmented cRNA probes were prepared starting from 1.5 µg of total RNA per replicate sample, using the ‘One-Cycle Target Labeling and Control Reagents’ (Affymetrix, Santa Clara, CA) according to the protocols included in the Affymetrix GeneChip Expression Analysis Technical Manual (www.affymetrix.com).
| | Sample_hyb_protocol | Samples were hybridized onto Affymetrix GeneChip® Human Genome U133 Plus 2.0 Arrays and processed as per manufacturer’s instructions using ‘GeneChip® Hybridization, Wash, and Stain Kit’ components (Affymetrix, Santa Clara, CA).
| | Sample_scan_protocol | GeneChips were scanned using the GeneChip® Scanner 3000.
| | Sample_data_processing | Scanned images were first inspected for quality control (QC) using a variety of built-in QC tools from the Bioconductor package [www.bioconductor.org] of R, the open source environment for statistical analysis. Feature intensity values from scanned arrays were normalised and reduced to expression summaries using MAS5 implemented in the R statistical environment.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Roberta,,Bosotti
| | Sample_contact_email | roberta.bosotti@nervianoms.com
| | Sample_contact_laboratory | Genomics
| | Sample_contact_department | Biotechnology
| | Sample_contact_institute | Nerviano Medical Sciences srl
| | Sample_contact_address | viale Pasteur,10
| | Sample_contact_city | Nerviano
| | Sample_contact_state | MI
| | Sample_contact_zip/postal_code | 20014
| | Sample_contact_country | Italy
| | Sample_contact_web_link | http://www.nervianoms.com/cont/en/
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM490nnn/GSM490042/suppl/GSM490042.CEL.gz
| | Sample_series_id | GSE18552
| | Sample_series_id | GSE19638
| | Sample_data_row_count | 54675
| | |
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