Search results for the GEO ID: GSE46924  |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM1141235 | GPL570 |
|
E2_27-OH_166
|
MCF-7_E2_27-OH
|
cell line: MCF-7
cell type: human breast adenocarcinoma cells
treated with: 1 nM final conc. E2 + 1 uM 27-Hydroxycholesterol (27HC) for 24hr
batch: 1
|
|
| Sample_geo_accession | GSM1141235
| | Sample_status | Public on Aug 01 2013
| | Sample_submission_date | May 14 2013
| | Sample_last_update_date | Aug 01 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | 48 hours after plating, cells were treated with ER ligands using 1 nM final concentration vehicle (ethanol) or E2 in the presence of vehicle (ethanol) or 27HC (1uM). After 24 hours treatment, cells were washed once in PBS prior to lysis.
| | Sample_growth_protocol_ch1 | MCF7 cells were plated in 6 well culture dishes at a density of 4x105 cells per well.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA isolation (BioRad, Aurum total RNA mini kit) was performed per kit manufacturer’s instructions.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Ambion MessageAmp Premier Labeling
| | Sample_hyb_protocol | Gene Chip hG-133 plus 2.0 (Affymetrix)
| | Sample_scan_protocol | Axon Genepix 4000B Scanner
| | Sample_data_processing | Raw data was background corrected with RMA, Log2 transformed, and summarized by median polish using the Affy package (v.1.36.1) in Bioconductor (v.2.15.2).
| | Sample_data_processing | Log2 RMA, quantile normalization, summary by median polish, adjusted for batch effects.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Jeff,,Jasper
| | Sample_contact_laboratory | McDonnell
| | Sample_contact_department | Pharmacology and Cancer Biology
| | Sample_contact_institute | Duke University
| | Sample_contact_address | Box 3813
| | Sample_contact_city | Durham
| | Sample_contact_state | NC
| | Sample_contact_zip/postal_code | 27710
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1141nnn/GSM1141235/suppl/GSM1141235_2060_4367_24171_166.0_HG-U133+Plus+2.CEL.gz
| | Sample_series_id | GSE46924
| | Sample_data_row_count | 54675
| | |
|
GSM1141236 | GPL570 |
|
E2_27-OH_167
|
MCF-7_E2_27-OH
|
cell line: MCF-7
cell type: human breast adenocarcinoma cells
treated with: 1 nM final conc. E2 + 1 uM 27-Hydroxycholesterol (27HC) for 24hr
batch: 2
|
|
| Sample_geo_accession | GSM1141236
| | Sample_status | Public on Aug 01 2013
| | Sample_submission_date | May 14 2013
| | Sample_last_update_date | Aug 01 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | 48 hours after plating, cells were treated with ER ligands using 1 nM final concentration vehicle (ethanol) or E2 in the presence of vehicle (ethanol) or 27HC (1uM). After 24 hours treatment, cells were washed once in PBS prior to lysis.
| | Sample_growth_protocol_ch1 | MCF7 cells were plated in 6 well culture dishes at a density of 4x105 cells per well.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA isolation (BioRad, Aurum total RNA mini kit) was performed per kit manufacturer’s instructions.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Ambion MessageAmp Premier Labeling
| | Sample_hyb_protocol | Gene Chip hG-133 plus 2.0 (Affymetrix)
| | Sample_scan_protocol | Axon Genepix 4000B Scanner
| | Sample_data_processing | Raw data was background corrected with RMA, Log2 transformed, and summarized by median polish using the Affy package (v.1.36.1) in Bioconductor (v.2.15.2).
| | Sample_data_processing | Log2 RMA, quantile normalization, summary by median polish, adjusted for batch effects.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Jeff,,Jasper
| | Sample_contact_laboratory | McDonnell
| | Sample_contact_department | Pharmacology and Cancer Biology
| | Sample_contact_institute | Duke University
| | Sample_contact_address | Box 3813
| | Sample_contact_city | Durham
| | Sample_contact_state | NC
| | Sample_contact_zip/postal_code | 27710
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1141nnn/GSM1141236/suppl/GSM1141236_2060_4367_24172_167.0_HG-U133+Plus+2.CEL.gz
| | Sample_series_id | GSE46924
| | Sample_data_row_count | 54675
| | |
|
GSM1141237 | GPL570 |
|
E2_27-OH_168
|
MCF-7_E2_27-OH
|
cell line: MCF-7
cell type: human breast adenocarcinoma cells
treated with: 1 nM final conc. E2 + 1 uM 27-Hydroxycholesterol (27HC) for 24hr
batch: 3
|
|
| Sample_geo_accession | GSM1141237
| | Sample_status | Public on Aug 01 2013
| | Sample_submission_date | May 14 2013
| | Sample_last_update_date | Aug 01 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | 48 hours after plating, cells were treated with ER ligands using 1 nM final concentration vehicle (ethanol) or E2 in the presence of vehicle (ethanol) or 27HC (1uM). After 24 hours treatment, cells were washed once in PBS prior to lysis.
| | Sample_growth_protocol_ch1 | MCF7 cells were plated in 6 well culture dishes at a density of 4x105 cells per well.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA isolation (BioRad, Aurum total RNA mini kit) was performed per kit manufacturer’s instructions.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Ambion MessageAmp Premier Labeling
| | Sample_hyb_protocol | Gene Chip hG-133 plus 2.0 (Affymetrix)
| | Sample_scan_protocol | Axon Genepix 4000B Scanner
| | Sample_data_processing | Raw data was background corrected with RMA, Log2 transformed, and summarized by median polish using the Affy package (v.1.36.1) in Bioconductor (v.2.15.2).
| | Sample_data_processing | Log2 RMA, quantile normalization, summary by median polish, adjusted for batch effects.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Jeff,,Jasper
| | Sample_contact_laboratory | McDonnell
| | Sample_contact_department | Pharmacology and Cancer Biology
| | Sample_contact_institute | Duke University
| | Sample_contact_address | Box 3813
| | Sample_contact_city | Durham
| | Sample_contact_state | NC
| | Sample_contact_zip/postal_code | 27710
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1141nnn/GSM1141237/suppl/GSM1141237_2060_4367_24173_168.0_HG-U133+Plus+2.CEL.gz
| | Sample_series_id | GSE46924
| | Sample_data_row_count | 54675
| | |
|
GSM1141238 | GPL570 |
|
ethanol_27-OH_163
|
MCF-7_ethanol_27-OH
|
cell line: MCF-7
cell type: human breast adenocarcinoma cells
treated with: 1 nM final conc. vehicle (ethanol) + 1 uM 27-Hydroxycholesterol (27HC) for 24hr
batch: 1
|
|
| Sample_geo_accession | GSM1141238
| | Sample_status | Public on Aug 01 2013
| | Sample_submission_date | May 14 2013
| | Sample_last_update_date | Aug 01 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | 48 hours after plating, cells were treated with ER ligands using 1 nM final concentration vehicle (ethanol) or E2 in the presence of vehicle (ethanol) or 27HC (1uM). After 24 hours treatment, cells were washed once in PBS prior to lysis.
| | Sample_growth_protocol_ch1 | MCF7 cells were plated in 6 well culture dishes at a density of 4x105 cells per well.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA isolation (BioRad, Aurum total RNA mini kit) was performed per kit manufacturer’s instructions.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Ambion MessageAmp Premier Labeling
| | Sample_hyb_protocol | Gene Chip hG-133 plus 2.0 (Affymetrix)
| | Sample_scan_protocol | Axon Genepix 4000B Scanner
| | Sample_data_processing | Raw data was background corrected with RMA, Log2 transformed, and summarized by median polish using the Affy package (v.1.36.1) in Bioconductor (v.2.15.2).
| | Sample_data_processing | Log2 RMA, quantile normalization, summary by median polish, adjusted for batch effects.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Jeff,,Jasper
| | Sample_contact_laboratory | McDonnell
| | Sample_contact_department | Pharmacology and Cancer Biology
| | Sample_contact_institute | Duke University
| | Sample_contact_address | Box 3813
| | Sample_contact_city | Durham
| | Sample_contact_state | NC
| | Sample_contact_zip/postal_code | 27710
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1141nnn/GSM1141238/suppl/GSM1141238_2060_4367_24168_163.0_HG-U133+Plus+2.CEL.gz
| | Sample_series_id | GSE46924
| | Sample_data_row_count | 54675
| | |
|
GSM1141239 | GPL570 |
|
ethanol_27-OH_164
|
MCF-7_ethanol_27-OH
|
cell line: MCF-7
cell type: human breast adenocarcinoma cells
treated with: 1 nM final conc. vehicle (ethanol) + 1 uM 27-Hydroxycholesterol (27HC) for 24hr
batch: 2
|
|
| Sample_geo_accession | GSM1141239
| | Sample_status | Public on Aug 01 2013
| | Sample_submission_date | May 14 2013
| | Sample_last_update_date | Aug 01 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | 48 hours after plating, cells were treated with ER ligands using 1 nM final concentration vehicle (ethanol) or E2 in the presence of vehicle (ethanol) or 27HC (1uM). After 24 hours treatment, cells were washed once in PBS prior to lysis.
| | Sample_growth_protocol_ch1 | MCF7 cells were plated in 6 well culture dishes at a density of 4x105 cells per well.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA isolation (BioRad, Aurum total RNA mini kit) was performed per kit manufacturer’s instructions.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Ambion MessageAmp Premier Labeling
| | Sample_hyb_protocol | Gene Chip hG-133 plus 2.0 (Affymetrix)
| | Sample_scan_protocol | Axon Genepix 4000B Scanner
| | Sample_data_processing | Raw data was background corrected with RMA, Log2 transformed, and summarized by median polish using the Affy package (v.1.36.1) in Bioconductor (v.2.15.2).
| | Sample_data_processing | Log2 RMA, quantile normalization, summary by median polish, adjusted for batch effects.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Jeff,,Jasper
| | Sample_contact_laboratory | McDonnell
| | Sample_contact_department | Pharmacology and Cancer Biology
| | Sample_contact_institute | Duke University
| | Sample_contact_address | Box 3813
| | Sample_contact_city | Durham
| | Sample_contact_state | NC
| | Sample_contact_zip/postal_code | 27710
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1141nnn/GSM1141239/suppl/GSM1141239_2060_4367_24169_164.0_HG-U133+Plus+2.CEL.gz
| | Sample_series_id | GSE46924
| | Sample_data_row_count | 54675
| | |
|
GSM1141240 | GPL570 |
|
ethanol_27-OH_165
|
MCF-7_ethanol_27-OH
|
cell line: MCF-7
cell type: human breast adenocarcinoma cells
treated with: 1 nM final conc. vehicle (ethanol) + 1 uM 27-Hydroxycholesterol (27HC) for 24hr
batch: 3
|
|
| Sample_geo_accession | GSM1141240
| | Sample_status | Public on Aug 01 2013
| | Sample_submission_date | May 14 2013
| | Sample_last_update_date | Aug 01 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | 48 hours after plating, cells were treated with ER ligands using 1 nM final concentration vehicle (ethanol) or E2 in the presence of vehicle (ethanol) or 27HC (1uM). After 24 hours treatment, cells were washed once in PBS prior to lysis.
| | Sample_growth_protocol_ch1 | MCF7 cells were plated in 6 well culture dishes at a density of 4x105 cells per well.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA isolation (BioRad, Aurum total RNA mini kit) was performed per kit manufacturer’s instructions.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Ambion MessageAmp Premier Labeling
| | Sample_hyb_protocol | Gene Chip hG-133 plus 2.0 (Affymetrix)
| | Sample_scan_protocol | Axon Genepix 4000B Scanner
| | Sample_data_processing | Raw data was background corrected with RMA, Log2 transformed, and summarized by median polish using the Affy package (v.1.36.1) in Bioconductor (v.2.15.2).
| | Sample_data_processing | Log2 RMA, quantile normalization, summary by median polish, adjusted for batch effects.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Jeff,,Jasper
| | Sample_contact_laboratory | McDonnell
| | Sample_contact_department | Pharmacology and Cancer Biology
| | Sample_contact_institute | Duke University
| | Sample_contact_address | Box 3813
| | Sample_contact_city | Durham
| | Sample_contact_state | NC
| | Sample_contact_zip/postal_code | 27710
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1141nnn/GSM1141240/suppl/GSM1141240_2060_4367_24170_165.0_HG-U133+Plus+2.CEL.gz
| | Sample_series_id | GSE46924
| | Sample_data_row_count | 54675
| | |
|
GSM1141241 | GPL570 |
|
E2_ethanol_21
|
MCF-7_E2_ethanol
|
cell line: MCF-7
cell type: human breast adenocarcinoma cells
treated with: 1 nM final conc. E2 + 1 uM vehicle (ethanol) for 24hr
batch: 1
|
|
| Sample_geo_accession | GSM1141241
| | Sample_status | Public on Aug 01 2013
| | Sample_submission_date | May 14 2013
| | Sample_last_update_date | Aug 01 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | 48 hours after plating, cells were treated with ER ligands using 1 nM final concentration vehicle (ethanol) or E2 in the presence of vehicle (ethanol) or 27HC (1uM). After 24 hours treatment, cells were washed once in PBS prior to lysis.
| | Sample_growth_protocol_ch1 | MCF7 cells were plated in 6 well culture dishes at a density of 4x105 cells per well.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA isolation (BioRad, Aurum total RNA mini kit) was performed per kit manufacturer’s instructions.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Ambion MessageAmp Premier Labeling
| | Sample_hyb_protocol | Gene Chip hG-133 plus 2.0 (Affymetrix)
| | Sample_scan_protocol | Axon Genepix 4000B Scanner
| | Sample_data_processing | Raw data was background corrected with RMA, Log2 transformed, and summarized by median polish using the Affy package (v.1.36.1) in Bioconductor (v.2.15.2).
| | Sample_data_processing | Log2 RMA, quantile normalization, summary by median polish, adjusted for batch effects.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Jeff,,Jasper
| | Sample_contact_laboratory | McDonnell
| | Sample_contact_department | Pharmacology and Cancer Biology
| | Sample_contact_institute | Duke University
| | Sample_contact_address | Box 3813
| | Sample_contact_city | Durham
| | Sample_contact_state | NC
| | Sample_contact_zip/postal_code | 27710
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1141nnn/GSM1141241/suppl/GSM1141241_2060_4367_24026_21.0_HG-U133+Plus+2.CEL.gz
| | Sample_series_id | GSE46924
| | Sample_data_row_count | 54675
| | |
|
GSM1141242 | GPL570 |
|
E2_ethanol_36
|
MCF-7_E2_ethanol
|
cell line: MCF-7
cell type: human breast adenocarcinoma cells
treated with: 1 nM final conc. E2 + 1 uM vehicle (ethanol) for 24hr
batch: 2
|
|
| Sample_geo_accession | GSM1141242
| | Sample_status | Public on Aug 01 2013
| | Sample_submission_date | May 14 2013
| | Sample_last_update_date | Aug 01 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | 48 hours after plating, cells were treated with ER ligands using 1 nM final concentration vehicle (ethanol) or E2 in the presence of vehicle (ethanol) or 27HC (1uM). After 24 hours treatment, cells were washed once in PBS prior to lysis.
| | Sample_growth_protocol_ch1 | MCF7 cells were plated in 6 well culture dishes at a density of 4x105 cells per well.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA isolation (BioRad, Aurum total RNA mini kit) was performed per kit manufacturer’s instructions.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Ambion MessageAmp Premier Labeling
| | Sample_hyb_protocol | Gene Chip hG-133 plus 2.0 (Affymetrix)
| | Sample_scan_protocol | Axon Genepix 4000B Scanner
| | Sample_data_processing | Raw data was background corrected with RMA, Log2 transformed, and summarized by median polish using the Affy package (v.1.36.1) in Bioconductor (v.2.15.2).
| | Sample_data_processing | Log2 RMA, quantile normalization, summary by median polish, adjusted for batch effects.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Jeff,,Jasper
| | Sample_contact_laboratory | McDonnell
| | Sample_contact_department | Pharmacology and Cancer Biology
| | Sample_contact_institute | Duke University
| | Sample_contact_address | Box 3813
| | Sample_contact_city | Durham
| | Sample_contact_state | NC
| | Sample_contact_zip/postal_code | 27710
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1141nnn/GSM1141242/suppl/GSM1141242_2060_4367_24041_36.0_HG-U133+Plus+2.CEL.gz
| | Sample_series_id | GSE46924
| | Sample_data_row_count | 54675
| | |
|
GSM1141243 | GPL570 |
|
E2_ethanol_96
|
MCF-7_E2_ethanol
|
cell line: MCF-7
cell type: human breast adenocarcinoma cells
treated with: 1 nM final conc. E2 + 1 uM vehicle (ethanol) for 24hr
batch: 3
|
|
| Sample_geo_accession | GSM1141243
| | Sample_status | Public on Aug 01 2013
| | Sample_submission_date | May 14 2013
| | Sample_last_update_date | Aug 01 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | 48 hours after plating, cells were treated with ER ligands using 1 nM final concentration vehicle (ethanol) or E2 in the presence of vehicle (ethanol) or 27HC (1uM). After 24 hours treatment, cells were washed once in PBS prior to lysis.
| | Sample_growth_protocol_ch1 | MCF7 cells were plated in 6 well culture dishes at a density of 4x105 cells per well.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA isolation (BioRad, Aurum total RNA mini kit) was performed per kit manufacturer’s instructions.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Ambion MessageAmp Premier Labeling
| | Sample_hyb_protocol | Gene Chip hG-133 plus 2.0 (Affymetrix)
| | Sample_scan_protocol | Axon Genepix 4000B Scanner
| | Sample_data_processing | Raw data was background corrected with RMA, Log2 transformed, and summarized by median polish using the Affy package (v.1.36.1) in Bioconductor (v.2.15.2).
| | Sample_data_processing | Log2 RMA, quantile normalization, summary by median polish, adjusted for batch effects.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Jeff,,Jasper
| | Sample_contact_laboratory | McDonnell
| | Sample_contact_department | Pharmacology and Cancer Biology
| | Sample_contact_institute | Duke University
| | Sample_contact_address | Box 3813
| | Sample_contact_city | Durham
| | Sample_contact_state | NC
| | Sample_contact_zip/postal_code | 27710
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1141nnn/GSM1141243/suppl/GSM1141243_2060_4367_24101_96.0_HG-U133+Plus+2.CEL.gz
| | Sample_series_id | GSE46924
| | Sample_data_row_count | 54675
| | |
|
GSM1141244 | GPL570 |
|
ethanol_ethanol_16
|
MCF-7_ethanol_ethanol
|
cell line: MCF-7
cell type: human breast adenocarcinoma cells
treated with: 1 nM final conc. vehicle (ethanol) + 1 uM vehicle (ethanol) for 24hr
batch: 1
|
|
| Sample_geo_accession | GSM1141244
| | Sample_status | Public on Aug 01 2013
| | Sample_submission_date | May 14 2013
| | Sample_last_update_date | Aug 01 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | 48 hours after plating, cells were treated with ER ligands using 1 nM final concentration vehicle (ethanol) or E2 in the presence of vehicle (ethanol) or 27HC (1uM). After 24 hours treatment, cells were washed once in PBS prior to lysis.
| | Sample_growth_protocol_ch1 | MCF7 cells were plated in 6 well culture dishes at a density of 4x105 cells per well.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA isolation (BioRad, Aurum total RNA mini kit) was performed per kit manufacturer’s instructions.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Ambion MessageAmp Premier Labeling
| | Sample_hyb_protocol | Gene Chip hG-133 plus 2.0 (Affymetrix)
| | Sample_scan_protocol | Axon Genepix 4000B Scanner
| | Sample_data_processing | Raw data was background corrected with RMA, Log2 transformed, and summarized by median polish using the Affy package (v.1.36.1) in Bioconductor (v.2.15.2).
| | Sample_data_processing | Log2 RMA, quantile normalization, summary by median polish, adjusted for batch effects.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Jeff,,Jasper
| | Sample_contact_laboratory | McDonnell
| | Sample_contact_department | Pharmacology and Cancer Biology
| | Sample_contact_institute | Duke University
| | Sample_contact_address | Box 3813
| | Sample_contact_city | Durham
| | Sample_contact_state | NC
| | Sample_contact_zip/postal_code | 27710
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1141nnn/GSM1141244/suppl/GSM1141244_2060_4367_24021_16.0_HG-U133+Plus+2.CEL.gz
| | Sample_series_id | GSE46924
| | Sample_data_row_count | 54675
| | |
|
GSM1141245 | GPL570 |
|
ethanol_ethanol_31
|
MCF-7_ethanol_ethanol
|
cell line: MCF-7
cell type: human breast adenocarcinoma cells
treated with: 1 nM final conc. vehicle (ethanol) + 1 uM vehicle (ethanol) for 24hr
batch: 2
|
|
| Sample_geo_accession | GSM1141245
| | Sample_status | Public on Aug 01 2013
| | Sample_submission_date | May 14 2013
| | Sample_last_update_date | Aug 01 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | 48 hours after plating, cells were treated with ER ligands using 1 nM final concentration vehicle (ethanol) or E2 in the presence of vehicle (ethanol) or 27HC (1uM). After 24 hours treatment, cells were washed once in PBS prior to lysis.
| | Sample_growth_protocol_ch1 | MCF7 cells were plated in 6 well culture dishes at a density of 4x105 cells per well.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA isolation (BioRad, Aurum total RNA mini kit) was performed per kit manufacturer’s instructions.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Ambion MessageAmp Premier Labeling
| | Sample_hyb_protocol | Gene Chip hG-133 plus 2.0 (Affymetrix)
| | Sample_scan_protocol | Axon Genepix 4000B Scanner
| | Sample_data_processing | Raw data was background corrected with RMA, Log2 transformed, and summarized by median polish using the Affy package (v.1.36.1) in Bioconductor (v.2.15.2).
| | Sample_data_processing | Log2 RMA, quantile normalization, summary by median polish, adjusted for batch effects.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Jeff,,Jasper
| | Sample_contact_laboratory | McDonnell
| | Sample_contact_department | Pharmacology and Cancer Biology
| | Sample_contact_institute | Duke University
| | Sample_contact_address | Box 3813
| | Sample_contact_city | Durham
| | Sample_contact_state | NC
| | Sample_contact_zip/postal_code | 27710
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1141nnn/GSM1141245/suppl/GSM1141245_2060_4367_24036_31.0_HG-U133+Plus+2.CEL.gz
| | Sample_series_id | GSE46924
| | Sample_data_row_count | 54675
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GSM1141246 | GPL570 |
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ethanol_ethanol_91
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MCF-7_ethanol_ethanol
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cell line: MCF-7
cell type: human breast adenocarcinoma cells
treated with: 1 nM final conc. vehicle (ethanol) + 1 uM vehicle (ethanol) for 24hr
batch: 3
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| Sample_geo_accession | GSM1141246
| | Sample_status | Public on Aug 01 2013
| | Sample_submission_date | May 14 2013
| | Sample_last_update_date | Aug 01 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | 48 hours after plating, cells were treated with ER ligands using 1 nM final concentration vehicle (ethanol) or E2 in the presence of vehicle (ethanol) or 27HC (1uM). After 24 hours treatment, cells were washed once in PBS prior to lysis.
| | Sample_growth_protocol_ch1 | MCF7 cells were plated in 6 well culture dishes at a density of 4x105 cells per well.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNA isolation (BioRad, Aurum total RNA mini kit) was performed per kit manufacturer’s instructions.
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | Ambion MessageAmp Premier Labeling
| | Sample_hyb_protocol | Gene Chip hG-133 plus 2.0 (Affymetrix)
| | Sample_scan_protocol | Axon Genepix 4000B Scanner
| | Sample_data_processing | Raw data was background corrected with RMA, Log2 transformed, and summarized by median polish using the Affy package (v.1.36.1) in Bioconductor (v.2.15.2).
| | Sample_data_processing | Log2 RMA, quantile normalization, summary by median polish, adjusted for batch effects.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Jeff,,Jasper
| | Sample_contact_laboratory | McDonnell
| | Sample_contact_department | Pharmacology and Cancer Biology
| | Sample_contact_institute | Duke University
| | Sample_contact_address | Box 3813
| | Sample_contact_city | Durham
| | Sample_contact_state | NC
| | Sample_contact_zip/postal_code | 27710
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM1141nnn/GSM1141246/suppl/GSM1141246_2060_4367_24096_91.0_HG-U133+Plus+2.CEL.gz
| | Sample_series_id | GSE46924
| | Sample_data_row_count | 54675
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