Search results for the GEO ID: GSE22250 |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM553873 | GPL570 |
|
Normal breast cell line MCF10A (expression data)
|
Normal breast cell line
|
conditions: Normal
treatment protocol: None
growth protocol: MCF10A WT cells were maintained in DMEM/F12 (1:1) medium (Gibco) supplemented with 10% fetal calf serum (Gibco).
cell line: MCF10A
|
|
Sample_geo_accession | GSM553873
| Sample_status | Public on Oct 19 2011
| Sample_submission_date | Jun 09 2010
| Sample_last_update_date | Oct 19 2011
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Isolation of RNA was performed using the Tripure method (Roche) according to the manufacturer instructions and was purified using RNeasy mini-columns (Qiagen, Valencia, CA). The quality of the RNA obtained from each tumour sample was assessed based on the RNA profile generated by the BioAnalyzer (Agilent Inc).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Approximately 1 microgram of total RNA was processed to produce biotinylated cRNA targets.
| Sample_hyb_protocol | standard Affymetrix procedures.
| Sample_scan_protocol | standard Affymetrix procedures.
| Sample_data_processing | RMA Bioconductor (default parameters) and log2 transformation.
| Sample_platform_id | GPL570
| Sample_contact_name | Benjamin,,Haibe-Kains
| Sample_contact_email | bhaibeka@ulb.ac.be
| Sample_contact_phone | +3225413428
| Sample_contact_laboratory | Functional Genomics Unit
| Sample_contact_institute | Institut Jules Bordet
| Sample_contact_address | Bld de Waterloo 127
| Sample_contact_city | Bruxelles
| Sample_contact_zip/postal_code | 1000
| Sample_contact_country | Belgium
| Sample_contact_web_link | http://www.ulb.ac.be/di/map/bhaibeka/index.html
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM553nnn/GSM553873/suppl/GSM553873_22-MCF10A_HG-U133_Plus_2_2.CEL.gz
| Sample_series_id | GSE20713
| Sample_series_id | GSE22250
| Sample_data_row_count | 54675
| |
|
GSM553874 | GPL570 |
|
Breast cancer cell line MCF-7 WT (expression data)
|
Breast cancer cell line
|
conditions: WT
treatment protocol: Cells were harvested after 5 or 6 passages. They were detached from the culture flask using a cell scraper.
growth protocol: MCF-7 WT cells were maintained in DMEM medium (Gibco) supplemented with 10% fetal calf serum (Gibco).
cell line: MCF-7
|
|
Sample_geo_accession | GSM553874
| Sample_status | Public on Oct 19 2011
| Sample_submission_date | Jun 09 2010
| Sample_last_update_date | Oct 19 2011
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Isolation of RNA was performed using the Tripure method (Roche) according to the manufacturer instructions and was purified using RNeasy mini-columns (Qiagen, Valencia, CA). The quality of the RNA obtained from each tumour sample was assessed based on the RNA profile generated by the BioAnalyzer (Agilent Inc).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Approximately 1 microgram of total RNA was processed to produce biotinylated cRNA targets.
| Sample_hyb_protocol | standard Affymetrix procedures.
| Sample_scan_protocol | standard Affymetrix procedures.
| Sample_data_processing | RMA Bioconductor (default parameters) and log2 transformation.
| Sample_platform_id | GPL570
| Sample_contact_name | Benjamin,,Haibe-Kains
| Sample_contact_email | bhaibeka@ulb.ac.be
| Sample_contact_phone | +3225413428
| Sample_contact_laboratory | Functional Genomics Unit
| Sample_contact_institute | Institut Jules Bordet
| Sample_contact_address | Bld de Waterloo 127
| Sample_contact_city | Bruxelles
| Sample_contact_zip/postal_code | 1000
| Sample_contact_country | Belgium
| Sample_contact_web_link | http://www.ulb.ac.be/di/map/bhaibeka/index.html
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM553nnn/GSM553874/suppl/GSM553874_1-MCF7-WT_HG-U133_Plus_2_.CEL.gz
| Sample_series_id | GSE20713
| Sample_series_id | GSE22250
| Sample_data_row_count | 54675
| |
|
GSM553875 | GPL570 |
|
Breast cancer cell line MCF-7 5-AZA (expression data)
|
Breast cancer cell line
|
conditions: 5-AZA
treatment protocol: Cells were treated with 5-aza-2’-deoxycytidine (1µM) during 4 days before being harvested. They were detached from the culture flask using a cell scraper.
growth protocol: MCF-7 5-AZA cells were maintained in DMEM medium (Gibco) supplemented with 10% fetal calf serum (Gibco). Cells were treated with 5-aza-2’-deoxycytidine (1µM) during 4 days. The medium was refreshed every day.
cell line: MCF-7
agent: 5-AZA
|
|
Sample_geo_accession | GSM553875
| Sample_status | Public on Oct 19 2011
| Sample_submission_date | Jun 09 2010
| Sample_last_update_date | Oct 19 2011
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Isolation of RNA was performed using the Tripure method (Roche) according to the manufacturer instructions and was purified using RNeasy mini-columns (Qiagen, Valencia, CA). The quality of the RNA obtained from each tumour sample was assessed based on the RNA profile generated by the BioAnalyzer (Agilent Inc).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Approximately 1 microgram of total RNA was processed to produce biotinylated cRNA targets.
| Sample_hyb_protocol | standard Affymetrix procedures.
| Sample_scan_protocol | standard Affymetrix procedures.
| Sample_data_processing | RMA Bioconductor (default parameters) and log2 transformation.
| Sample_platform_id | GPL570
| Sample_contact_name | Benjamin,,Haibe-Kains
| Sample_contact_email | bhaibeka@ulb.ac.be
| Sample_contact_phone | +3225413428
| Sample_contact_laboratory | Functional Genomics Unit
| Sample_contact_institute | Institut Jules Bordet
| Sample_contact_address | Bld de Waterloo 127
| Sample_contact_city | Bruxelles
| Sample_contact_zip/postal_code | 1000
| Sample_contact_country | Belgium
| Sample_contact_web_link | http://www.ulb.ac.be/di/map/bhaibeka/index.html
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM553nnn/GSM553875/suppl/GSM553875_8-MCF7-AZA-1uM_HG-U133_Plus_2_.CEL.gz
| Sample_series_id | GSE20713
| Sample_series_id | GSE22250
| Sample_data_row_count | 54675
| |
|
GSM553876 | GPL570 |
|
Breast cancer cell line T47D WT (expression data)
|
Breast cancer cell line
|
conditions: WT
treatment protocol: Cells were harvested after 5 or 6 passages. They were detached from the culture flask using a cell scraper.
growth protocol: T47D WT cells were maintained in RPMI medium (Gibco) supplemented with 10% fetal calf serum (Gibco).
cell line: T47D
|
|
Sample_geo_accession | GSM553876
| Sample_status | Public on Oct 19 2011
| Sample_submission_date | Jun 09 2010
| Sample_last_update_date | Oct 19 2011
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Isolation of RNA was performed using the Tripure method (Roche) according to the manufacturer instructions and was purified using RNeasy mini-columns (Qiagen, Valencia, CA). The quality of the RNA obtained from each tumour sample was assessed based on the RNA profile generated by the BioAnalyzer (Agilent Inc).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Approximately 1 microgram of total RNA was processed to produce biotinylated cRNA targets.
| Sample_hyb_protocol | standard Affymetrix procedures.
| Sample_scan_protocol | standard Affymetrix procedures.
| Sample_data_processing | RMA Bioconductor (default parameters) and log2 transformation.
| Sample_platform_id | GPL570
| Sample_contact_name | Benjamin,,Haibe-Kains
| Sample_contact_email | bhaibeka@ulb.ac.be
| Sample_contact_phone | +3225413428
| Sample_contact_laboratory | Functional Genomics Unit
| Sample_contact_institute | Institut Jules Bordet
| Sample_contact_address | Bld de Waterloo 127
| Sample_contact_city | Bruxelles
| Sample_contact_zip/postal_code | 1000
| Sample_contact_country | Belgium
| Sample_contact_web_link | http://www.ulb.ac.be/di/map/bhaibeka/index.html
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM553nnn/GSM553876/suppl/GSM553876_2-T47D-WT_HG-U133_Plus_2_.CEL.gz
| Sample_series_id | GSE20713
| Sample_series_id | GSE22250
| Sample_data_row_count | 54675
| |
|
GSM553877 | GPL570 |
|
Breast cancer cell line T47D 5 AZA (expression data)
|
Breast cancer cell line
|
conditions: 5-AZA
treatment protocol: Cells were treated with 5-aza-2’-deoxycytidine (1µM) during 4 days before being harvested. They were detached from the culture flask using a cell scraper.
growth protocol: T47D 5-AZA cells were maintained in RPMI medium (Gibco) supplemented with 10% fetal calf serum (Gibco). Cells were treated with 5-aza-2’-deoxycytidine (1µM) during 4 days. The medium was refreshed every day.
cell line: T47D
agent: 5-AZA
|
|
Sample_geo_accession | GSM553877
| Sample_status | Public on Oct 19 2011
| Sample_submission_date | Jun 09 2010
| Sample_last_update_date | Oct 19 2011
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Isolation of RNA was performed using the Tripure method (Roche) according to the manufacturer instructions and was purified using RNeasy mini-columns (Qiagen, Valencia, CA). The quality of the RNA obtained from each tumour sample was assessed based on the RNA profile generated by the BioAnalyzer (Agilent Inc).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Approximately 1 microgram of total RNA was processed to produce biotinylated cRNA targets.
| Sample_hyb_protocol | standard Affymetrix procedures.
| Sample_scan_protocol | standard Affymetrix procedures.
| Sample_data_processing | RMA Bioconductor (default parameters) and log2 transformation.
| Sample_platform_id | GPL570
| Sample_contact_name | Benjamin,,Haibe-Kains
| Sample_contact_email | bhaibeka@ulb.ac.be
| Sample_contact_phone | +3225413428
| Sample_contact_laboratory | Functional Genomics Unit
| Sample_contact_institute | Institut Jules Bordet
| Sample_contact_address | Bld de Waterloo 127
| Sample_contact_city | Bruxelles
| Sample_contact_zip/postal_code | 1000
| Sample_contact_country | Belgium
| Sample_contact_web_link | http://www.ulb.ac.be/di/map/bhaibeka/index.html
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM553nnn/GSM553877/suppl/GSM553877_9-T47D-AZA-1uM_HG-U133_Plus_2_.CEL.gz
| Sample_series_id | GSE20713
| Sample_series_id | GSE22250
| Sample_data_row_count | 54675
| |
|
GSM553878 | GPL570 |
|
Breast cancer cell line SKBR3 WT (expression data)
|
Breast cancer cell line
|
conditions: WT
treatment protocol: Cells were harvested after 5 or 6 passages. They were detached from the culture flask using a cell scraper.
growth protocol: SKBR3 WT cells were maintained in DMEM medium (Gibco) supplemented with 10% fetal calf serum (Gibco).
cell line: SKBR3
|
|
Sample_geo_accession | GSM553878
| Sample_status | Public on Oct 19 2011
| Sample_submission_date | Jun 09 2010
| Sample_last_update_date | Oct 19 2011
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Isolation of RNA was performed using the Tripure method (Roche) according to the manufacturer instructions and was purified using RNeasy mini-columns (Qiagen, Valencia, CA). The quality of the RNA obtained from each tumour sample was assessed based on the RNA profile generated by the BioAnalyzer (Agilent Inc).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Approximately 1 microgram of total RNA was processed to produce biotinylated cRNA targets.
| Sample_hyb_protocol | standard Affymetrix procedures.
| Sample_scan_protocol | standard Affymetrix procedures.
| Sample_data_processing | RMA Bioconductor (default parameters) and log2 transformation.
| Sample_platform_id | GPL570
| Sample_contact_name | Benjamin,,Haibe-Kains
| Sample_contact_email | bhaibeka@ulb.ac.be
| Sample_contact_phone | +3225413428
| Sample_contact_laboratory | Functional Genomics Unit
| Sample_contact_institute | Institut Jules Bordet
| Sample_contact_address | Bld de Waterloo 127
| Sample_contact_city | Bruxelles
| Sample_contact_zip/postal_code | 1000
| Sample_contact_country | Belgium
| Sample_contact_web_link | http://www.ulb.ac.be/di/map/bhaibeka/index.html
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM553nnn/GSM553878/suppl/GSM553878_3-SKBR3-WT_HG-U133_Plus_2_.CEL.gz
| Sample_series_id | GSE20713
| Sample_series_id | GSE22250
| Sample_data_row_count | 54675
| |
|
GSM553879 | GPL570 |
|
Breast cancer cell line SKBR3 5 AZA (expression data)
|
Breast cancer cell line
|
conditions: 5-AZA
treatment protocol: Cells were treated with 5-aza-2’-deoxycytidine (1µM) during 4 days before being harvested. They were detached from the culture flask using a cell scraper.
growth protocol: SKBR3 5-AZA cells were maintained in DMEM medium (Gibco) supplemented with 10% fetal calf serum (Gibco). Cells were treated with 5-aza-2’-deoxycytidine (1µM) during 4 days. The medium was refreshed every day.
cell line: SKBR3
agent: 5-AZA
|
|
Sample_geo_accession | GSM553879
| Sample_status | Public on Oct 19 2011
| Sample_submission_date | Jun 09 2010
| Sample_last_update_date | Oct 19 2011
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Isolation of RNA was performed using the Tripure method (Roche) according to the manufacturer instructions and was purified using RNeasy mini-columns (Qiagen, Valencia, CA). The quality of the RNA obtained from each tumour sample was assessed based on the RNA profile generated by the BioAnalyzer (Agilent Inc).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Approximately 1 microgram of total RNA was processed to produce biotinylated cRNA targets.
| Sample_hyb_protocol | standard Affymetrix procedures.
| Sample_scan_protocol | standard Affymetrix procedures.
| Sample_data_processing | RMA Bioconductor (default parameters) and log2 transformation.
| Sample_platform_id | GPL570
| Sample_contact_name | Benjamin,,Haibe-Kains
| Sample_contact_email | bhaibeka@ulb.ac.be
| Sample_contact_phone | +3225413428
| Sample_contact_laboratory | Functional Genomics Unit
| Sample_contact_institute | Institut Jules Bordet
| Sample_contact_address | Bld de Waterloo 127
| Sample_contact_city | Bruxelles
| Sample_contact_zip/postal_code | 1000
| Sample_contact_country | Belgium
| Sample_contact_web_link | http://www.ulb.ac.be/di/map/bhaibeka/index.html
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM553nnn/GSM553879/suppl/GSM553879_10-SKBR3-AZA-1uM_HG-U133_Plus_2_.CEL.gz
| Sample_series_id | GSE20713
| Sample_series_id | GSE22250
| Sample_data_row_count | 54675
| |
|
GSM553880 | GPL570 |
|
Breast cancer cell line BT20 WT (expression data)
|
Breast cancer cell line
|
conditions: WT
treatment protocol: Cells were harvested after 5 or 6 passages. They were detached from the culture flask using a cell scraper.
growth protocol: BT20 WT cells were maintained in MEM medium (Gibco) supplemented with 10% fetal calf serum (Gibco).
cell line: BT20
|
|
Sample_geo_accession | GSM553880
| Sample_status | Public on Oct 19 2011
| Sample_submission_date | Jun 09 2010
| Sample_last_update_date | Oct 19 2011
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Isolation of RNA was performed using the Tripure method (Roche) according to the manufacturer instructions and was purified using RNeasy mini-columns (Qiagen, Valencia, CA). The quality of the RNA obtained from each tumour sample was assessed based on the RNA profile generated by the BioAnalyzer (Agilent Inc).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Approximately 1 microgram of total RNA was processed to produce biotinylated cRNA targets.
| Sample_hyb_protocol | standard Affymetrix procedures.
| Sample_scan_protocol | standard Affymetrix procedures.
| Sample_data_processing | RMA Bioconductor (default parameters) and log2 transformation.
| Sample_platform_id | GPL570
| Sample_contact_name | Benjamin,,Haibe-Kains
| Sample_contact_email | bhaibeka@ulb.ac.be
| Sample_contact_phone | +3225413428
| Sample_contact_laboratory | Functional Genomics Unit
| Sample_contact_institute | Institut Jules Bordet
| Sample_contact_address | Bld de Waterloo 127
| Sample_contact_city | Bruxelles
| Sample_contact_zip/postal_code | 1000
| Sample_contact_country | Belgium
| Sample_contact_web_link | http://www.ulb.ac.be/di/map/bhaibeka/index.html
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM553nnn/GSM553880/suppl/GSM553880_4-BT20-WT_HG-U133_Plus_2_.CEL.gz
| Sample_series_id | GSE20713
| Sample_series_id | GSE22250
| Sample_data_row_count | 54675
| |
|
GSM553881 | GPL570 |
|
Breast cancer cell line BT20 5 AZA (expression data)
|
Breast cancer cell line
|
conditions: 5-AZA
treatment protocol: Cells were treated with 5-aza-2’-deoxycytidine (1µM) during 4 days before being harvested. They were detached from the culture flask using a cell scraper.
growth protocol: BT20 5-AZA cells were maintained in MEM medium (Gibco) supplemented with 10% fetal calf serum (Gibco). Cells were treated with 5-aza-2’-deoxycytidine (1µM) during 4 days. The medium was refreshed every day.
cell line: BT20
agent: 5-AZA
|
|
Sample_geo_accession | GSM553881
| Sample_status | Public on Oct 19 2011
| Sample_submission_date | Jun 09 2010
| Sample_last_update_date | Oct 19 2011
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Isolation of RNA was performed using the Tripure method (Roche) according to the manufacturer instructions and was purified using RNeasy mini-columns (Qiagen, Valencia, CA). The quality of the RNA obtained from each tumour sample was assessed based on the RNA profile generated by the BioAnalyzer (Agilent Inc).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Approximately 1 microgram of total RNA was processed to produce biotinylated cRNA targets.
| Sample_hyb_protocol | standard Affymetrix procedures.
| Sample_scan_protocol | standard Affymetrix procedures.
| Sample_data_processing | RMA Bioconductor (default parameters) and log2 transformation.
| Sample_platform_id | GPL570
| Sample_contact_name | Benjamin,,Haibe-Kains
| Sample_contact_email | bhaibeka@ulb.ac.be
| Sample_contact_phone | +3225413428
| Sample_contact_laboratory | Functional Genomics Unit
| Sample_contact_institute | Institut Jules Bordet
| Sample_contact_address | Bld de Waterloo 127
| Sample_contact_city | Bruxelles
| Sample_contact_zip/postal_code | 1000
| Sample_contact_country | Belgium
| Sample_contact_web_link | http://www.ulb.ac.be/di/map/bhaibeka/index.html
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM553nnn/GSM553881/suppl/GSM553881_11-BT20-AZA-1uM_HG-U133_Plus_2_.CEL.gz
| Sample_series_id | GSE20713
| Sample_series_id | GSE22250
| Sample_data_row_count | 54675
| |
|
GSM553882 | GPL570 |
|
Breast cancer cell line MDA-MB-231 WT (expression data)
|
Breast cancer cell line
|
conditions: WT
treatment protocol: Cells were harvested after 5 or 6 passages. They were detached from the culture flask using a cell scraper.
growth protocol: MDA-MB-231 WT cells were maintained in DMEM medium (Gibco) supplemented with 10% fetal calf serum (Gibco).
cell line: MDA-MB-231
|
|
Sample_geo_accession | GSM553882
| Sample_status | Public on Oct 19 2011
| Sample_submission_date | Jun 09 2010
| Sample_last_update_date | Oct 19 2011
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Isolation of RNA was performed using the Tripure method (Roche) according to the manufacturer instructions and was purified using RNeasy mini-columns (Qiagen, Valencia, CA). The quality of the RNA obtained from each tumour sample was assessed based on the RNA profile generated by the BioAnalyzer (Agilent Inc).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Approximately 1 microgram of total RNA was processed to produce biotinylated cRNA targets.
| Sample_hyb_protocol | standard Affymetrix procedures.
| Sample_scan_protocol | standard Affymetrix procedures.
| Sample_data_processing | RMA Bioconductor (default parameters) and log2 transformation.
| Sample_platform_id | GPL570
| Sample_contact_name | Benjamin,,Haibe-Kains
| Sample_contact_email | bhaibeka@ulb.ac.be
| Sample_contact_phone | +3225413428
| Sample_contact_laboratory | Functional Genomics Unit
| Sample_contact_institute | Institut Jules Bordet
| Sample_contact_address | Bld de Waterloo 127
| Sample_contact_city | Bruxelles
| Sample_contact_zip/postal_code | 1000
| Sample_contact_country | Belgium
| Sample_contact_web_link | http://www.ulb.ac.be/di/map/bhaibeka/index.html
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM553nnn/GSM553882/suppl/GSM553882_5-MDAMB231-WT_HG-U133_Plus_2_.CEL.gz
| Sample_series_id | GSE20713
| Sample_series_id | GSE22250
| Sample_data_row_count | 54675
| |
|
GSM553883 | GPL570 |
|
Breast cancer cell line MDA-MB-231 5 AZA (expression data)
|
Breast cancer cell line
|
conditions: 5-AZA
treatment protocol: Cells were treated with 5-aza-2’-deoxycytidine (1µM) during 4 days before being harvested. They were detached from the culture flask using a cell scraper.
growth protocol: MDA-MB-231 5-AZA cells were maintained in DMEM medium (Gibco) supplemented with 10% fetal calf serum (Gibco). Cells were treated with 5-aza-2’-deoxycytidine (1µM) during 4 days. The medium was refreshed every day
cell line: MDA-MB-231
agent: 5-AZA
|
|
Sample_geo_accession | GSM553883
| Sample_status | Public on Oct 19 2011
| Sample_submission_date | Jun 09 2010
| Sample_last_update_date | Oct 19 2011
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Isolation of RNA was performed using the Tripure method (Roche) according to the manufacturer instructions and was purified using RNeasy mini-columns (Qiagen, Valencia, CA). The quality of the RNA obtained from each tumour sample was assessed based on the RNA profile generated by the BioAnalyzer (Agilent Inc).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Approximately 1 microgram of total RNA was processed to produce biotinylated cRNA targets.
| Sample_hyb_protocol | standard Affymetrix procedures.
| Sample_scan_protocol | standard Affymetrix procedures.
| Sample_data_processing | RMA Bioconductor (default parameters) and log2 transformation.
| Sample_platform_id | GPL570
| Sample_contact_name | Benjamin,,Haibe-Kains
| Sample_contact_email | bhaibeka@ulb.ac.be
| Sample_contact_phone | +3225413428
| Sample_contact_laboratory | Functional Genomics Unit
| Sample_contact_institute | Institut Jules Bordet
| Sample_contact_address | Bld de Waterloo 127
| Sample_contact_city | Bruxelles
| Sample_contact_zip/postal_code | 1000
| Sample_contact_country | Belgium
| Sample_contact_web_link | http://www.ulb.ac.be/di/map/bhaibeka/index.html
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM553nnn/GSM553883/suppl/GSM553883_12-MDAMB231-AZA-1uM_HG-U133_Plus_2_.CEL.gz
| Sample_series_id | GSE20713
| Sample_series_id | GSE22250
| Sample_data_row_count | 54675
| |
|
GSM553884 | GPL570 |
|
Breast cancer cell line MDA-MB-361 WT (expression data)
|
Breast cancer cell line
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conditions: WT
treatment protocol: Cells were harvested after 5 or 6 passages. They were detached from the culture flask using a cell scraper.
growth protocol: MDA-MB-361 WT cells were maintained in RPMI medium (Gibco) supplemented with 10% fetal calf serum (Gibco).
cell line: MDA-MB-361
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Sample_geo_accession | GSM553884
| Sample_status | Public on Oct 19 2011
| Sample_submission_date | Jun 09 2010
| Sample_last_update_date | Oct 19 2011
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Isolation of RNA was performed using the Tripure method (Roche) according to the manufacturer instructions and was purified using RNeasy mini-columns (Qiagen, Valencia, CA). The quality of the RNA obtained from each tumour sample was assessed based on the RNA profile generated by the BioAnalyzer (Agilent Inc).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Approximately 1 microgram of total RNA was processed to produce biotinylated cRNA targets.
| Sample_hyb_protocol | standard Affymetrix procedures.
| Sample_scan_protocol | standard Affymetrix procedures.
| Sample_data_processing | RMA Bioconductor (default parameters) and log2 transformation.
| Sample_platform_id | GPL570
| Sample_contact_name | Benjamin,,Haibe-Kains
| Sample_contact_email | bhaibeka@ulb.ac.be
| Sample_contact_phone | +3225413428
| Sample_contact_laboratory | Functional Genomics Unit
| Sample_contact_institute | Institut Jules Bordet
| Sample_contact_address | Bld de Waterloo 127
| Sample_contact_city | Bruxelles
| Sample_contact_zip/postal_code | 1000
| Sample_contact_country | Belgium
| Sample_contact_web_link | http://www.ulb.ac.be/di/map/bhaibeka/index.html
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM553nnn/GSM553884/suppl/GSM553884_6-MDAMB361-WT_HG-U133_Plus_2_.CEL.gz
| Sample_series_id | GSE20713
| Sample_series_id | GSE22250
| Sample_data_row_count | 54675
| |
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GSM553885 | GPL570 |
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Breast cancer cell line MDA-MB-361 5 AZA (expression data)
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Breast cancer cell line
|
conditions: 5-AZA
treatment protocol: Cells were treated with 5-aza-2’-deoxycytidine (1µM) during 4 days before being harvested. They were detached from the culture flask using a cell scraper.
growth protocol: MDA-MB-361 5-AZA cells were maintained in RPMI medium (Gibco) supplemented with 10% fetal calf serum (Gibco). Cells were treated with 5-aza-2’-deoxycytidine (1µM) during 4 days. The medium was refreshed every day.
cell line: MDA-MB-361
agent: 5-AZA
|
|
Sample_geo_accession | GSM553885
| Sample_status | Public on Oct 19 2011
| Sample_submission_date | Jun 09 2010
| Sample_last_update_date | Oct 19 2011
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Isolation of RNA was performed using the Tripure method (Roche) according to the manufacturer instructions and was purified using RNeasy mini-columns (Qiagen, Valencia, CA). The quality of the RNA obtained from each tumour sample was assessed based on the RNA profile generated by the BioAnalyzer (Agilent Inc).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Approximately 1 microgram of total RNA was processed to produce biotinylated cRNA targets.
| Sample_hyb_protocol | standard Affymetrix procedures.
| Sample_scan_protocol | standard Affymetrix procedures.
| Sample_data_processing | RMA Bioconductor (default parameters) and log2 transformation.
| Sample_platform_id | GPL570
| Sample_contact_name | Benjamin,,Haibe-Kains
| Sample_contact_email | bhaibeka@ulb.ac.be
| Sample_contact_phone | +3225413428
| Sample_contact_laboratory | Functional Genomics Unit
| Sample_contact_institute | Institut Jules Bordet
| Sample_contact_address | Bld de Waterloo 127
| Sample_contact_city | Bruxelles
| Sample_contact_zip/postal_code | 1000
| Sample_contact_country | Belgium
| Sample_contact_web_link | http://www.ulb.ac.be/di/map/bhaibeka/index.html
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM553nnn/GSM553885/suppl/GSM553885_13-MDAMB631-AZA-1uM_HG-U133_Plus_2_.CEL.gz
| Sample_series_id | GSE20713
| Sample_series_id | GSE22250
| Sample_data_row_count | 54675
| |
|
GSM553886 | GPL570 |
|
Breast cancer cell line ZR-75-1 WT (expression data)
|
Breast cancer cell line
|
conditions: WT
treatment protocol: Cells were harvested after 5 or 6 passages. They were detached from the culture flask using a cell scraper.
growth protocol: ZR-75-1 WT cells were maintained in RPMI medium (Gibco) supplemented with 10% fetal calf serum (Gibco).
cell line: ZR-75-1
|
|
Sample_geo_accession | GSM553886
| Sample_status | Public on Oct 19 2011
| Sample_submission_date | Jun 09 2010
| Sample_last_update_date | Oct 19 2011
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Isolation of RNA was performed using the Tripure method (Roche) according to the manufacturer instructions and was purified using RNeasy mini-columns (Qiagen, Valencia, CA). The quality of the RNA obtained from each tumour sample was assessed based on the RNA profile generated by the BioAnalyzer (Agilent Inc).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Approximately 1 microgram of total RNA was processed to produce biotinylated cRNA targets.
| Sample_hyb_protocol | standard Affymetrix procedures.
| Sample_scan_protocol | standard Affymetrix procedures.
| Sample_data_processing | RMA Bioconductor (default parameters) and log2 transformation.
| Sample_platform_id | GPL570
| Sample_contact_name | Benjamin,,Haibe-Kains
| Sample_contact_email | bhaibeka@ulb.ac.be
| Sample_contact_phone | +3225413428
| Sample_contact_laboratory | Functional Genomics Unit
| Sample_contact_institute | Institut Jules Bordet
| Sample_contact_address | Bld de Waterloo 127
| Sample_contact_city | Bruxelles
| Sample_contact_zip/postal_code | 1000
| Sample_contact_country | Belgium
| Sample_contact_web_link | http://www.ulb.ac.be/di/map/bhaibeka/index.html
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM553nnn/GSM553886/suppl/GSM553886_7-ZR75-1-WT_HG-U133_Plus_2_.CEL.gz
| Sample_series_id | GSE20713
| Sample_series_id | GSE22250
| Sample_data_row_count | 54675
| |
|
GSM553887 | GPL570 |
|
Breast cancer cell line ZR-75-1 5 AZA (expression data)
|
Breast cancer cell line
|
conditions: 5-AZA
treatment protocol: Cells were treated with 5-aza-2’-deoxycytidine (1µM) during 4 days before being harvested. They were detached from the culture flask using a cell scraper.
growth protocol: ZR-75-1 5-AZA cells were maintained in RPMI medium (Gibco) supplemented with 10% fetal calf serum (Gibco). Cells were treated with 5-aza-2’-deoxycytidine (1µM) during 4 days. The medium was refreshed every day.
cell line: ZR-75-1
agent: 5-AZA
|
|
Sample_geo_accession | GSM553887
| Sample_status | Public on Oct 19 2011
| Sample_submission_date | Jun 09 2010
| Sample_last_update_date | Oct 19 2011
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Isolation of RNA was performed using the Tripure method (Roche) according to the manufacturer instructions and was purified using RNeasy mini-columns (Qiagen, Valencia, CA). The quality of the RNA obtained from each tumour sample was assessed based on the RNA profile generated by the BioAnalyzer (Agilent Inc).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Approximately 1 microgram of total RNA was processed to produce biotinylated cRNA targets.
| Sample_hyb_protocol | standard Affymetrix procedures.
| Sample_scan_protocol | standard Affymetrix procedures.
| Sample_data_processing | RMA Bioconductor (default parameters) and log2 transformation.
| Sample_platform_id | GPL570
| Sample_contact_name | Benjamin,,Haibe-Kains
| Sample_contact_email | bhaibeka@ulb.ac.be
| Sample_contact_phone | +3225413428
| Sample_contact_laboratory | Functional Genomics Unit
| Sample_contact_institute | Institut Jules Bordet
| Sample_contact_address | Bld de Waterloo 127
| Sample_contact_city | Bruxelles
| Sample_contact_zip/postal_code | 1000
| Sample_contact_country | Belgium
| Sample_contact_web_link | http://www.ulb.ac.be/di/map/bhaibeka/index.html
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM553nnn/GSM553887/suppl/GSM553887_14-ZR75-1-AZA-1uM_HG-U133_Plus_2_.CEL.gz
| Sample_series_id | GSE20713
| Sample_series_id | GSE22250
| Sample_data_row_count | 54675
| |
|
GSM553888 | GPL570 |
|
Normal lymphoid cell line WEIS3E5 (expression data)
|
Normal lymphoid cell line
|
conditions: Normal
treatment protocol: The WEIS3E5 cells were harvested after 3 days of growth
growth protocol: The normal CD8+ lymphoid cell line WEIS3E5 was maintained in Isocove Dubelcco medium supplemented with 10% human serum HS54, L-Arginine, L-Asparagine, L-glutamine, 2-mercaptoéthanol and methyltryptophane as well as with 10 ng/mL of IL-7 and 50 U/mL of IL-2.
cell line: WEIS3E5
|
|
Sample_geo_accession | GSM553888
| Sample_status | Public on Oct 19 2011
| Sample_submission_date | Jun 09 2010
| Sample_last_update_date | Oct 19 2011
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Isolation of RNA was performed using the Tripure method (Roche) according to the manufacturer instructions and was purified using RNeasy mini-columns (Qiagen, Valencia, CA). The quality of the RNA obtained from each tumour sample was assessed based on the RNA profile generated by the BioAnalyzer (Agilent Inc).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Approximately 1 microgram of total RNA was processed to produce biotinylated cRNA targets.
| Sample_hyb_protocol | standard Affymetrix procedures.
| Sample_scan_protocol | standard Affymetrix procedures.
| Sample_data_processing | RMA Bioconductor (default parameters) and log2 transformation.
| Sample_platform_id | GPL570
| Sample_contact_name | Benjamin,,Haibe-Kains
| Sample_contact_email | bhaibeka@ulb.ac.be
| Sample_contact_phone | +3225413428
| Sample_contact_laboratory | Functional Genomics Unit
| Sample_contact_institute | Institut Jules Bordet
| Sample_contact_address | Bld de Waterloo 127
| Sample_contact_city | Bruxelles
| Sample_contact_zip/postal_code | 1000
| Sample_contact_country | Belgium
| Sample_contact_web_link | http://www.ulb.ac.be/di/map/bhaibeka/index.html
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM553nnn/GSM553888/suppl/GSM553888_23-CD8-REPOS_HG-U133_Plus_2_.CEL.gz
| Sample_series_id | GSE20713
| Sample_series_id | GSE22250
| Sample_data_row_count | 54675
| |
|
GSM553889 | GPL570 |
|
ex vivo B lymphocytes (expression data)
|
ex vivo B lymphocytes
|
conditions: ex vivo
treatment protocol: Ex vivo B lymphocytes were isolated from blood sample of a patient with hemochromatosis using CD20 antibody coupled to magnetic beads (Miltenyi Biotec).
growth protocol: None
cell type: ex vivo B lymphocytes
|
|
Sample_geo_accession | GSM553889
| Sample_status | Public on Oct 19 2011
| Sample_submission_date | Jun 09 2010
| Sample_last_update_date | Oct 19 2011
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Isolation of RNA was performed using the Tripure method (Roche) according to the manufacturer instructions and was purified using RNeasy mini-columns (Qiagen, Valencia, CA). The quality of the RNA obtained from each tumour sample was assessed based on the RNA profile generated by the BioAnalyzer (Agilent Inc).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Approximately 1 microgram of total RNA was processed to produce biotinylated cRNA targets.
| Sample_hyb_protocol | standard Affymetrix procedures.
| Sample_scan_protocol | standard Affymetrix procedures.
| Sample_data_processing | RMA Bioconductor (default parameters) and log2 transformation.
| Sample_platform_id | GPL570
| Sample_contact_name | Benjamin,,Haibe-Kains
| Sample_contact_email | bhaibeka@ulb.ac.be
| Sample_contact_phone | +3225413428
| Sample_contact_laboratory | Functional Genomics Unit
| Sample_contact_institute | Institut Jules Bordet
| Sample_contact_address | Bld de Waterloo 127
| Sample_contact_city | Bruxelles
| Sample_contact_zip/postal_code | 1000
| Sample_contact_country | Belgium
| Sample_contact_web_link | http://www.ulb.ac.be/di/map/bhaibeka/index.html
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM553nnn/GSM553889/suppl/GSM553889_25-B-J0_HG-U133_Plus_2_.CEL.gz
| Sample_series_id | GSE20713
| Sample_series_id | GSE22250
| Sample_data_row_count | 54675
| |
|
GSM553890 | GPL570 |
|
ex vivo T lymphocytes (expression data)
|
ex vivo T lymphocytes
|
conditions: ex vivo
treatment protocol: Ex vivo T lymphocytes were isolated from blood sample of a patient with hemochromatosis using CD3 antibody coupled to magnetic beads (Miltenyi Biotec).
growth protocol: None
cell type: ex vivo T lymphocytes
|
|
Sample_geo_accession | GSM553890
| Sample_status | Public on Oct 19 2011
| Sample_submission_date | Jun 09 2010
| Sample_last_update_date | Oct 19 2011
| Sample_type | RNA
| Sample_channel_count | 1
| Sample_organism_ch1 | Homo sapiens
| Sample_taxid_ch1 | 9606
| Sample_molecule_ch1 | total RNA
| Sample_extract_protocol_ch1 | Isolation of RNA was performed using the Tripure method (Roche) according to the manufacturer instructions and was purified using RNeasy mini-columns (Qiagen, Valencia, CA). The quality of the RNA obtained from each tumour sample was assessed based on the RNA profile generated by the BioAnalyzer (Agilent Inc).
| Sample_label_ch1 | biotin
| Sample_label_protocol_ch1 | Approximately 1 microgram of total RNA was processed to produce biotinylated cRNA targets.
| Sample_hyb_protocol | standard Affymetrix procedures.
| Sample_scan_protocol | standard Affymetrix procedures.
| Sample_data_processing | RMA Bioconductor (default parameters) and log2 transformation.
| Sample_platform_id | GPL570
| Sample_contact_name | Benjamin,,Haibe-Kains
| Sample_contact_email | bhaibeka@ulb.ac.be
| Sample_contact_phone | +3225413428
| Sample_contact_laboratory | Functional Genomics Unit
| Sample_contact_institute | Institut Jules Bordet
| Sample_contact_address | Bld de Waterloo 127
| Sample_contact_city | Bruxelles
| Sample_contact_zip/postal_code | 1000
| Sample_contact_country | Belgium
| Sample_contact_web_link | http://www.ulb.ac.be/di/map/bhaibeka/index.html
| Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM553nnn/GSM553890/suppl/GSM553890_26-T-J0_HG-U133_Plus_2_.CEL.gz
| Sample_series_id | GSE20713
| Sample_series_id | GSE22250
| Sample_data_row_count | 54675
| |
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Make groups for comparisons |
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Select GSMs and click on "Add groups" |
Enter the group name here: |
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