Search results for the GEO ID: GSE40057  |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM984494 | GPL570 |
|
Breast cancer cell line BT474
|
Less-aggressive breast cancer cell line
|
cell line: BT474
tissue: breast
cell line type: Less-aggressive cell line
cell type: Breast cancer cells
|
BT474
|
| Sample_geo_accession | GSM984494
| | Sample_status | Public on Jun 03 2013
| | Sample_submission_date | Aug 11 2012
| | Sample_last_update_date | Jun 03 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | none
| | Sample_growth_protocol_ch1 | Breast cancer cell lines BT474, MDA-MB-468, T47D, ZR-75-1, MCF7, SK-BR3, MDA-MB-231, HS578T, BT549, SUM159 cell line were cultured in DMEM media with 10% fetal bovine serum (FBS). Immortalized breast epithelium cell lines MCF10A and MCF12A were cultured in DMEM/F12 supplemented with 5% horse serum, 20 ng/mL EGF, 10 μg/mL insulin, 100 ng/ml cholera toxin, and 500 ng/ml hydrocortisone.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using the QiazolTM Lysis reagent (Qiagen, Valencia, CA, USA).
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | The total RNA was labeled with affymetrix 3' IVT Express Kit according to manufacturor recommended protocols.
| | Sample_hyb_protocol | The array hybridization followed the standard affymetrix protocols.
| | Sample_scan_protocol | The Arrays were then washed using Affymetrix fluidics stations, and scanned using the Gene Chip Scanner 3000.
| | Sample_data_processing | CEL files was uploaded into Partek Genomics Suites 6.5 and processed using the mRNA expression pipeline. The data was quantile-normalized, summarized (median polish), and log2-transformed.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Huidong,,Shi
| | Sample_contact_email | hshi@georgiahealth.edu
| | Sample_contact_phone | 706-721-6000
| | Sample_contact_laboratory | 2125 K
| | Sample_contact_department | Cancer Center
| | Sample_contact_institute | Georgia Health Sciences University
| | Sample_contact_address | 1120 15th Street, CN2138
| | Sample_contact_city | Augusta
| | Sample_contact_state | GA
| | Sample_contact_zip/postal_code | 30912
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM984nnn/GSM984494/suppl/GSM984494_BT474_HG-U133_Plus_2_.CEL.gz
| | Sample_series_id | GSE40057
| | Sample_series_id | GSE40059
| | Sample_data_row_count | 54675
| | |
|
GSM984495 | GPL570 |
|
Breast cancer cell line MDA-MB-468
|
Less-aggressive breast cancer cell line
|
cell line: MDA-MB-468
tissue: breast
cell line type: Less-aggressive cell line
cell type: Breast cancer cells
|
MDA468
|
| Sample_geo_accession | GSM984495
| | Sample_status | Public on Jun 03 2013
| | Sample_submission_date | Aug 11 2012
| | Sample_last_update_date | Jun 03 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | none
| | Sample_growth_protocol_ch1 | Breast cancer cell lines BT474, MDA-MB-468, T47D, ZR-75-1, MCF7, SK-BR3, MDA-MB-231, HS578T, BT549, SUM159 cell line were cultured in DMEM media with 10% fetal bovine serum (FBS). Immortalized breast epithelium cell lines MCF10A and MCF12A were cultured in DMEM/F12 supplemented with 5% horse serum, 20 ng/mL EGF, 10 μg/mL insulin, 100 ng/ml cholera toxin, and 500 ng/ml hydrocortisone.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using the QiazolTM Lysis reagent (Qiagen, Valencia, CA, USA).
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | The total RNA was labeled with affymetrix 3' IVT Express Kit according to manufacturor recommended protocols.
| | Sample_hyb_protocol | The array hybridization followed the standard affymetrix protocols.
| | Sample_scan_protocol | The Arrays were then washed using Affymetrix fluidics stations, and scanned using the Gene Chip Scanner 3000.
| | Sample_data_processing | CEL files was uploaded into Partek Genomics Suites 6.5 and processed using the mRNA expression pipeline. The data was quantile-normalized, summarized (median polish), and log2-transformed.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Huidong,,Shi
| | Sample_contact_email | hshi@georgiahealth.edu
| | Sample_contact_phone | 706-721-6000
| | Sample_contact_laboratory | 2125 K
| | Sample_contact_department | Cancer Center
| | Sample_contact_institute | Georgia Health Sciences University
| | Sample_contact_address | 1120 15th Street, CN2138
| | Sample_contact_city | Augusta
| | Sample_contact_state | GA
| | Sample_contact_zip/postal_code | 30912
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM984nnn/GSM984495/suppl/GSM984495_MDA-MB-468_HG-U133_Plus_2_.CEL.gz
| | Sample_series_id | GSE40057
| | Sample_series_id | GSE40059
| | Sample_data_row_count | 54675
| | |
|
GSM984496 | GPL570 |
|
Breast cancer cell line T47D
|
Less-aggressive breast cancer cell line
|
cell line: T47D
tissue: breast
cell line type: Less-aggressive cell line
cell type: Breast cancer cells
|
T47D
|
| Sample_geo_accession | GSM984496
| | Sample_status | Public on Jun 03 2013
| | Sample_submission_date | Aug 11 2012
| | Sample_last_update_date | Jun 03 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | none
| | Sample_growth_protocol_ch1 | Breast cancer cell lines BT474, MDA-MB-468, T47D, ZR-75-1, MCF7, SK-BR3, MDA-MB-231, HS578T, BT549, SUM159 cell line were cultured in DMEM media with 10% fetal bovine serum (FBS). Immortalized breast epithelium cell lines MCF10A and MCF12A were cultured in DMEM/F12 supplemented with 5% horse serum, 20 ng/mL EGF, 10 μg/mL insulin, 100 ng/ml cholera toxin, and 500 ng/ml hydrocortisone.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using the QiazolTM Lysis reagent (Qiagen, Valencia, CA, USA).
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | The total RNA was labeled with affymetrix 3' IVT Express Kit according to manufacturor recommended protocols.
| | Sample_hyb_protocol | The array hybridization followed the standard affymetrix protocols.
| | Sample_scan_protocol | The Arrays were then washed using Affymetrix fluidics stations, and scanned using the Gene Chip Scanner 3000.
| | Sample_data_processing | CEL files was uploaded into Partek Genomics Suites 6.5 and processed using the mRNA expression pipeline. The data was quantile-normalized, summarized (median polish), and log2-transformed.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Huidong,,Shi
| | Sample_contact_email | hshi@georgiahealth.edu
| | Sample_contact_phone | 706-721-6000
| | Sample_contact_laboratory | 2125 K
| | Sample_contact_department | Cancer Center
| | Sample_contact_institute | Georgia Health Sciences University
| | Sample_contact_address | 1120 15th Street, CN2138
| | Sample_contact_city | Augusta
| | Sample_contact_state | GA
| | Sample_contact_zip/postal_code | 30912
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM984nnn/GSM984496/suppl/GSM984496_T47D_HG-U133_Plus_2_.CEL.gz
| | Sample_series_id | GSE40057
| | Sample_series_id | GSE40059
| | Sample_data_row_count | 54675
| | |
|
GSM984497 | GPL570 |
|
Breast cancer cell line ZR-75-1
|
Less-aggressive breast cancer cell line
|
cell line: ZR-75-1
tissue: breast
cell line type: Less-aggressive cell line
cell type: Breast cancer cells
|
ZR-75-1
|
| Sample_geo_accession | GSM984497
| | Sample_status | Public on Jun 03 2013
| | Sample_submission_date | Aug 11 2012
| | Sample_last_update_date | Jun 03 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | none
| | Sample_growth_protocol_ch1 | Breast cancer cell lines BT474, MDA-MB-468, T47D, ZR-75-1, MCF7, SK-BR3, MDA-MB-231, HS578T, BT549, SUM159 cell line were cultured in DMEM media with 10% fetal bovine serum (FBS). Immortalized breast epithelium cell lines MCF10A and MCF12A were cultured in DMEM/F12 supplemented with 5% horse serum, 20 ng/mL EGF, 10 μg/mL insulin, 100 ng/ml cholera toxin, and 500 ng/ml hydrocortisone.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using the QiazolTM Lysis reagent (Qiagen, Valencia, CA, USA).
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | The total RNA was labeled with affymetrix 3' IVT Express Kit according to manufacturor recommended protocols.
| | Sample_hyb_protocol | The array hybridization followed the standard affymetrix protocols.
| | Sample_scan_protocol | The Arrays were then washed using Affymetrix fluidics stations, and scanned using the Gene Chip Scanner 3000.
| | Sample_data_processing | CEL files was uploaded into Partek Genomics Suites 6.5 and processed using the mRNA expression pipeline. The data was quantile-normalized, summarized (median polish), and log2-transformed.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Huidong,,Shi
| | Sample_contact_email | hshi@georgiahealth.edu
| | Sample_contact_phone | 706-721-6000
| | Sample_contact_laboratory | 2125 K
| | Sample_contact_department | Cancer Center
| | Sample_contact_institute | Georgia Health Sciences University
| | Sample_contact_address | 1120 15th Street, CN2138
| | Sample_contact_city | Augusta
| | Sample_contact_state | GA
| | Sample_contact_zip/postal_code | 30912
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM984nnn/GSM984497/suppl/GSM984497_ZR-75-1_HG-U133_Plus_2_.CEL.gz
| | Sample_series_id | GSE40057
| | Sample_series_id | GSE40059
| | Sample_data_row_count | 54675
| | |
|
GSM984498 | GPL570 |
|
Breast cancer cell line MCF7
|
Less-aggressive breast cancer cell line
|
cell line: MCF7
tissue: breast
cell line type: Less-aggressive cell line
cell type: Breast cancer cells
|
MCF7
|
| Sample_geo_accession | GSM984498
| | Sample_status | Public on Jun 03 2013
| | Sample_submission_date | Aug 11 2012
| | Sample_last_update_date | Jun 03 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | none
| | Sample_growth_protocol_ch1 | Breast cancer cell lines BT474, MDA-MB-468, T47D, ZR-75-1, MCF7, SK-BR3, MDA-MB-231, HS578T, BT549, SUM159 cell line were cultured in DMEM media with 10% fetal bovine serum (FBS). Immortalized breast epithelium cell lines MCF10A and MCF12A were cultured in DMEM/F12 supplemented with 5% horse serum, 20 ng/mL EGF, 10 μg/mL insulin, 100 ng/ml cholera toxin, and 500 ng/ml hydrocortisone.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using the QiazolTM Lysis reagent (Qiagen, Valencia, CA, USA).
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | The total RNA was labeled with affymetrix 3' IVT Express Kit according to manufacturor recommended protocols.
| | Sample_hyb_protocol | The array hybridization followed the standard affymetrix protocols.
| | Sample_scan_protocol | The Arrays were then washed using Affymetrix fluidics stations, and scanned using the Gene Chip Scanner 3000.
| | Sample_data_processing | CEL files was uploaded into Partek Genomics Suites 6.5 and processed using the mRNA expression pipeline. The data was quantile-normalized, summarized (median polish), and log2-transformed.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Huidong,,Shi
| | Sample_contact_email | hshi@georgiahealth.edu
| | Sample_contact_phone | 706-721-6000
| | Sample_contact_laboratory | 2125 K
| | Sample_contact_department | Cancer Center
| | Sample_contact_institute | Georgia Health Sciences University
| | Sample_contact_address | 1120 15th Street, CN2138
| | Sample_contact_city | Augusta
| | Sample_contact_state | GA
| | Sample_contact_zip/postal_code | 30912
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM984nnn/GSM984498/suppl/GSM984498_MCF7_HG-U133_Plus_2_.CEL.gz
| | Sample_series_id | GSE40057
| | Sample_series_id | GSE40059
| | Sample_data_row_count | 54675
| | |
|
GSM984499 | GPL570 |
|
Breast cancer cell line SK-BR3
|
Less-aggressive breast cancer cell line
|
cell line: SK-BR3
tissue: breast
cell line type: Less-aggressive cell line
cell type: Breast cancer cells
|
SKBR3
|
| Sample_geo_accession | GSM984499
| | Sample_status | Public on Jun 03 2013
| | Sample_submission_date | Aug 11 2012
| | Sample_last_update_date | Jun 03 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | none
| | Sample_growth_protocol_ch1 | Breast cancer cell lines BT474, MDA-MB-468, T47D, ZR-75-1, MCF7, SK-BR3, MDA-MB-231, HS578T, BT549, SUM159 cell line were cultured in DMEM media with 10% fetal bovine serum (FBS). Immortalized breast epithelium cell lines MCF10A and MCF12A were cultured in DMEM/F12 supplemented with 5% horse serum, 20 ng/mL EGF, 10 μg/mL insulin, 100 ng/ml cholera toxin, and 500 ng/ml hydrocortisone.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using the QiazolTM Lysis reagent (Qiagen, Valencia, CA, USA).
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | The total RNA was labeled with affymetrix 3' IVT Express Kit according to manufacturor recommended protocols.
| | Sample_hyb_protocol | The array hybridization followed the standard affymetrix protocols.
| | Sample_scan_protocol | The Arrays were then washed using Affymetrix fluidics stations, and scanned using the Gene Chip Scanner 3000.
| | Sample_data_processing | CEL files was uploaded into Partek Genomics Suites 6.5 and processed using the mRNA expression pipeline. The data was quantile-normalized, summarized (median polish), and log2-transformed.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Huidong,,Shi
| | Sample_contact_email | hshi@georgiahealth.edu
| | Sample_contact_phone | 706-721-6000
| | Sample_contact_laboratory | 2125 K
| | Sample_contact_department | Cancer Center
| | Sample_contact_institute | Georgia Health Sciences University
| | Sample_contact_address | 1120 15th Street, CN2138
| | Sample_contact_city | Augusta
| | Sample_contact_state | GA
| | Sample_contact_zip/postal_code | 30912
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM984nnn/GSM984499/suppl/GSM984499_SKBR3_HG-U133_Plus_2_.CEL.gz
| | Sample_series_id | GSE40057
| | Sample_series_id | GSE40059
| | Sample_data_row_count | 54675
| | |
|
GSM984500 | GPL570 |
|
Breast cancer cell line MDA-MB-231
|
aggressive breast cancer cell line
|
cell line: MDA-MB-231
tissue: breast
cell line type: Aggressive cell line
cell type: Breast cancer cells
|
MDA-MB-231
|
| Sample_geo_accession | GSM984500
| | Sample_status | Public on Jun 03 2013
| | Sample_submission_date | Aug 11 2012
| | Sample_last_update_date | Jun 03 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | none
| | Sample_growth_protocol_ch1 | Breast cancer cell lines BT474, MDA-MB-468, T47D, ZR-75-1, MCF7, SK-BR3, MDA-MB-231, HS578T, BT549, SUM159 cell line were cultured in DMEM media with 10% fetal bovine serum (FBS). Immortalized breast epithelium cell lines MCF10A and MCF12A were cultured in DMEM/F12 supplemented with 5% horse serum, 20 ng/mL EGF, 10 μg/mL insulin, 100 ng/ml cholera toxin, and 500 ng/ml hydrocortisone.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using the QiazolTM Lysis reagent (Qiagen, Valencia, CA, USA).
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | The total RNA was labeled with affymetrix 3' IVT Express Kit according to manufacturor recommended protocols.
| | Sample_hyb_protocol | The array hybridization followed the standard affymetrix protocols.
| | Sample_scan_protocol | The Arrays were then washed using Affymetrix fluidics stations, and scanned using the Gene Chip Scanner 3000.
| | Sample_data_processing | CEL files was uploaded into Partek Genomics Suites 6.5 and processed using the mRNA expression pipeline. The data was quantile-normalized, summarized (median polish), and log2-transformed.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Huidong,,Shi
| | Sample_contact_email | hshi@georgiahealth.edu
| | Sample_contact_phone | 706-721-6000
| | Sample_contact_laboratory | 2125 K
| | Sample_contact_department | Cancer Center
| | Sample_contact_institute | Georgia Health Sciences University
| | Sample_contact_address | 1120 15th Street, CN2138
| | Sample_contact_city | Augusta
| | Sample_contact_state | GA
| | Sample_contact_zip/postal_code | 30912
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM984nnn/GSM984500/suppl/GSM984500_MDA-MB-231_HG-U133_Plus_2_.CEL.gz
| | Sample_series_id | GSE40057
| | Sample_series_id | GSE40059
| | Sample_data_row_count | 54675
| | |
|
GSM984501 | GPL570 |
|
Breast cancer cell line HS578T
|
aggressive breast cancer cell line
|
cell line: HS578T
tissue: breast
cell line type: Aggressive cell line
cell type: Breast cancer cells
|
HS578T
|
| Sample_geo_accession | GSM984501
| | Sample_status | Public on Jun 03 2013
| | Sample_submission_date | Aug 11 2012
| | Sample_last_update_date | Jun 03 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | none
| | Sample_growth_protocol_ch1 | Breast cancer cell lines BT474, MDA-MB-468, T47D, ZR-75-1, MCF7, SK-BR3, MDA-MB-231, HS578T, BT549, SUM159 cell line were cultured in DMEM media with 10% fetal bovine serum (FBS). Immortalized breast epithelium cell lines MCF10A and MCF12A were cultured in DMEM/F12 supplemented with 5% horse serum, 20 ng/mL EGF, 10 μg/mL insulin, 100 ng/ml cholera toxin, and 500 ng/ml hydrocortisone.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using the QiazolTM Lysis reagent (Qiagen, Valencia, CA, USA).
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | The total RNA was labeled with affymetrix 3' IVT Express Kit according to manufacturor recommended protocols.
| | Sample_hyb_protocol | The array hybridization followed the standard affymetrix protocols.
| | Sample_scan_protocol | The Arrays were then washed using Affymetrix fluidics stations, and scanned using the Gene Chip Scanner 3000.
| | Sample_data_processing | CEL files was uploaded into Partek Genomics Suites 6.5 and processed using the mRNA expression pipeline. The data was quantile-normalized, summarized (median polish), and log2-transformed.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Huidong,,Shi
| | Sample_contact_email | hshi@georgiahealth.edu
| | Sample_contact_phone | 706-721-6000
| | Sample_contact_laboratory | 2125 K
| | Sample_contact_department | Cancer Center
| | Sample_contact_institute | Georgia Health Sciences University
| | Sample_contact_address | 1120 15th Street, CN2138
| | Sample_contact_city | Augusta
| | Sample_contact_state | GA
| | Sample_contact_zip/postal_code | 30912
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM984nnn/GSM984501/suppl/GSM984501_HS578T_HG-U133_Plus_2_.CEL.gz
| | Sample_series_id | GSE40057
| | Sample_series_id | GSE40059
| | Sample_data_row_count | 54675
| | |
|
GSM984502 | GPL570 |
|
Breast cancer cell line BT549
|
aggressive breast cancer cell line
|
cell line: BT549
tissue: breast
cell line type: Aggressive cell line
cell type: Breast cancer cells
|
BT549
|
| Sample_geo_accession | GSM984502
| | Sample_status | Public on Jun 03 2013
| | Sample_submission_date | Aug 11 2012
| | Sample_last_update_date | Jun 03 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | none
| | Sample_growth_protocol_ch1 | Breast cancer cell lines BT474, MDA-MB-468, T47D, ZR-75-1, MCF7, SK-BR3, MDA-MB-231, HS578T, BT549, SUM159 cell line were cultured in DMEM media with 10% fetal bovine serum (FBS). Immortalized breast epithelium cell lines MCF10A and MCF12A were cultured in DMEM/F12 supplemented with 5% horse serum, 20 ng/mL EGF, 10 μg/mL insulin, 100 ng/ml cholera toxin, and 500 ng/ml hydrocortisone.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using the QiazolTM Lysis reagent (Qiagen, Valencia, CA, USA).
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | The total RNA was labeled with affymetrix 3' IVT Express Kit according to manufacturor recommended protocols.
| | Sample_hyb_protocol | The array hybridization followed the standard affymetrix protocols.
| | Sample_scan_protocol | The Arrays were then washed using Affymetrix fluidics stations, and scanned using the Gene Chip Scanner 3000.
| | Sample_data_processing | CEL files was uploaded into Partek Genomics Suites 6.5 and processed using the mRNA expression pipeline. The data was quantile-normalized, summarized (median polish), and log2-transformed.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Huidong,,Shi
| | Sample_contact_email | hshi@georgiahealth.edu
| | Sample_contact_phone | 706-721-6000
| | Sample_contact_laboratory | 2125 K
| | Sample_contact_department | Cancer Center
| | Sample_contact_institute | Georgia Health Sciences University
| | Sample_contact_address | 1120 15th Street, CN2138
| | Sample_contact_city | Augusta
| | Sample_contact_state | GA
| | Sample_contact_zip/postal_code | 30912
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM984nnn/GSM984502/suppl/GSM984502_BT549_HG-U133_Plus_2_.CEL.gz
| | Sample_series_id | GSE40057
| | Sample_series_id | GSE40059
| | Sample_data_row_count | 54675
| | |
|
GSM984503 | GPL570 |
|
Breast cancer cell line SUM159
|
aggressive breast cancer cell line
|
cell line: SUM159
tissue: breast
cell line type: Aggressive cell line
cell type: Breast cancer cells
|
SUM159
|
| Sample_geo_accession | GSM984503
| | Sample_status | Public on Jun 03 2013
| | Sample_submission_date | Aug 11 2012
| | Sample_last_update_date | Jun 03 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | none
| | Sample_growth_protocol_ch1 | Breast cancer cell lines BT474, MDA-MB-468, T47D, ZR-75-1, MCF7, SK-BR3, MDA-MB-231, HS578T, BT549, SUM159 cell line were cultured in DMEM media with 10% fetal bovine serum (FBS). Immortalized breast epithelium cell lines MCF10A and MCF12A were cultured in DMEM/F12 supplemented with 5% horse serum, 20 ng/mL EGF, 10 μg/mL insulin, 100 ng/ml cholera toxin, and 500 ng/ml hydrocortisone.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using the QiazolTM Lysis reagent (Qiagen, Valencia, CA, USA).
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | The total RNA was labeled with affymetrix 3' IVT Express Kit according to manufacturor recommended protocols.
| | Sample_hyb_protocol | The array hybridization followed the standard affymetrix protocols.
| | Sample_scan_protocol | The Arrays were then washed using Affymetrix fluidics stations, and scanned using the Gene Chip Scanner 3000.
| | Sample_data_processing | CEL files was uploaded into Partek Genomics Suites 6.5 and processed using the mRNA expression pipeline. The data was quantile-normalized, summarized (median polish), and log2-transformed.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Huidong,,Shi
| | Sample_contact_email | hshi@georgiahealth.edu
| | Sample_contact_phone | 706-721-6000
| | Sample_contact_laboratory | 2125 K
| | Sample_contact_department | Cancer Center
| | Sample_contact_institute | Georgia Health Sciences University
| | Sample_contact_address | 1120 15th Street, CN2138
| | Sample_contact_city | Augusta
| | Sample_contact_state | GA
| | Sample_contact_zip/postal_code | 30912
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM984nnn/GSM984503/suppl/GSM984503_SUM159_HG-U133_Plus_2_.CEL.gz
| | Sample_series_id | GSE40057
| | Sample_series_id | GSE40059
| | Sample_data_row_count | 54675
| | |
|
GSM984504 | GPL570 |
|
Immortalized breast epithelium cell line MCF10A
|
Immortalized breast epithelium cell line
|
cell line: MCF10A
tissue: breast
cell line type: Immortalized breast epithelium cell line
cell type: Immortalized breast epithelium cells
|
MCF10A
|
| Sample_geo_accession | GSM984504
| | Sample_status | Public on Jun 03 2013
| | Sample_submission_date | Aug 11 2012
| | Sample_last_update_date | Jun 03 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | none
| | Sample_growth_protocol_ch1 | Breast cancer cell lines BT474, MDA-MB-468, T47D, ZR-75-1, MCF7, SK-BR3, MDA-MB-231, HS578T, BT549, SUM159 cell line were cultured in DMEM media with 10% fetal bovine serum (FBS). Immortalized breast epithelium cell lines MCF10A and MCF12A were cultured in DMEM/F12 supplemented with 5% horse serum, 20 ng/mL EGF, 10 μg/mL insulin, 100 ng/ml cholera toxin, and 500 ng/ml hydrocortisone.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using the QiazolTM Lysis reagent (Qiagen, Valencia, CA, USA).
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | The total RNA was labeled with affymetrix 3' IVT Express Kit according to manufacturor recommended protocols.
| | Sample_hyb_protocol | The array hybridization followed the standard affymetrix protocols.
| | Sample_scan_protocol | The Arrays were then washed using Affymetrix fluidics stations, and scanned using the Gene Chip Scanner 3000.
| | Sample_data_processing | CEL files was uploaded into Partek Genomics Suites 6.5 and processed using the mRNA expression pipeline. The data was quantile-normalized, summarized (median polish), and log2-transformed.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Huidong,,Shi
| | Sample_contact_email | hshi@georgiahealth.edu
| | Sample_contact_phone | 706-721-6000
| | Sample_contact_laboratory | 2125 K
| | Sample_contact_department | Cancer Center
| | Sample_contact_institute | Georgia Health Sciences University
| | Sample_contact_address | 1120 15th Street, CN2138
| | Sample_contact_city | Augusta
| | Sample_contact_state | GA
| | Sample_contact_zip/postal_code | 30912
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM984nnn/GSM984504/suppl/GSM984504_MCF10A_HG-U133_Plus_2_.CEL.gz
| | Sample_series_id | GSE40057
| | Sample_series_id | GSE40059
| | Sample_data_row_count | 54675
| | |
|
GSM984505 | GPL570 |
|
Immortalized breast epithelium cell line MCF12A
|
Immortalized breast epithelium cell line
|
cell line: MCF12A
tissue: breast
cell line type: Immortalized breast epithelium cell line
cell type: Immortalized breast epithelium cells
|
MCF12A
|
| Sample_geo_accession | GSM984505
| | Sample_status | Public on Jun 03 2013
| | Sample_submission_date | Aug 11 2012
| | Sample_last_update_date | Jun 03 2013
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | none
| | Sample_growth_protocol_ch1 | Breast cancer cell lines BT474, MDA-MB-468, T47D, ZR-75-1, MCF7, SK-BR3, MDA-MB-231, HS578T, BT549, SUM159 cell line were cultured in DMEM media with 10% fetal bovine serum (FBS). Immortalized breast epithelium cell lines MCF10A and MCF12A were cultured in DMEM/F12 supplemented with 5% horse serum, 20 ng/mL EGF, 10 μg/mL insulin, 100 ng/ml cholera toxin, and 500 ng/ml hydrocortisone.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using the QiazolTM Lysis reagent (Qiagen, Valencia, CA, USA).
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | The total RNA was labeled with affymetrix 3' IVT Express Kit according to manufacturor recommended protocols.
| | Sample_hyb_protocol | The array hybridization followed the standard affymetrix protocols.
| | Sample_scan_protocol | The Arrays were then washed using Affymetrix fluidics stations, and scanned using the Gene Chip Scanner 3000.
| | Sample_data_processing | CEL files was uploaded into Partek Genomics Suites 6.5 and processed using the mRNA expression pipeline. The data was quantile-normalized, summarized (median polish), and log2-transformed.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Huidong,,Shi
| | Sample_contact_email | hshi@georgiahealth.edu
| | Sample_contact_phone | 706-721-6000
| | Sample_contact_laboratory | 2125 K
| | Sample_contact_department | Cancer Center
| | Sample_contact_institute | Georgia Health Sciences University
| | Sample_contact_address | 1120 15th Street, CN2138
| | Sample_contact_city | Augusta
| | Sample_contact_state | GA
| | Sample_contact_zip/postal_code | 30912
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM984nnn/GSM984505/suppl/GSM984505_MCF12A_HG-U133_Plus_2_.CEL.gz
| | Sample_series_id | GSE40057
| | Sample_series_id | GSE40059
| | Sample_data_row_count | 54675
| | |
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Make groups for comparisons |
(2 groups will be compared at a time) |
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| Select GSMs and click on "Add groups" |
Enter the group name here: |
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