Search results for the GEO ID: GSE40464  |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM994550 | GPL570 |
|
IBC-02 cell line, replicate 1
|
IBC-02, adhesive growth
|
cell line: IBC-02
cell type: metastatic cells of breast cancer
growth type: adhesive
source: pleural effusion from patient with metastatic secondary inflammatory breast cancer (IBC)
|
Gene expression data from metastatic cells of breast cancer.
|
| Sample_geo_accession | GSM994550
| | Sample_status | Public on Sep 20 2012
| | Sample_submission_date | Aug 29 2012
| | Sample_last_update_date | Sep 20 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | Dulbecco's Modified Eagle's Medium (DMEM) with high glucose, 1.5 g/l NaHCO3, 10% fetal bovine serum (FBS), 1 mM MEM Na-pyruvate, 100 units/ml penicillin and 100 units/ml streptomycin (Gibco, Life Technologies). Cells were incubated at 37°C under 5% CO2.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNeasy kit (Qiagen, Hilden, Germany).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol.
| | Sample_hyb_protocol | Following fragmentation, cRNA were hybridized for 16 hr at 45C on Affymetrix Human Genome U133 Plus 2.0 Arrays. The arrays were then washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| | Sample_data_processing | Quality check and Robust Multichip Normalization using the R/Bioconductor affy package. The probe set intensities were derived from RMA normalization.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Yong,,Huang
| | Sample_contact_email | yongh@uchicago.edu
| | Sample_contact_phone | (773) 834 0832
| | Sample_contact_department | Medicine
| | Sample_contact_institute | University of Chicago
| | Sample_contact_address | 5841 South Maryland Avenue
| | Sample_contact_city | Chicago
| | Sample_contact_state | IL
| | Sample_contact_zip/postal_code | 60637
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM994nnn/GSM994550/suppl/GSM994550_IBC02_Rep1.CEL.gz
| | Sample_series_id | GSE40464
| | Sample_data_row_count | 54613
| | |
|
GSM994551 | GPL570 |
|
IBC-02 cell line, replicate 2
|
IBC-02, adhesive growth
|
cell line: IBC-02
cell type: metastatic cells of breast cancer
growth type: adhesive
source: pleural effusion from patient with metastatic secondary inflammatory breast cancer (IBC)
|
Gene expression data from metastatic cells of breast cancer.
|
| Sample_geo_accession | GSM994551
| | Sample_status | Public on Sep 20 2012
| | Sample_submission_date | Aug 29 2012
| | Sample_last_update_date | Sep 20 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | Dulbecco's Modified Eagle's Medium (DMEM) with high glucose, 1.5 g/l NaHCO3, 10% fetal bovine serum (FBS), 1 mM MEM Na-pyruvate, 100 units/ml penicillin and 100 units/ml streptomycin (Gibco, Life Technologies). Cells were incubated at 37°C under 5% CO2.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNeasy kit (Qiagen, Hilden, Germany).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol.
| | Sample_hyb_protocol | Following fragmentation, cRNA were hybridized for 16 hr at 45C on Affymetrix Human Genome U133 Plus 2.0 Arrays. The arrays were then washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| | Sample_data_processing | Quality check and Robust Multichip Normalization using the R/Bioconductor affy package. The probe set intensities were derived from RMA normalization.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Yong,,Huang
| | Sample_contact_email | yongh@uchicago.edu
| | Sample_contact_phone | (773) 834 0832
| | Sample_contact_department | Medicine
| | Sample_contact_institute | University of Chicago
| | Sample_contact_address | 5841 South Maryland Avenue
| | Sample_contact_city | Chicago
| | Sample_contact_state | IL
| | Sample_contact_zip/postal_code | 60637
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM994nnn/GSM994551/suppl/GSM994551_IBC02_Rep2.CEL.gz
| | Sample_series_id | GSE40464
| | Sample_data_row_count | 54613
| | |
|
GSM994552 | GPL570 |
|
IBC-02 cell line, mammosphere, replicate 1
|
IBC-02, mammosphere growth
|
cell line: IBC-02
cell type: metastatic cells of breast cancer
growth type: mammosphere
source: pleural effusion from patient with metastatic secondary inflammatory breast cancer (IBC)
|
Gene expression data from metastatic cells of breast cancer.
|
| Sample_geo_accession | GSM994552
| | Sample_status | Public on Sep 20 2012
| | Sample_submission_date | Aug 29 2012
| | Sample_last_update_date | Sep 20 2012
| | 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 | RNeasy kit (Qiagen, Hilden, Germany).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol.
| | Sample_hyb_protocol | Following fragmentation, cRNA were hybridized for 16 hr at 45C on Affymetrix Human Genome U133 Plus 2.0 Arrays. The arrays were then washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| | Sample_data_processing | Quality check and Robust Multichip Normalization using the R/Bioconductor affy package. The probe set intensities were derived from RMA normalization.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Yong,,Huang
| | Sample_contact_email | yongh@uchicago.edu
| | Sample_contact_phone | (773) 834 0832
| | Sample_contact_department | Medicine
| | Sample_contact_institute | University of Chicago
| | Sample_contact_address | 5841 South Maryland Avenue
| | Sample_contact_city | Chicago
| | Sample_contact_state | IL
| | Sample_contact_zip/postal_code | 60637
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM994nnn/GSM994552/suppl/GSM994552_IBC02m_Rep1.CEL.gz
| | Sample_series_id | GSE40464
| | Sample_data_row_count | 54613
| | |
|
GSM994553 | GPL570 |
|
IBC-02 cell line, mammosphere, replicate 2
|
IBC-02, mammosphere growth
|
cell line: IBC-02
cell type: metastatic cells of breast cancer
growth type: mammosphere
source: pleural effusion from patient with metastatic secondary inflammatory breast cancer (IBC)
|
Gene expression data from metastatic cells of breast cancer.
|
| Sample_geo_accession | GSM994553
| | Sample_status | Public on Sep 20 2012
| | Sample_submission_date | Aug 29 2012
| | Sample_last_update_date | Sep 20 2012
| | 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 | RNeasy kit (Qiagen, Hilden, Germany).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol.
| | Sample_hyb_protocol | Following fragmentation, cRNA were hybridized for 16 hr at 45C on Affymetrix Human Genome U133 Plus 2.0 Arrays. The arrays were then washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| | Sample_data_processing | Quality check and Robust Multichip Normalization using the R/Bioconductor affy package. The probe set intensities were derived from RMA normalization.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Yong,,Huang
| | Sample_contact_email | yongh@uchicago.edu
| | Sample_contact_phone | (773) 834 0832
| | Sample_contact_department | Medicine
| | Sample_contact_institute | University of Chicago
| | Sample_contact_address | 5841 South Maryland Avenue
| | Sample_contact_city | Chicago
| | Sample_contact_state | IL
| | Sample_contact_zip/postal_code | 60637
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM994nnn/GSM994553/suppl/GSM994553_IBC02m_Rep2.CEL.gz
| | Sample_series_id | GSE40464
| | Sample_data_row_count | 54613
| | |
|
GSM994554 | GPL570 |
|
IBC3 cell line, replicate 1
|
IBC3, adhesive growth
|
cell line: IBC3
cell type: metastatic cells of breast cancer
growth type: adhesive
source: pleural effusion
|
Gene expression data from metastatic cells of breast cancer.
|
| Sample_geo_accession | GSM994554
| | Sample_status | Public on Sep 20 2012
| | Sample_submission_date | Aug 29 2012
| | Sample_last_update_date | Sep 20 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | Dulbecco's Modified Eagle's Medium (DMEM) with high glucose, 1.5 g/l NaHCO3, 10% fetal bovine serum (FBS), 1 mM MEM Na-pyruvate, 100 units/ml penicillin and 100 units/ml streptomycin (Gibco, Life Technologies). Cells were incubated at 37°C under 5% CO2.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNeasy kit (Qiagen, Hilden, Germany).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol.
| | Sample_hyb_protocol | Following fragmentation, cRNA were hybridized for 16 hr at 45C on Affymetrix Human Genome U133 Plus 2.0 Arrays. The arrays were then washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| | Sample_data_processing | Quality check and Robust Multichip Normalization using the R/Bioconductor affy package. The probe set intensities were derived from RMA normalization.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Yong,,Huang
| | Sample_contact_email | yongh@uchicago.edu
| | Sample_contact_phone | (773) 834 0832
| | Sample_contact_department | Medicine
| | Sample_contact_institute | University of Chicago
| | Sample_contact_address | 5841 South Maryland Avenue
| | Sample_contact_city | Chicago
| | Sample_contact_state | IL
| | Sample_contact_zip/postal_code | 60637
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM994nnn/GSM994554/suppl/GSM994554_IBC3_Rep1.CEL.gz
| | Sample_series_id | GSE40464
| | Sample_data_row_count | 54613
| | |
|
GSM994555 | GPL570 |
|
IBC3 cell line, replicate 2
|
IBC3, adhesive growth
|
cell line: IBC3
cell type: metastatic cells of breast cancer
growth type: adhesive
source: pleural effusion
|
Gene expression data from metastatic cells of breast cancer.
|
| Sample_geo_accession | GSM994555
| | Sample_status | Public on Sep 20 2012
| | Sample_submission_date | Aug 29 2012
| | Sample_last_update_date | Sep 20 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | Dulbecco's Modified Eagle's Medium (DMEM) with high glucose, 1.5 g/l NaHCO3, 10% fetal bovine serum (FBS), 1 mM MEM Na-pyruvate, 100 units/ml penicillin and 100 units/ml streptomycin (Gibco, Life Technologies). Cells were incubated at 37°C under 5% CO2.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNeasy kit (Qiagen, Hilden, Germany).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol.
| | Sample_hyb_protocol | Following fragmentation, cRNA were hybridized for 16 hr at 45C on Affymetrix Human Genome U133 Plus 2.0 Arrays. The arrays were then washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| | Sample_data_processing | Quality check and Robust Multichip Normalization using the R/Bioconductor affy package. The probe set intensities were derived from RMA normalization.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Yong,,Huang
| | Sample_contact_email | yongh@uchicago.edu
| | Sample_contact_phone | (773) 834 0832
| | Sample_contact_department | Medicine
| | Sample_contact_institute | University of Chicago
| | Sample_contact_address | 5841 South Maryland Avenue
| | Sample_contact_city | Chicago
| | Sample_contact_state | IL
| | Sample_contact_zip/postal_code | 60637
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM994nnn/GSM994555/suppl/GSM994555_IBC3_Rep2.CEL.gz
| | Sample_series_id | GSE40464
| | Sample_data_row_count | 54613
| | |
|
GSM994556 | GPL570 |
|
MDA-MB231 cell line, replicate 1
|
MDA-MB231, adhesive growth
|
cell line: MDA-MB231
cell type: metastatic cells of breast cancer
growth type: adhesive
source: pleural effusion
|
Gene expression data from metastatic cells of breast cancer.
|
| Sample_geo_accession | GSM994556
| | Sample_status | Public on Sep 20 2012
| | Sample_submission_date | Aug 29 2012
| | Sample_last_update_date | Sep 20 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | Dulbecco's Modified Eagle's Medium (DMEM) with high glucose, 1.5 g/l NaHCO3, 10% fetal bovine serum (FBS), 1 mM MEM Na-pyruvate, 100 units/ml penicillin and 100 units/ml streptomycin (Gibco, Life Technologies). Cells were incubated at 37°C under 5% CO2.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNeasy kit (Qiagen, Hilden, Germany).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol.
| | Sample_hyb_protocol | Following fragmentation, cRNA were hybridized for 16 hr at 45C on Affymetrix Human Genome U133 Plus 2.0 Arrays. The arrays were then washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| | Sample_data_processing | Quality check and Robust Multichip Normalization using the R/Bioconductor affy package. The probe set intensities were derived from RMA normalization.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Yong,,Huang
| | Sample_contact_email | yongh@uchicago.edu
| | Sample_contact_phone | (773) 834 0832
| | Sample_contact_department | Medicine
| | Sample_contact_institute | University of Chicago
| | Sample_contact_address | 5841 South Maryland Avenue
| | Sample_contact_city | Chicago
| | Sample_contact_state | IL
| | Sample_contact_zip/postal_code | 60637
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM994nnn/GSM994556/suppl/GSM994556_MB231_Rep1.CEL.gz
| | Sample_series_id | GSE40464
| | Sample_data_row_count | 54613
| | |
|
GSM994557 | GPL570 |
|
MDA-MB231 cell line, replicate 2
|
MDA-MB231, adhesive growth
|
cell line: MDA-MB231
cell type: metastatic cells of breast cancer
growth type: adhesive
source: pleural effusion
|
Gene expression data from metastatic cells of breast cancer.
|
| Sample_geo_accession | GSM994557
| | Sample_status | Public on Sep 20 2012
| | Sample_submission_date | Aug 29 2012
| | Sample_last_update_date | Sep 20 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | Dulbecco's Modified Eagle's Medium (DMEM) with high glucose, 1.5 g/l NaHCO3, 10% fetal bovine serum (FBS), 1 mM MEM Na-pyruvate, 100 units/ml penicillin and 100 units/ml streptomycin (Gibco, Life Technologies). Cells were incubated at 37°C under 5% CO2.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNeasy kit (Qiagen, Hilden, Germany).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol.
| | Sample_hyb_protocol | Following fragmentation, cRNA were hybridized for 16 hr at 45C on Affymetrix Human Genome U133 Plus 2.0 Arrays. The arrays were then washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| | Sample_data_processing | Quality check and Robust Multichip Normalization using the R/Bioconductor affy package. The probe set intensities were derived from RMA normalization.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Yong,,Huang
| | Sample_contact_email | yongh@uchicago.edu
| | Sample_contact_phone | (773) 834 0832
| | Sample_contact_department | Medicine
| | Sample_contact_institute | University of Chicago
| | Sample_contact_address | 5841 South Maryland Avenue
| | Sample_contact_city | Chicago
| | Sample_contact_state | IL
| | Sample_contact_zip/postal_code | 60637
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM994nnn/GSM994557/suppl/GSM994557_MB231_Rep2.CEL.gz
| | Sample_series_id | GSE40464
| | Sample_data_row_count | 54613
| | |
|
GSM994558 | GPL570 |
|
MDA-MB468 cell line, replicate 1
|
MDA-MB468, adhesive growth
|
cell line: MDA-MB468
cell type: metastatic cells of breast cancer
growth type: adhesive
source: pleural effusion
|
Gene expression data from metastatic cells of breast cancer.
|
| Sample_geo_accession | GSM994558
| | Sample_status | Public on Sep 20 2012
| | Sample_submission_date | Aug 29 2012
| | Sample_last_update_date | Sep 20 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | Dulbecco's Modified Eagle's Medium (DMEM) with high glucose, 1.5 g/l NaHCO3, 10% fetal bovine serum (FBS), 1 mM MEM Na-pyruvate, 100 units/ml penicillin and 100 units/ml streptomycin (Gibco, Life Technologies). Cells were incubated at 37°C under 5% CO2.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNeasy kit (Qiagen, Hilden, Germany).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol.
| | Sample_hyb_protocol | Following fragmentation, cRNA were hybridized for 16 hr at 45C on Affymetrix Human Genome U133 Plus 2.0 Arrays. The arrays were then washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| | Sample_data_processing | Quality check and Robust Multichip Normalization using the R/Bioconductor affy package. The probe set intensities were derived from RMA normalization.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Yong,,Huang
| | Sample_contact_email | yongh@uchicago.edu
| | Sample_contact_phone | (773) 834 0832
| | Sample_contact_department | Medicine
| | Sample_contact_institute | University of Chicago
| | Sample_contact_address | 5841 South Maryland Avenue
| | Sample_contact_city | Chicago
| | Sample_contact_state | IL
| | Sample_contact_zip/postal_code | 60637
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM994nnn/GSM994558/suppl/GSM994558_MB468_Rep1.CEL.gz
| | Sample_series_id | GSE40464
| | Sample_data_row_count | 54613
| | |
|
GSM994559 | GPL570 |
|
MDA-MB468 cell line, replicate 2
|
MDA-MB468, adhesive growth
|
cell line: MDA-MB468
cell type: metastatic cells of breast cancer
growth type: adhesive
source: pleural effusion
|
Gene expression data from metastatic cells of breast cancer.
|
| Sample_geo_accession | GSM994559
| | Sample_status | Public on Sep 20 2012
| | Sample_submission_date | Aug 29 2012
| | Sample_last_update_date | Sep 20 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | Dulbecco's Modified Eagle's Medium (DMEM) with high glucose, 1.5 g/l NaHCO3, 10% fetal bovine serum (FBS), 1 mM MEM Na-pyruvate, 100 units/ml penicillin and 100 units/ml streptomycin (Gibco, Life Technologies). Cells were incubated at 37°C under 5% CO2.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNeasy kit (Qiagen, Hilden, Germany).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol.
| | Sample_hyb_protocol | Following fragmentation, cRNA were hybridized for 16 hr at 45C on Affymetrix Human Genome U133 Plus 2.0 Arrays. The arrays were then washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| | Sample_data_processing | Quality check and Robust Multichip Normalization using the R/Bioconductor affy package. The probe set intensities were derived from RMA normalization.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Yong,,Huang
| | Sample_contact_email | yongh@uchicago.edu
| | Sample_contact_phone | (773) 834 0832
| | Sample_contact_department | Medicine
| | Sample_contact_institute | University of Chicago
| | Sample_contact_address | 5841 South Maryland Avenue
| | Sample_contact_city | Chicago
| | Sample_contact_state | IL
| | Sample_contact_zip/postal_code | 60637
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM994nnn/GSM994559/suppl/GSM994559_MB468_Rep2.CEL.gz
| | Sample_series_id | GSE40464
| | Sample_data_row_count | 54613
| | |
|
GSM994560 | GPL570 |
|
SUM149 cell line, replicate 1
|
SUM149, adhesive growth
|
cell line: SUM149
cell type: metastatic cells of breast cancer
growth type: adhesive
source: pleural effusion
|
Gene expression data from metastatic cells of breast cancer.
|
| Sample_geo_accession | GSM994560
| | Sample_status | Public on Sep 20 2012
| | Sample_submission_date | Aug 29 2012
| | Sample_last_update_date | Sep 20 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | Dulbecco's Modified Eagle's Medium (DMEM) with high glucose, 1.5 g/l NaHCO3, 10% fetal bovine serum (FBS), 1 mM MEM Na-pyruvate, 100 units/ml penicillin and 100 units/ml streptomycin (Gibco, Life Technologies). Cells were incubated at 37°C under 5% CO2.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNeasy kit (Qiagen, Hilden, Germany).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol.
| | Sample_hyb_protocol | Following fragmentation, cRNA were hybridized for 16 hr at 45C on Affymetrix Human Genome U133 Plus 2.0 Arrays. The arrays were then washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| | Sample_data_processing | Quality check and Robust Multichip Normalization using the R/Bioconductor affy package. The probe set intensities were derived from RMA normalization.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Yong,,Huang
| | Sample_contact_email | yongh@uchicago.edu
| | Sample_contact_phone | (773) 834 0832
| | Sample_contact_department | Medicine
| | Sample_contact_institute | University of Chicago
| | Sample_contact_address | 5841 South Maryland Avenue
| | Sample_contact_city | Chicago
| | Sample_contact_state | IL
| | Sample_contact_zip/postal_code | 60637
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM994nnn/GSM994560/suppl/GSM994560_SUM149_Rep1.CEL.gz
| | Sample_series_id | GSE40464
| | Sample_data_row_count | 54613
| | |
|
GSM994561 | GPL570 |
|
SUM149 cell line, replicate 2
|
SUM149, adhesive growth
|
cell line: SUM149
cell type: metastatic cells of breast cancer
growth type: adhesive
source: pleural effusion
|
Gene expression data from metastatic cells of breast cancer.
|
| Sample_geo_accession | GSM994561
| | Sample_status | Public on Sep 20 2012
| | Sample_submission_date | Aug 29 2012
| | Sample_last_update_date | Sep 20 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | Dulbecco's Modified Eagle's Medium (DMEM) with high glucose, 1.5 g/l NaHCO3, 10% fetal bovine serum (FBS), 1 mM MEM Na-pyruvate, 100 units/ml penicillin and 100 units/ml streptomycin (Gibco, Life Technologies). Cells were incubated at 37°C under 5% CO2.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNeasy kit (Qiagen, Hilden, Germany).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol.
| | Sample_hyb_protocol | Following fragmentation, cRNA were hybridized for 16 hr at 45C on Affymetrix Human Genome U133 Plus 2.0 Arrays. The arrays were then washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| | Sample_data_processing | Quality check and Robust Multichip Normalization using the R/Bioconductor affy package. The probe set intensities were derived from RMA normalization.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Yong,,Huang
| | Sample_contact_email | yongh@uchicago.edu
| | Sample_contact_phone | (773) 834 0832
| | Sample_contact_department | Medicine
| | Sample_contact_institute | University of Chicago
| | Sample_contact_address | 5841 South Maryland Avenue
| | Sample_contact_city | Chicago
| | Sample_contact_state | IL
| | Sample_contact_zip/postal_code | 60637
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM994nnn/GSM994561/suppl/GSM994561_SUM149_Rep2.CEL.gz
| | Sample_series_id | GSE40464
| | Sample_data_row_count | 54613
| | |
|
GSM994562 | GPL570 |
|
SUM190 cell line, replicate 1
|
SUM190, adhesive growth
|
cell line: SUM190
cell type: metastatic cells of breast cancer
growth type: adhesive
source: pleural effusion
|
Gene expression data from metastatic cells of breast cancer.
|
| Sample_geo_accession | GSM994562
| | Sample_status | Public on Sep 20 2012
| | Sample_submission_date | Aug 29 2012
| | Sample_last_update_date | Sep 20 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | Dulbecco's Modified Eagle's Medium (DMEM) with high glucose, 1.5 g/l NaHCO3, 10% fetal bovine serum (FBS), 1 mM MEM Na-pyruvate, 100 units/ml penicillin and 100 units/ml streptomycin (Gibco, Life Technologies). Cells were incubated at 37°C under 5% CO2.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNeasy kit (Qiagen, Hilden, Germany).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol.
| | Sample_hyb_protocol | Following fragmentation, cRNA were hybridized for 16 hr at 45C on Affymetrix Human Genome U133 Plus 2.0 Arrays. The arrays were then washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| | Sample_data_processing | Quality check and Robust Multichip Normalization using the R/Bioconductor affy package. The probe set intensities were derived from RMA normalization.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Yong,,Huang
| | Sample_contact_email | yongh@uchicago.edu
| | Sample_contact_phone | (773) 834 0832
| | Sample_contact_department | Medicine
| | Sample_contact_institute | University of Chicago
| | Sample_contact_address | 5841 South Maryland Avenue
| | Sample_contact_city | Chicago
| | Sample_contact_state | IL
| | Sample_contact_zip/postal_code | 60637
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM994nnn/GSM994562/suppl/GSM994562_SUM190_Rep1.CEL.gz
| | Sample_series_id | GSE40464
| | Sample_data_row_count | 54613
| | |
|
GSM994563 | GPL570 |
|
SUM190 cell line, replicate 2
|
SUM190, adhesive growth
|
cell line: SUM190
cell type: metastatic cells of breast cancer
growth type: adhesive
source: pleural effusion
|
Gene expression data from metastatic cells of breast cancer.
|
| Sample_geo_accession | GSM994563
| | Sample_status | Public on Sep 20 2012
| | Sample_submission_date | Aug 29 2012
| | Sample_last_update_date | Sep 20 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | Dulbecco's Modified Eagle's Medium (DMEM) with high glucose, 1.5 g/l NaHCO3, 10% fetal bovine serum (FBS), 1 mM MEM Na-pyruvate, 100 units/ml penicillin and 100 units/ml streptomycin (Gibco, Life Technologies). Cells were incubated at 37°C under 5% CO2.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNeasy kit (Qiagen, Hilden, Germany).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol.
| | Sample_hyb_protocol | Following fragmentation, cRNA were hybridized for 16 hr at 45C on Affymetrix Human Genome U133 Plus 2.0 Arrays. The arrays were then washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Hewlett-Packard GeneArray Scanner G2500A.
| | Sample_data_processing | Quality check and Robust Multichip Normalization using the R/Bioconductor affy package. The probe set intensities were derived from RMA normalization.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Yong,,Huang
| | Sample_contact_email | yongh@uchicago.edu
| | Sample_contact_phone | (773) 834 0832
| | Sample_contact_department | Medicine
| | Sample_contact_institute | University of Chicago
| | Sample_contact_address | 5841 South Maryland Avenue
| | Sample_contact_city | Chicago
| | Sample_contact_state | IL
| | Sample_contact_zip/postal_code | 60637
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM994nnn/GSM994563/suppl/GSM994563_SUM190_Rep2.CEL.gz
| | Sample_series_id | GSE40464
| | Sample_data_row_count | 54613
| | |
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