Search results for the GEO ID: GSE18931  |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM468802 | GPL570 |
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Mammary epithelial cells, FACS sorted, PKH-Negative, Pool 1
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Epithelial cells, from dissociated mammospheres obtained from reductive mammoplasties
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cell type: Mammary Epithelial Cells
|
Gene expression data from FACS sorted PKH-Negative cells derived from dissociated mammospheres
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| Sample_geo_accession | GSM468802
| | Sample_status | Public on Nov 07 2009
| | Sample_submission_date | Nov 06 2009
| | Sample_last_update_date | Nov 06 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | Epithelial cells, from reductive mammoplasties , were allowed to adhere for 24 h in complete SC medium. Cells were trypsinized, filtered through a 100um and a 40um cell strainer, resuspendend in PBS (500,000/ml), and labeled with PKH26 (Sigma, 10-7 M, 5 min). Labeled cells were plated (30,000 cells/ml) in suspension. After 7-10 days, mammospheres were harvested, dissociated enzymatically (0.05% trypsin/0.5 mM EDTA for 10 min, plus filtering though a 40um cell strainer), and subjected to FACS analysis using a FACS Vantage SE flow cytometer (Becton&Dickinson) to yield PKH-POS and PKH-NEG cells.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using the Arcturus PicoPure RNA Isolation Kit (Arcturus Engineering, CA, USA) according to the manufacturer’s instructions, and analyzed with the Agilent 2100 Bioanalyzer (Agilent Technologies).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Total RNA (50-100 ng) was amplified using the Affymetrix T7 Polymerase-based double linear amplification protocol. cRNA probes (10 ug) were hybridized onto the Affymetrix HG-U133_Plus_2 ChipSet (Santa Clara, CA, USA), according to Affymetrix technical protocols.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 30007G
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Stefano,,Confalonieri
| | Sample_contact_email | stefano.confalonieri@ifom-ieo-campus.it
| | Sample_contact_institute | IFOM - The FIRC Institute for Molecular Oncology Foundation
| | Sample_contact_address | Via Adamello 16
| | Sample_contact_city | Milano
| | Sample_contact_zip/postal_code | 21039
| | Sample_contact_country | Italy
| | Sample_contact_web_link | www.ifom-ieo-campus.it
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM468nnn/GSM468802/suppl/GSM468802.CEL.gz
| | Sample_series_id | GSE18931
| | Sample_data_row_count | 54675
| | |
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GSM468803 | GPL570 |
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Mammary epithelial cells, FACS sorted, PKH-Positive, Pool 1
|
Epithelial cells, from dissociated mammospheres obtained from reductive mammoplasties
|
cell type: Mammary Epithelial Cells
|
Gene expression data from FACS sorted PKH-Positive cells derived from dissociated mammospheres
|
| Sample_geo_accession | GSM468803
| | Sample_status | Public on Nov 07 2009
| | Sample_submission_date | Nov 06 2009
| | Sample_last_update_date | Nov 06 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | Epithelial cells, from reductive mammoplasties , were allowed to adhere for 24 h in complete SC medium. Cells were trypsinized, filtered through a 100um and a 40um cell strainer, resuspendend in PBS (500,000/ml), and labeled with PKH26 (Sigma, 10-7 M, 5 min). Labeled cells were plated (30,000 cells/ml) in suspension. After 7-10 days, mammospheres were harvested, dissociated enzymatically (0.05% trypsin/0.5 mM EDTA for 10 min, plus filtering though a 40um cell strainer), and subjected to FACS analysis using a FACS Vantage SE flow cytometer (Becton&Dickinson) to yield PKH-POS and PKH-NEG cells.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using the Arcturus PicoPure RNA Isolation Kit (Arcturus Engineering, CA, USA) according to the manufacturer’s instructions, and analyzed with the Agilent 2100 Bioanalyzer (Agilent Technologies).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Total RNA (50-100 ng) was amplified using the Affymetrix T7 Polymerase-based double linear amplification protocol. cRNA probes (10 ug) were hybridized onto the Affymetrix HG-U133_Plus_2 ChipSet (Santa Clara, CA, USA), according to Affymetrix technical protocols.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 30007G
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Stefano,,Confalonieri
| | Sample_contact_email | stefano.confalonieri@ifom-ieo-campus.it
| | Sample_contact_institute | IFOM - The FIRC Institute for Molecular Oncology Foundation
| | Sample_contact_address | Via Adamello 16
| | Sample_contact_city | Milano
| | Sample_contact_zip/postal_code | 21039
| | Sample_contact_country | Italy
| | Sample_contact_web_link | www.ifom-ieo-campus.it
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM468nnn/GSM468803/suppl/GSM468803.CEL.gz
| | Sample_series_id | GSE18931
| | Sample_data_row_count | 54675
| | |
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GSM468804 | GPL570 |
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Mammary epithelial cells, FACS sorted, PKH-Negative, Pool 2
|
Epithelial cells, from dissociated mammospheres obtained from reductive mammoplasties
|
cell type: Mammary Epithelial Cells
|
Gene expression data from FACS sorted PKH-Negative cells derived from dissociated mammospheres
|
| Sample_geo_accession | GSM468804
| | Sample_status | Public on Nov 07 2009
| | Sample_submission_date | Nov 06 2009
| | Sample_last_update_date | Nov 06 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | Epithelial cells, from reductive mammoplasties , were allowed to adhere for 24 h in complete SC medium. Cells were trypsinized, filtered through a 100um and a 40um cell strainer, resuspendend in PBS (500,000/ml), and labeled with PKH26 (Sigma, 10-7 M, 5 min). Labeled cells were plated (30,000 cells/ml) in suspension. After 7-10 days, mammospheres were harvested, dissociated enzymatically (0.05% trypsin/0.5 mM EDTA for 10 min, plus filtering though a 40um cell strainer), and subjected to FACS analysis using a FACS Vantage SE flow cytometer (Becton&Dickinson) to yield PKH-POS and PKH-NEG cells.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using the Arcturus PicoPure RNA Isolation Kit (Arcturus Engineering, CA, USA) according to the manufacturer’s instructions, and analyzed with the Agilent 2100 Bioanalyzer (Agilent Technologies).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Total RNA (50-100 ng) was amplified using the Affymetrix T7 Polymerase-based double linear amplification protocol. cRNA probes (10 ug) were hybridized onto the Affymetrix HG-U133_Plus_2 ChipSet (Santa Clara, CA, USA), according to Affymetrix technical protocols.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 30007G
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Stefano,,Confalonieri
| | Sample_contact_email | stefano.confalonieri@ifom-ieo-campus.it
| | Sample_contact_institute | IFOM - The FIRC Institute for Molecular Oncology Foundation
| | Sample_contact_address | Via Adamello 16
| | Sample_contact_city | Milano
| | Sample_contact_zip/postal_code | 21039
| | Sample_contact_country | Italy
| | Sample_contact_web_link | www.ifom-ieo-campus.it
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM468nnn/GSM468804/suppl/GSM468804.CEL.gz
| | Sample_series_id | GSE18931
| | Sample_data_row_count | 54675
| | |
|
GSM468805 | GPL570 |
|
Mammary epithelial cells, FACS sorted, PKH-Positive, Pool 2
|
Epithelial cells, from dissociated mammospheres obtained from reductive mammoplasties
|
cell type: Mammary Epithelial Cells
|
Gene expression data from FACS sorted PKH-Positive cells derived from dissociated mammospheres
|
| Sample_geo_accession | GSM468805
| | Sample_status | Public on Nov 07 2009
| | Sample_submission_date | Nov 06 2009
| | Sample_last_update_date | Nov 06 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | Epithelial cells, from reductive mammoplasties , were allowed to adhere for 24 h in complete SC medium. Cells were trypsinized, filtered through a 100um and a 40um cell strainer, resuspendend in PBS (500,000/ml), and labeled with PKH26 (Sigma, 10-7 M, 5 min). Labeled cells were plated (30,000 cells/ml) in suspension. After 7-10 days, mammospheres were harvested, dissociated enzymatically (0.05% trypsin/0.5 mM EDTA for 10 min, plus filtering though a 40um cell strainer), and subjected to FACS analysis using a FACS Vantage SE flow cytometer (Becton&Dickinson) to yield PKH-POS and PKH-NEG cells.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using the Arcturus PicoPure RNA Isolation Kit (Arcturus Engineering, CA, USA) according to the manufacturer’s instructions, and analyzed with the Agilent 2100 Bioanalyzer (Agilent Technologies).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Total RNA (50-100 ng) was amplified using the Affymetrix T7 Polymerase-based double linear amplification protocol. cRNA probes (10 ug) were hybridized onto the Affymetrix HG-U133_Plus_2 ChipSet (Santa Clara, CA, USA), according to Affymetrix technical protocols.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 30007G
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Stefano,,Confalonieri
| | Sample_contact_email | stefano.confalonieri@ifom-ieo-campus.it
| | Sample_contact_institute | IFOM - The FIRC Institute for Molecular Oncology Foundation
| | Sample_contact_address | Via Adamello 16
| | Sample_contact_city | Milano
| | Sample_contact_zip/postal_code | 21039
| | Sample_contact_country | Italy
| | Sample_contact_web_link | www.ifom-ieo-campus.it
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM468nnn/GSM468805/suppl/GSM468805.CEL.gz
| | Sample_series_id | GSE18931
| | Sample_data_row_count | 54675
| | |
|
GSM468806 | GPL570 |
|
Mammary epithelial cells, FACS sorted, PKH-Negative, Pool 3
|
Epithelial cells, from dissociated mammospheres obtained from reductive mammoplasties
|
cell type: Mammary Epithelial Cells
|
Gene expression data from FACS sorted PKH-Negative cells derived from dissociated mammospheres
|
| Sample_geo_accession | GSM468806
| | Sample_status | Public on Nov 07 2009
| | Sample_submission_date | Nov 06 2009
| | Sample_last_update_date | Nov 06 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | Epithelial cells, from reductive mammoplasties , were allowed to adhere for 24 h in complete SC medium. Cells were trypsinized, filtered through a 100um and a 40um cell strainer, resuspendend in PBS (500,000/ml), and labeled with PKH26 (Sigma, 10-7 M, 5 min). Labeled cells were plated (30,000 cells/ml) in suspension. After 7-10 days, mammospheres were harvested, dissociated enzymatically (0.05% trypsin/0.5 mM EDTA for 10 min, plus filtering though a 40um cell strainer), and subjected to FACS analysis using a FACS Vantage SE flow cytometer (Becton&Dickinson) to yield PKH-POS and PKH-NEG cells.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using the Arcturus PicoPure RNA Isolation Kit (Arcturus Engineering, CA, USA) according to the manufacturer’s instructions, and analyzed with the Agilent 2100 Bioanalyzer (Agilent Technologies).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Total RNA (50-100 ng) was amplified using the Affymetrix T7 Polymerase-based double linear amplification protocol. cRNA probes (10 ug) were hybridized onto the Affymetrix HG-U133_Plus_2 ChipSet (Santa Clara, CA, USA), according to Affymetrix technical protocols.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 30007G
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Stefano,,Confalonieri
| | Sample_contact_email | stefano.confalonieri@ifom-ieo-campus.it
| | Sample_contact_institute | IFOM - The FIRC Institute for Molecular Oncology Foundation
| | Sample_contact_address | Via Adamello 16
| | Sample_contact_city | Milano
| | Sample_contact_zip/postal_code | 21039
| | Sample_contact_country | Italy
| | Sample_contact_web_link | www.ifom-ieo-campus.it
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM468nnn/GSM468806/suppl/GSM468806.CEL.gz
| | Sample_series_id | GSE18931
| | Sample_data_row_count | 54675
| | |
|
GSM468807 | GPL570 |
|
Mammary epithelial cells, FACS sorted, PKH-Positive, Pool 3
|
Epithelial cells, from dissociated mammospheres obtained from reductive mammoplasties
|
cell type: Mammary Epithelial Cells
|
Gene expression data from FACS sorted PKH-Positive cells derived from dissociated mammospheres
|
| Sample_geo_accession | GSM468807
| | Sample_status | Public on Nov 07 2009
| | Sample_submission_date | Nov 06 2009
| | Sample_last_update_date | Nov 06 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_growth_protocol_ch1 | Epithelial cells, from reductive mammoplasties , were allowed to adhere for 24 h in complete SC medium. Cells were trypsinized, filtered through a 100um and a 40um cell strainer, resuspendend in PBS (500,000/ml), and labeled with PKH26 (Sigma, 10-7 M, 5 min). Labeled cells were plated (30,000 cells/ml) in suspension. After 7-10 days, mammospheres were harvested, dissociated enzymatically (0.05% trypsin/0.5 mM EDTA for 10 min, plus filtering though a 40um cell strainer), and subjected to FACS analysis using a FACS Vantage SE flow cytometer (Becton&Dickinson) to yield PKH-POS and PKH-NEG cells.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted using the Arcturus PicoPure RNA Isolation Kit (Arcturus Engineering, CA, USA) according to the manufacturer’s instructions, and analyzed with the Agilent 2100 Bioanalyzer (Agilent Technologies).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Total RNA (50-100 ng) was amplified using the Affymetrix T7 Polymerase-based double linear amplification protocol. cRNA probes (10 ug) were hybridized onto the Affymetrix HG-U133_Plus_2 ChipSet (Santa Clara, CA, USA), according to Affymetrix technical protocols.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 30007G
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 500.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Stefano,,Confalonieri
| | Sample_contact_email | stefano.confalonieri@ifom-ieo-campus.it
| | Sample_contact_institute | IFOM - The FIRC Institute for Molecular Oncology Foundation
| | Sample_contact_address | Via Adamello 16
| | Sample_contact_city | Milano
| | Sample_contact_zip/postal_code | 21039
| | Sample_contact_country | Italy
| | Sample_contact_web_link | www.ifom-ieo-campus.it
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM468nnn/GSM468807/suppl/GSM468807.CEL.gz
| | Sample_series_id | GSE18931
| | Sample_data_row_count | 54675
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