Search results for the GEO ID: GSE32526  |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM805502 | GPL570 |
|
S2 spheres, biol. Replicate 1
|
breast cancer tumor initiating cells
|
cell line: S2
sample type: spheres
|
Gene expression data from non-tumorigenic (S2), normal-like to basal-like breast cancer cell lines derived from primary tumors (sphere culture).
|
| Sample_geo_accession | GSM805502
| | Sample_status | Public on Dec 21 2012
| | Sample_submission_date | Sep 30 2011
| | Sample_last_update_date | Dec 21 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cells from spheres or monolayers were used without further pretreatment
| | Sample_growth_protocol_ch1 | Freshly purified breast tumor cells were depleted of erythrocytes and leukocytes by ammonium chloride lysis and Microbeads, respectively (Miltenyi Biotec, Bergisch-Gladbach, Germany). Mammospheres were grown as described previously in mammary epithelial basal medium (Lonza, Cologne, Germany) in T75 low adhesion cell culture flasks (Corning Life Sciences, Wiesbaden, Germany) and passaged every 3 to 4 days after sphere formation (32). Monolayer cultures were derived from mammosphere cells and cultivated in collagen coated T75 cell culture flasks (BD Bioscience) in mammary epithelial basal medium supplemented with 10 % FBS (Invitrogen). Monolayer cells were allowed to differentiate for at least 10 days prior analysis.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using an RNeasy Mini Kit (Qiagen, Hilden, Germany) followed by cDNA synthesis using a cDNA synthesis kit (Roche).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA was prepared according to the standard Affymetrix protocol from 10 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on Human Genome U133 Plus 2.0 arrays. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip® Scanner 3000 7G
| | 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.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Helmut,,Burtscher
| | Sample_contact_email | helmut.burtscher@roche.com
| | Sample_contact_institute | Roche Pharma
| | Sample_contact_address | Nonnenwald 2
| | Sample_contact_city | Penzberg
| | Sample_contact_zip/postal_code | 82377
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM805nnn/GSM805502/suppl/GSM805502.CEL.gz
| | Sample_series_id | GSE32526
| | Sample_data_row_count | 54675
| | |
|
GSM805503 | GPL570 |
|
S2 spheres, biol. Replicate 2
|
breast cancer tumor initiating cells
|
cell line: S2
sample type: spheres
|
Gene expression data from non-tumorigenic (S2), normal-like to basal-like breast cancer cell lines derived from primary tumors (sphere culture).
|
| Sample_geo_accession | GSM805503
| | Sample_status | Public on Dec 21 2012
| | Sample_submission_date | Sep 30 2011
| | Sample_last_update_date | Dec 21 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cells from spheres or monolayers were used without further pretreatment
| | Sample_growth_protocol_ch1 | Freshly purified breast tumor cells were depleted of erythrocytes and leukocytes by ammonium chloride lysis and Microbeads, respectively (Miltenyi Biotec, Bergisch-Gladbach, Germany). Mammospheres were grown as described previously in mammary epithelial basal medium (Lonza, Cologne, Germany) in T75 low adhesion cell culture flasks (Corning Life Sciences, Wiesbaden, Germany) and passaged every 3 to 4 days after sphere formation (32). Monolayer cultures were derived from mammosphere cells and cultivated in collagen coated T75 cell culture flasks (BD Bioscience) in mammary epithelial basal medium supplemented with 10 % FBS (Invitrogen). Monolayer cells were allowed to differentiate for at least 10 days prior analysis.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using an RNeasy Mini Kit (Qiagen, Hilden, Germany) followed by cDNA synthesis using a cDNA synthesis kit (Roche).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA was prepared according to the standard Affymetrix protocol from 10 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on Human Genome U133 Plus 2.0 arrays. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip® Scanner 3000 7G
| | 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.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Helmut,,Burtscher
| | Sample_contact_email | helmut.burtscher@roche.com
| | Sample_contact_institute | Roche Pharma
| | Sample_contact_address | Nonnenwald 2
| | Sample_contact_city | Penzberg
| | Sample_contact_zip/postal_code | 82377
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM805nnn/GSM805503/suppl/GSM805503.CEL.gz
| | Sample_series_id | GSE32526
| | Sample_data_row_count | 54675
| | |
|
GSM805504 | GPL570 |
|
S2 spheres, biol. Replicate 3
|
breast cancer tumor initiating cells
|
cell line: S2
sample type: spheres
|
Gene expression data from non-tumorigenic (S2), normal-like to basal-like breast cancer cell lines derived from primary tumors (sphere culture).
|
| Sample_geo_accession | GSM805504
| | Sample_status | Public on Dec 21 2012
| | Sample_submission_date | Sep 30 2011
| | Sample_last_update_date | Dec 21 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cells from spheres or monolayers were used without further pretreatment
| | Sample_growth_protocol_ch1 | Freshly purified breast tumor cells were depleted of erythrocytes and leukocytes by ammonium chloride lysis and Microbeads, respectively (Miltenyi Biotec, Bergisch-Gladbach, Germany). Mammospheres were grown as described previously in mammary epithelial basal medium (Lonza, Cologne, Germany) in T75 low adhesion cell culture flasks (Corning Life Sciences, Wiesbaden, Germany) and passaged every 3 to 4 days after sphere formation (32). Monolayer cultures were derived from mammosphere cells and cultivated in collagen coated T75 cell culture flasks (BD Bioscience) in mammary epithelial basal medium supplemented with 10 % FBS (Invitrogen). Monolayer cells were allowed to differentiate for at least 10 days prior analysis.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using an RNeasy Mini Kit (Qiagen, Hilden, Germany) followed by cDNA synthesis using a cDNA synthesis kit (Roche).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA was prepared according to the standard Affymetrix protocol from 10 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on Human Genome U133 Plus 2.0 arrays. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip® Scanner 3000 7G
| | 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.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Helmut,,Burtscher
| | Sample_contact_email | helmut.burtscher@roche.com
| | Sample_contact_institute | Roche Pharma
| | Sample_contact_address | Nonnenwald 2
| | Sample_contact_city | Penzberg
| | Sample_contact_zip/postal_code | 82377
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM805nnn/GSM805504/suppl/GSM805504.CEL.gz
| | Sample_series_id | GSE32526
| | Sample_data_row_count | 54675
| | |
|
GSM805505 | GPL570 |
|
S2 monolayer, biol. Replicate 1
|
breast cancer tumor initiating cells
|
cell line: S2
sample type: monolayer
|
Gene expression data from non-tumorigenic (S2), normal-like to basal-like breast cancer cell lines derived from primary tumors (monolayer).
|
| Sample_geo_accession | GSM805505
| | Sample_status | Public on Dec 21 2012
| | Sample_submission_date | Sep 30 2011
| | Sample_last_update_date | Dec 21 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cells from spheres or monolayers were used without further pretreatment
| | Sample_growth_protocol_ch1 | Freshly purified breast tumor cells were depleted of erythrocytes and leukocytes by ammonium chloride lysis and Microbeads, respectively (Miltenyi Biotec, Bergisch-Gladbach, Germany). Mammospheres were grown as described previously in mammary epithelial basal medium (Lonza, Cologne, Germany) in T75 low adhesion cell culture flasks (Corning Life Sciences, Wiesbaden, Germany) and passaged every 3 to 4 days after sphere formation (32). Monolayer cultures were derived from mammosphere cells and cultivated in collagen coated T75 cell culture flasks (BD Bioscience) in mammary epithelial basal medium supplemented with 10 % FBS (Invitrogen). Monolayer cells were allowed to differentiate for at least 10 days prior analysis.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using an RNeasy Mini Kit (Qiagen, Hilden, Germany) followed by cDNA synthesis using a cDNA synthesis kit (Roche).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA was prepared according to the standard Affymetrix protocol from 10 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on Human Genome U133 Plus 2.0 arrays. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip® Scanner 3000 7G
| | 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.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Helmut,,Burtscher
| | Sample_contact_email | helmut.burtscher@roche.com
| | Sample_contact_institute | Roche Pharma
| | Sample_contact_address | Nonnenwald 2
| | Sample_contact_city | Penzberg
| | Sample_contact_zip/postal_code | 82377
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM805nnn/GSM805505/suppl/GSM805505.CEL.gz
| | Sample_series_id | GSE32526
| | Sample_data_row_count | 54675
| | |
|
GSM805506 | GPL570 |
|
S2 monolayer, biol. Replicate 2
|
breast cancer tumor initiating cells
|
cell line: S2
sample type: monolayer
|
Gene expression data from non-tumorigenic (S2), normal-like to basal-like breast cancer cell lines derived from primary tumors (monolayer).
|
| Sample_geo_accession | GSM805506
| | Sample_status | Public on Dec 21 2012
| | Sample_submission_date | Sep 30 2011
| | Sample_last_update_date | Dec 21 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cells from spheres or monolayers were used without further pretreatment
| | Sample_growth_protocol_ch1 | Freshly purified breast tumor cells were depleted of erythrocytes and leukocytes by ammonium chloride lysis and Microbeads, respectively (Miltenyi Biotec, Bergisch-Gladbach, Germany). Mammospheres were grown as described previously in mammary epithelial basal medium (Lonza, Cologne, Germany) in T75 low adhesion cell culture flasks (Corning Life Sciences, Wiesbaden, Germany) and passaged every 3 to 4 days after sphere formation (32). Monolayer cultures were derived from mammosphere cells and cultivated in collagen coated T75 cell culture flasks (BD Bioscience) in mammary epithelial basal medium supplemented with 10 % FBS (Invitrogen). Monolayer cells were allowed to differentiate for at least 10 days prior analysis.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using an RNeasy Mini Kit (Qiagen, Hilden, Germany) followed by cDNA synthesis using a cDNA synthesis kit (Roche).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA was prepared according to the standard Affymetrix protocol from 10 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on Human Genome U133 Plus 2.0 arrays. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip® Scanner 3000 7G
| | 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.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Helmut,,Burtscher
| | Sample_contact_email | helmut.burtscher@roche.com
| | Sample_contact_institute | Roche Pharma
| | Sample_contact_address | Nonnenwald 2
| | Sample_contact_city | Penzberg
| | Sample_contact_zip/postal_code | 82377
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM805nnn/GSM805506/suppl/GSM805506.CEL.gz
| | Sample_series_id | GSE32526
| | Sample_data_row_count | 54675
| | |
|
GSM805507 | GPL570 |
|
S2 monolayer, biol. Replicate 3
|
breast cancer tumor initiating cells
|
cell line: S2
sample type: monolayer
|
Gene expression data from non-tumorigenic (S2), normal-like to basal-like breast cancer cell lines derived from primary tumors (monolayer).
|
| Sample_geo_accession | GSM805507
| | Sample_status | Public on Dec 21 2012
| | Sample_submission_date | Sep 30 2011
| | Sample_last_update_date | Dec 21 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cells from spheres or monolayers were used without further pretreatment
| | Sample_growth_protocol_ch1 | Freshly purified breast tumor cells were depleted of erythrocytes and leukocytes by ammonium chloride lysis and Microbeads, respectively (Miltenyi Biotec, Bergisch-Gladbach, Germany). Mammospheres were grown as described previously in mammary epithelial basal medium (Lonza, Cologne, Germany) in T75 low adhesion cell culture flasks (Corning Life Sciences, Wiesbaden, Germany) and passaged every 3 to 4 days after sphere formation (32). Monolayer cultures were derived from mammosphere cells and cultivated in collagen coated T75 cell culture flasks (BD Bioscience) in mammary epithelial basal medium supplemented with 10 % FBS (Invitrogen). Monolayer cells were allowed to differentiate for at least 10 days prior analysis.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using an RNeasy Mini Kit (Qiagen, Hilden, Germany) followed by cDNA synthesis using a cDNA synthesis kit (Roche).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA was prepared according to the standard Affymetrix protocol from 10 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on Human Genome U133 Plus 2.0 arrays. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip® Scanner 3000 7G
| | 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.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Helmut,,Burtscher
| | Sample_contact_email | helmut.burtscher@roche.com
| | Sample_contact_institute | Roche Pharma
| | Sample_contact_address | Nonnenwald 2
| | Sample_contact_city | Penzberg
| | Sample_contact_zip/postal_code | 82377
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM805nnn/GSM805507/suppl/GSM805507.CEL.gz
| | Sample_series_id | GSE32526
| | Sample_data_row_count | 54675
| | |
|
GSM805508 | GPL570 |
|
S2N spheres, biol. Replicate 1
|
breast cancer tumor initiating cells
|
cell line: S2N
sample type: spheres
|
Gene expression data from tumorigenic (S2N), normal-like to basal-like breast cancer cell lines derived from primary tumors (sphere culture).
|
| Sample_geo_accession | GSM805508
| | Sample_status | Public on Dec 21 2012
| | Sample_submission_date | Sep 30 2011
| | Sample_last_update_date | Dec 21 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cells from spheres or monolayers were used without further pretreatment
| | Sample_growth_protocol_ch1 | Freshly purified breast tumor cells were depleted of erythrocytes and leukocytes by ammonium chloride lysis and Microbeads, respectively (Miltenyi Biotec, Bergisch-Gladbach, Germany). Mammospheres were grown as described previously in mammary epithelial basal medium (Lonza, Cologne, Germany) in T75 low adhesion cell culture flasks (Corning Life Sciences, Wiesbaden, Germany) and passaged every 3 to 4 days after sphere formation (32). Monolayer cultures were derived from mammosphere cells and cultivated in collagen coated T75 cell culture flasks (BD Bioscience) in mammary epithelial basal medium supplemented with 10 % FBS (Invitrogen). Monolayer cells were allowed to differentiate for at least 10 days prior analysis.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using an RNeasy Mini Kit (Qiagen, Hilden, Germany) followed by cDNA synthesis using a cDNA synthesis kit (Roche).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA was prepared according to the standard Affymetrix protocol from 10 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on Human Genome U133 Plus 2.0 arrays. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip® Scanner 3000 7G
| | 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.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Helmut,,Burtscher
| | Sample_contact_email | helmut.burtscher@roche.com
| | Sample_contact_institute | Roche Pharma
| | Sample_contact_address | Nonnenwald 2
| | Sample_contact_city | Penzberg
| | Sample_contact_zip/postal_code | 82377
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM805nnn/GSM805508/suppl/GSM805508.CEL.gz
| | Sample_series_id | GSE32526
| | Sample_data_row_count | 54675
| | |
|
GSM805509 | GPL570 |
|
S2N spheres, biol. Replicate 2
|
breast cancer tumor initiating cells
|
cell line: S2N
sample type: spheres
|
Gene expression data from tumorigenic (S2N), normal-like to basal-like breast cancer cell lines derived from primary tumors (sphere culture).
|
| Sample_geo_accession | GSM805509
| | Sample_status | Public on Dec 21 2012
| | Sample_submission_date | Sep 30 2011
| | Sample_last_update_date | Dec 21 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cells from spheres or monolayers were used without further pretreatment
| | Sample_growth_protocol_ch1 | Freshly purified breast tumor cells were depleted of erythrocytes and leukocytes by ammonium chloride lysis and Microbeads, respectively (Miltenyi Biotec, Bergisch-Gladbach, Germany). Mammospheres were grown as described previously in mammary epithelial basal medium (Lonza, Cologne, Germany) in T75 low adhesion cell culture flasks (Corning Life Sciences, Wiesbaden, Germany) and passaged every 3 to 4 days after sphere formation (32). Monolayer cultures were derived from mammosphere cells and cultivated in collagen coated T75 cell culture flasks (BD Bioscience) in mammary epithelial basal medium supplemented with 10 % FBS (Invitrogen). Monolayer cells were allowed to differentiate for at least 10 days prior analysis.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using an RNeasy Mini Kit (Qiagen, Hilden, Germany) followed by cDNA synthesis using a cDNA synthesis kit (Roche).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA was prepared according to the standard Affymetrix protocol from 10 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on Human Genome U133 Plus 2.0 arrays. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip® Scanner 3000 7G
| | 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.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Helmut,,Burtscher
| | Sample_contact_email | helmut.burtscher@roche.com
| | Sample_contact_institute | Roche Pharma
| | Sample_contact_address | Nonnenwald 2
| | Sample_contact_city | Penzberg
| | Sample_contact_zip/postal_code | 82377
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM805nnn/GSM805509/suppl/GSM805509.CEL.gz
| | Sample_series_id | GSE32526
| | Sample_data_row_count | 54675
| | |
|
GSM805510 | GPL570 |
|
S2N spheres, biol. Replicate 3
|
breast cancer tumor initiating cells
|
cell line: S2N
sample type: spheres
|
Gene expression data from tumorigenic (S2N), normal-like to basal-like breast cancer cell lines derived from primary tumors (sphere culture).
|
| Sample_geo_accession | GSM805510
| | Sample_status | Public on Dec 21 2012
| | Sample_submission_date | Sep 30 2011
| | Sample_last_update_date | Dec 21 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cells from spheres or monolayers were used without further pretreatment
| | Sample_growth_protocol_ch1 | Freshly purified breast tumor cells were depleted of erythrocytes and leukocytes by ammonium chloride lysis and Microbeads, respectively (Miltenyi Biotec, Bergisch-Gladbach, Germany). Mammospheres were grown as described previously in mammary epithelial basal medium (Lonza, Cologne, Germany) in T75 low adhesion cell culture flasks (Corning Life Sciences, Wiesbaden, Germany) and passaged every 3 to 4 days after sphere formation (32). Monolayer cultures were derived from mammosphere cells and cultivated in collagen coated T75 cell culture flasks (BD Bioscience) in mammary epithelial basal medium supplemented with 10 % FBS (Invitrogen). Monolayer cells were allowed to differentiate for at least 10 days prior analysis.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using an RNeasy Mini Kit (Qiagen, Hilden, Germany) followed by cDNA synthesis using a cDNA synthesis kit (Roche).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA was prepared according to the standard Affymetrix protocol from 10 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on Human Genome U133 Plus 2.0 arrays. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip® Scanner 3000 7G
| | 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.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Helmut,,Burtscher
| | Sample_contact_email | helmut.burtscher@roche.com
| | Sample_contact_institute | Roche Pharma
| | Sample_contact_address | Nonnenwald 2
| | Sample_contact_city | Penzberg
| | Sample_contact_zip/postal_code | 82377
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM805nnn/GSM805510/suppl/GSM805510.CEL.gz
| | Sample_series_id | GSE32526
| | Sample_data_row_count | 54675
| | |
|
GSM805511 | GPL570 |
|
S2N monolayer, biol. Replicate 1
|
breast cancer tumor initiating cells
|
cell line: S2N
sample type: monolayer
|
Gene expression data from tumorigenic (S2N), normal-like to basal-like breast cancer cell lines derived from primary tumors (monolayer).
|
| Sample_geo_accession | GSM805511
| | Sample_status | Public on Dec 21 2012
| | Sample_submission_date | Sep 30 2011
| | Sample_last_update_date | Dec 21 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cells from spheres or monolayers were used without further pretreatment
| | Sample_growth_protocol_ch1 | Freshly purified breast tumor cells were depleted of erythrocytes and leukocytes by ammonium chloride lysis and Microbeads, respectively (Miltenyi Biotec, Bergisch-Gladbach, Germany). Mammospheres were grown as described previously in mammary epithelial basal medium (Lonza, Cologne, Germany) in T75 low adhesion cell culture flasks (Corning Life Sciences, Wiesbaden, Germany) and passaged every 3 to 4 days after sphere formation (32). Monolayer cultures were derived from mammosphere cells and cultivated in collagen coated T75 cell culture flasks (BD Bioscience) in mammary epithelial basal medium supplemented with 10 % FBS (Invitrogen). Monolayer cells were allowed to differentiate for at least 10 days prior analysis.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using an RNeasy Mini Kit (Qiagen, Hilden, Germany) followed by cDNA synthesis using a cDNA synthesis kit (Roche).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA was prepared according to the standard Affymetrix protocol from 10 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on Human Genome U133 Plus 2.0 arrays. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip® Scanner 3000 7G
| | 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.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Helmut,,Burtscher
| | Sample_contact_email | helmut.burtscher@roche.com
| | Sample_contact_institute | Roche Pharma
| | Sample_contact_address | Nonnenwald 2
| | Sample_contact_city | Penzberg
| | Sample_contact_zip/postal_code | 82377
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM805nnn/GSM805511/suppl/GSM805511.CEL.gz
| | Sample_series_id | GSE32526
| | Sample_data_row_count | 54675
| | |
|
GSM805512 | GPL570 |
|
S2N monolayer, biol. Replicate 2
|
breast cancer tumor initiating cells
|
cell line: S2N
sample type: monolayer
|
Gene expression data from tumorigenic (S2N), normal-like to basal-like breast cancer cell lines derived from primary tumors (monolayer).
|
| Sample_geo_accession | GSM805512
| | Sample_status | Public on Dec 21 2012
| | Sample_submission_date | Sep 30 2011
| | Sample_last_update_date | Dec 21 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cells from spheres or monolayers were used without further pretreatment
| | Sample_growth_protocol_ch1 | Freshly purified breast tumor cells were depleted of erythrocytes and leukocytes by ammonium chloride lysis and Microbeads, respectively (Miltenyi Biotec, Bergisch-Gladbach, Germany). Mammospheres were grown as described previously in mammary epithelial basal medium (Lonza, Cologne, Germany) in T75 low adhesion cell culture flasks (Corning Life Sciences, Wiesbaden, Germany) and passaged every 3 to 4 days after sphere formation (32). Monolayer cultures were derived from mammosphere cells and cultivated in collagen coated T75 cell culture flasks (BD Bioscience) in mammary epithelial basal medium supplemented with 10 % FBS (Invitrogen). Monolayer cells were allowed to differentiate for at least 10 days prior analysis.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using an RNeasy Mini Kit (Qiagen, Hilden, Germany) followed by cDNA synthesis using a cDNA synthesis kit (Roche).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA was prepared according to the standard Affymetrix protocol from 10 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on Human Genome U133 Plus 2.0 arrays. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip® Scanner 3000 7G
| | 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.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Helmut,,Burtscher
| | Sample_contact_email | helmut.burtscher@roche.com
| | Sample_contact_institute | Roche Pharma
| | Sample_contact_address | Nonnenwald 2
| | Sample_contact_city | Penzberg
| | Sample_contact_zip/postal_code | 82377
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM805nnn/GSM805512/suppl/GSM805512.CEL.gz
| | Sample_series_id | GSE32526
| | Sample_data_row_count | 54675
| | |
|
GSM805513 | GPL570 |
|
S2N monolayer, biol. Replicate 3
|
breast cancer tumor initiating cells
|
cell line: S2N
sample type: monolayer
|
Gene expression data from tumorigenic (S2N), normal-like to basal-like breast cancer cell lines derived from primary tumors (monolayer).
|
| Sample_geo_accession | GSM805513
| | Sample_status | Public on Dec 21 2012
| | Sample_submission_date | Sep 30 2011
| | Sample_last_update_date | Dec 21 2012
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cells from spheres or monolayers were used without further pretreatment
| | Sample_growth_protocol_ch1 | Freshly purified breast tumor cells were depleted of erythrocytes and leukocytes by ammonium chloride lysis and Microbeads, respectively (Miltenyi Biotec, Bergisch-Gladbach, Germany). Mammospheres were grown as described previously in mammary epithelial basal medium (Lonza, Cologne, Germany) in T75 low adhesion cell culture flasks (Corning Life Sciences, Wiesbaden, Germany) and passaged every 3 to 4 days after sphere formation (32). Monolayer cultures were derived from mammosphere cells and cultivated in collagen coated T75 cell culture flasks (BD Bioscience) in mammary epithelial basal medium supplemented with 10 % FBS (Invitrogen). Monolayer cells were allowed to differentiate for at least 10 days prior analysis.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using an RNeasy Mini Kit (Qiagen, Hilden, Germany) followed by cDNA synthesis using a cDNA synthesis kit (Roche).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA was prepared according to the standard Affymetrix protocol from 10 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on Human Genome U133 Plus 2.0 arrays. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip® Scanner 3000 7G
| | 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.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Helmut,,Burtscher
| | Sample_contact_email | helmut.burtscher@roche.com
| | Sample_contact_institute | Roche Pharma
| | Sample_contact_address | Nonnenwald 2
| | Sample_contact_city | Penzberg
| | Sample_contact_zip/postal_code | 82377
| | Sample_contact_country | Germany
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM805nnn/GSM805513/suppl/GSM805513.CEL.gz
| | Sample_series_id | GSE32526
| | Sample_data_row_count | 54675
| | |
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