Search results for the GEO ID: GSE16058  |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM402192 | GPL3921 |
|
HMEC 184D2p Prestasis
|
HMEC
|
cell type: mammary epithelial cell
individual: 184
passage: 2p
growth status: Growing-Prestasis
|
Human Cell Lines
|
| Sample_geo_accession | GSM402192
| | Sample_status | Public on May 12 2010
| | Sample_submission_date | May 12 2009
| | Sample_last_update_date | May 12 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell cultures grown in the indicated media were harvested and different points in their growth from early passage good growing to near stasis, agonescence, or senescence.
| | Sample_growth_protocol_ch1 | Finite life span HMEC and HMFC from Specimens 184, 48 and 240L were obtained from reduction mammoplasty tissue of women aged 21, 16, and 19 respectively. HMEC were grown starting from organoids in either serum free MCDB170 medium, or the serum-containing M85+CT±X medium described in this publication. HMFC were grown in DME/F12+FCS+I
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cell were lysed with trizol reagent (Invitrogen) according manufacturer's protocol. RNA was resuspended in 100 µl nuclease free water and subject to a second step purification on ion exchange column (Qiagen)
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | For each sample, the RNA target is prepared by annealing 2.0µg of total RNA in 5µl water with 5µl of 10µM T7 (Oligo dt) primer. First and second strand cDNA synthesis is performed and the cDNA products purified using magnetic beads. Labeled cRNA is synthesized from the cDNA using T7 RNA polymerase followed by clean-up with magnetic beads. Purified cRNA is quantitated and fragmented.
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HT_HG-U133A Array. GeneChips were 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 | Raw probe level intensities were processed for background correction, normalization and summarization using Probel level linear (PLM) model in LIMMA module(v.2.16.3) of Bioconductor package.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Sanchita,,Bhattacharya
| | Sample_contact_email | SBhattacharya@lbl.gov
| | Sample_contact_phone | 510-486-6881
| | Sample_contact_institute | MIT
| | Sample_contact_address | 1 Cyclotron Rd
| | Sample_contact_city | Berkely
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94720
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM402nnn/GSM402192/suppl/GSM402192.CEL.gz
| | Sample_series_id | GSE16058
| | Sample_data_row_count | 22277
| | |
|
GSM402193 | GPL3921 |
|
HMEC 184D4p Prestasis
|
HMEC
|
cell type: mammary epithelial cell
individual: 184
passage: 4p
growth status: Growing-Prestasis
|
Human Cell Lines
|
| Sample_geo_accession | GSM402193
| | Sample_status | Public on May 12 2010
| | Sample_submission_date | May 12 2009
| | Sample_last_update_date | May 12 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell cultures grown in the indicated media were harvested and different points in their growth from early passage good growing to near stasis, agonescence, or senescence.
| | Sample_growth_protocol_ch1 | Finite life span HMEC and HMFC from Specimens 184, 48 and 240L were obtained from reduction mammoplasty tissue of women aged 21, 16, and 19 respectively. HMEC were grown starting from organoids in either serum free MCDB170 medium, or the serum-containing M85+CT±X medium described in this publication. HMFC were grown in DME/F12+FCS+I
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cell were lysed with trizol reagent (Invitrogen) according manufacturer's protocol. RNA was resuspended in 100 µl nuclease free water and subject to a second step purification on ion exchange column (Qiagen)
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | For each sample, the RNA target is prepared by annealing 2.0µg of total RNA in 5µl water with 5µl of 10µM T7 (Oligo dt) primer. First and second strand cDNA synthesis is performed and the cDNA products purified using magnetic beads. Labeled cRNA is synthesized from the cDNA using T7 RNA polymerase followed by clean-up with magnetic beads. Purified cRNA is quantitated and fragmented.
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HT_HG-U133A Array. GeneChips were 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 | Raw probe level intensities were processed for background correction, normalization and summarization using Probel level linear (PLM) model in LIMMA module(v.2.16.3) of Bioconductor package.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Sanchita,,Bhattacharya
| | Sample_contact_email | SBhattacharya@lbl.gov
| | Sample_contact_phone | 510-486-6881
| | Sample_contact_institute | MIT
| | Sample_contact_address | 1 Cyclotron Rd
| | Sample_contact_city | Berkely
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94720
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM402nnn/GSM402193/suppl/GSM402193.CEL.gz
| | Sample_series_id | GSE16058
| | Sample_data_row_count | 22277
| | |
|
GSM402194 | GPL3921 |
|
HMEC 184D6p.1 Intermediate
|
HMEC
|
cell type: mammary epithelial cell
individual: 184
passage: 6p
growth status: Intermediate-Prestasis
|
Human Cell Lines
|
| Sample_geo_accession | GSM402194
| | Sample_status | Public on May 12 2010
| | Sample_submission_date | May 12 2009
| | Sample_last_update_date | May 12 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell cultures grown in the indicated media were harvested and different points in their growth from early passage good growing to near stasis, agonescence, or senescence.
| | Sample_growth_protocol_ch1 | Finite life span HMEC and HMFC from Specimens 184, 48 and 240L were obtained from reduction mammoplasty tissue of women aged 21, 16, and 19 respectively. HMEC were grown starting from organoids in either serum free MCDB170 medium, or the serum-containing M85+CT±X medium described in this publication. HMFC were grown in DME/F12+FCS+I
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cell were lysed with trizol reagent (Invitrogen) according manufacturer's protocol. RNA was resuspended in 100 µl nuclease free water and subject to a second step purification on ion exchange column (Qiagen)
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | For each sample, the RNA target is prepared by annealing 2.0µg of total RNA in 5µl water with 5µl of 10µM T7 (Oligo dt) primer. First and second strand cDNA synthesis is performed and the cDNA products purified using magnetic beads. Labeled cRNA is synthesized from the cDNA using T7 RNA polymerase followed by clean-up with magnetic beads. Purified cRNA is quantitated and fragmented.
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HT_HG-U133A Array. GeneChips were 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 | Raw probe level intensities were processed for background correction, normalization and summarization using Probel level linear (PLM) model in LIMMA module(v.2.16.3) of Bioconductor package.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Sanchita,,Bhattacharya
| | Sample_contact_email | SBhattacharya@lbl.gov
| | Sample_contact_phone | 510-486-6881
| | Sample_contact_institute | MIT
| | Sample_contact_address | 1 Cyclotron Rd
| | Sample_contact_city | Berkely
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94720
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM402nnn/GSM402194/suppl/GSM402194.CEL.gz
| | Sample_series_id | GSE16058
| | Sample_data_row_count | 22277
| | |
|
GSM402195 | GPL3921 |
|
HMEC 184D6X Intermediate
|
HMEC
|
cell type: mammary epithelial cell
individual: 184
passage: 6p
growth status: Intermediate-Prestasis
|
Human Cell Lines
|
| Sample_geo_accession | GSM402195
| | Sample_status | Public on May 12 2010
| | Sample_submission_date | May 12 2009
| | Sample_last_update_date | May 12 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell cultures grown in the indicated media were harvested and different points in their growth from early passage good growing to near stasis, agonescence, or senescence.
| | Sample_growth_protocol_ch1 | Finite life span HMEC and HMFC from Specimens 184, 48 and 240L were obtained from reduction mammoplasty tissue of women aged 21, 16, and 19 respectively. HMEC were grown starting from organoids in either serum free MCDB170 medium, or the serum-containing M85+CT±X medium described in this publication. HMFC were grown in DME/F12+FCS+I
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cell were lysed with trizol reagent (Invitrogen) according manufacturer's protocol. RNA was resuspended in 100 µl nuclease free water and subject to a second step purification on ion exchange column (Qiagen)
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | For each sample, the RNA target is prepared by annealing 2.0µg of total RNA in 5µl water with 5µl of 10µM T7 (Oligo dt) primer. First and second strand cDNA synthesis is performed and the cDNA products purified using magnetic beads. Labeled cRNA is synthesized from the cDNA using T7 RNA polymerase followed by clean-up with magnetic beads. Purified cRNA is quantitated and fragmented.
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HT_HG-U133A Array. GeneChips were 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 | Raw probe level intensities were processed for background correction, normalization and summarization using Probel level linear (PLM) model in LIMMA module(v.2.16.3) of Bioconductor package.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Sanchita,,Bhattacharya
| | Sample_contact_email | SBhattacharya@lbl.gov
| | Sample_contact_phone | 510-486-6881
| | Sample_contact_institute | MIT
| | Sample_contact_address | 1 Cyclotron Rd
| | Sample_contact_city | Berkely
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94720
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM402nnn/GSM402195/suppl/GSM402195.CEL.gz
| | Sample_series_id | GSE16058
| | Sample_data_row_count | 22277
| | |
|
GSM402196 | GPL3921 |
|
HMEC 184D9pM85.1 Stasis
|
HMEC
|
cell type: mammary epithelial cell
individual: 184
passage: 9p
growth status: Stasis
|
Human Cell Lines
|
| Sample_geo_accession | GSM402196
| | Sample_status | Public on May 12 2010
| | Sample_submission_date | May 12 2009
| | Sample_last_update_date | May 12 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell cultures grown in the indicated media were harvested and different points in their growth from early passage good growing to near stasis, agonescence, or senescence.
| | Sample_growth_protocol_ch1 | Finite life span HMEC and HMFC from Specimens 184, 48 and 240L were obtained from reduction mammoplasty tissue of women aged 21, 16, and 19 respectively. HMEC were grown starting from organoids in either serum free MCDB170 medium, or the serum-containing M85+CT±X medium described in this publication. HMFC were grown in DME/F12+FCS+I
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cell were lysed with trizol reagent (Invitrogen) according manufacturer's protocol. RNA was resuspended in 100 µl nuclease free water and subject to a second step purification on ion exchange column (Qiagen)
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | For each sample, the RNA target is prepared by annealing 2.0µg of total RNA in 5µl water with 5µl of 10µM T7 (Oligo dt) primer. First and second strand cDNA synthesis is performed and the cDNA products purified using magnetic beads. Labeled cRNA is synthesized from the cDNA using T7 RNA polymerase followed by clean-up with magnetic beads. Purified cRNA is quantitated and fragmented.
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HT_HG-U133A Array. GeneChips were 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 | Raw probe level intensities were processed for background correction, normalization and summarization using Probel level linear (PLM) model in LIMMA module(v.2.16.3) of Bioconductor package.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Sanchita,,Bhattacharya
| | Sample_contact_email | SBhattacharya@lbl.gov
| | Sample_contact_phone | 510-486-6881
| | Sample_contact_institute | MIT
| | Sample_contact_address | 1 Cyclotron Rd
| | Sample_contact_city | Berkely
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94720
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM402nnn/GSM402196/suppl/GSM402196.CEL.gz
| | Sample_series_id | GSE16058
| | Sample_data_row_count | 22277
| | |
|
GSM402197 | GPL3921 |
|
HMEC 184D9pM85.2 Stasis
|
HMEC
|
cell type: mammary epithelial cell
individual: 184
passage: 9p
growth status: Stasis
|
Human Cell Lines
|
| Sample_geo_accession | GSM402197
| | Sample_status | Public on May 12 2010
| | Sample_submission_date | May 12 2009
| | Sample_last_update_date | May 12 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell cultures grown in the indicated media were harvested and different points in their growth from early passage good growing to near stasis, agonescence, or senescence.
| | Sample_growth_protocol_ch1 | Finite life span HMEC and HMFC from Specimens 184, 48 and 240L were obtained from reduction mammoplasty tissue of women aged 21, 16, and 19 respectively. HMEC were grown starting from organoids in either serum free MCDB170 medium, or the serum-containing M85+CT±X medium described in this publication. HMFC were grown in DME/F12+FCS+I
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cell were lysed with trizol reagent (Invitrogen) according manufacturer's protocol. RNA was resuspended in 100 µl nuclease free water and subject to a second step purification on ion exchange column (Qiagen)
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | For each sample, the RNA target is prepared by annealing 2.0µg of total RNA in 5µl water with 5µl of 10µM T7 (Oligo dt) primer. First and second strand cDNA synthesis is performed and the cDNA products purified using magnetic beads. Labeled cRNA is synthesized from the cDNA using T7 RNA polymerase followed by clean-up with magnetic beads. Purified cRNA is quantitated and fragmented.
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HT_HG-U133A Array. GeneChips were 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 | Raw probe level intensities were processed for background correction, normalization and summarization using Probel level linear (PLM) model in LIMMA module(v.2.16.3) of Bioconductor package.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Sanchita,,Bhattacharya
| | Sample_contact_email | SBhattacharya@lbl.gov
| | Sample_contact_phone | 510-486-6881
| | Sample_contact_institute | MIT
| | Sample_contact_address | 1 Cyclotron Rd
| | Sample_contact_city | Berkely
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94720
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM402nnn/GSM402197/suppl/GSM402197.CEL.gz
| | Sample_series_id | GSE16058
| | Sample_data_row_count | 22277
| | |
|
GSM402198 | GPL3921 |
|
HMEC 184D2pM85X Prestasis
|
HMEC
|
cell type: mammary epithelial cell
individual: 184
passage: 2p
growth status: Prestasis
|
Human Cell Lines
|
| Sample_geo_accession | GSM402198
| | Sample_status | Public on May 12 2010
| | Sample_submission_date | May 12 2009
| | Sample_last_update_date | May 12 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell cultures grown in the indicated media were harvested and different points in their growth from early passage good growing to near stasis, agonescence, or senescence.
| | Sample_growth_protocol_ch1 | Finite life span HMEC and HMFC from Specimens 184, 48 and 240L were obtained from reduction mammoplasty tissue of women aged 21, 16, and 19 respectively. HMEC were grown starting from organoids in either serum free MCDB170 medium, or the serum-containing M85+CT±X medium described in this publication. HMFC were grown in DME/F12+FCS+I
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cell were lysed with trizol reagent (Invitrogen) according manufacturer's protocol. RNA was resuspended in 100 µl nuclease free water and subject to a second step purification on ion exchange column (Qiagen)
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | For each sample, the RNA target is prepared by annealing 2.0µg of total RNA in 5µl water with 5µl of 10µM T7 (Oligo dt) primer. First and second strand cDNA synthesis is performed and the cDNA products purified using magnetic beads. Labeled cRNA is synthesized from the cDNA using T7 RNA polymerase followed by clean-up with magnetic beads. Purified cRNA is quantitated and fragmented.
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HT_HG-U133A Array. GeneChips were 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 | Raw probe level intensities were processed for background correction, normalization and summarization using Probel level linear (PLM) model in LIMMA module(v.2.16.3) of Bioconductor package.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Sanchita,,Bhattacharya
| | Sample_contact_email | SBhattacharya@lbl.gov
| | Sample_contact_phone | 510-486-6881
| | Sample_contact_institute | MIT
| | Sample_contact_address | 1 Cyclotron Rd
| | Sample_contact_city | Berkely
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94720
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM402nnn/GSM402198/suppl/GSM402198.CEL.gz
| | Sample_series_id | GSE16058
| | Sample_data_row_count | 22277
| | |
|
GSM402199 | GPL3921 |
|
HMEC 184D4pM85X Prestasis
|
HMEC
|
cell type: mammary epithelial cell
individual: 184
passage: 4p
growth status: Prestasis
|
Human Cell Lines
|
| Sample_geo_accession | GSM402199
| | Sample_status | Public on May 12 2010
| | Sample_submission_date | May 12 2009
| | Sample_last_update_date | May 12 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell cultures grown in the indicated media were harvested and different points in their growth from early passage good growing to near stasis, agonescence, or senescence.
| | Sample_growth_protocol_ch1 | Finite life span HMEC and HMFC from Specimens 184, 48 and 240L were obtained from reduction mammoplasty tissue of women aged 21, 16, and 19 respectively. HMEC were grown starting from organoids in either serum free MCDB170 medium, or the serum-containing M85+CT±X medium described in this publication. HMFC were grown in DME/F12+FCS+I
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cell were lysed with trizol reagent (Invitrogen) according manufacturer's protocol. RNA was resuspended in 100 µl nuclease free water and subject to a second step purification on ion exchange column (Qiagen)
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | For each sample, the RNA target is prepared by annealing 2.0µg of total RNA in 5µl water with 5µl of 10µM T7 (Oligo dt) primer. First and second strand cDNA synthesis is performed and the cDNA products purified using magnetic beads. Labeled cRNA is synthesized from the cDNA using T7 RNA polymerase followed by clean-up with magnetic beads. Purified cRNA is quantitated and fragmented.
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HT_HG-U133A Array. GeneChips were 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 | Raw probe level intensities were processed for background correction, normalization and summarization using Probel level linear (PLM) model in LIMMA module(v.2.16.3) of Bioconductor package.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Sanchita,,Bhattacharya
| | Sample_contact_email | SBhattacharya@lbl.gov
| | Sample_contact_phone | 510-486-6881
| | Sample_contact_institute | MIT
| | Sample_contact_address | 1 Cyclotron Rd
| | Sample_contact_city | Berkely
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94720
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM402nnn/GSM402199/suppl/GSM402199.CEL.gz
| | Sample_series_id | GSE16058
| | Sample_data_row_count | 22277
| | |
|
GSM402200 | GPL3921 |
|
HMEC 184D11pM85X Intermediate
|
HMEC
|
cell type: mammary epithelial cell
individual: 184
passage: 11p
growth status: Intermediate-Prestasis
|
Human Cell Lines
|
| Sample_geo_accession | GSM402200
| | Sample_status | Public on May 12 2010
| | Sample_submission_date | May 12 2009
| | Sample_last_update_date | May 12 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell cultures grown in the indicated media were harvested and different points in their growth from early passage good growing to near stasis, agonescence, or senescence.
| | Sample_growth_protocol_ch1 | Finite life span HMEC and HMFC from Specimens 184, 48 and 240L were obtained from reduction mammoplasty tissue of women aged 21, 16, and 19 respectively. HMEC were grown starting from organoids in either serum free MCDB170 medium, or the serum-containing M85+CT±X medium described in this publication. HMFC were grown in DME/F12+FCS+I
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cell were lysed with trizol reagent (Invitrogen) according manufacturer's protocol. RNA was resuspended in 100 µl nuclease free water and subject to a second step purification on ion exchange column (Qiagen)
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | For each sample, the RNA target is prepared by annealing 2.0µg of total RNA in 5µl water with 5µl of 10µM T7 (Oligo dt) primer. First and second strand cDNA synthesis is performed and the cDNA products purified using magnetic beads. Labeled cRNA is synthesized from the cDNA using T7 RNA polymerase followed by clean-up with magnetic beads. Purified cRNA is quantitated and fragmented.
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HT_HG-U133A Array. GeneChips were 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 | Raw probe level intensities were processed for background correction, normalization and summarization using Probel level linear (PLM) model in LIMMA module(v.2.16.3) of Bioconductor package.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Sanchita,,Bhattacharya
| | Sample_contact_email | SBhattacharya@lbl.gov
| | Sample_contact_phone | 510-486-6881
| | Sample_contact_institute | MIT
| | Sample_contact_address | 1 Cyclotron Rd
| | Sample_contact_city | Berkely
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94720
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM402nnn/GSM402200/suppl/GSM402200.CEL.gz
| | Sample_series_id | GSE16058
| | Sample_data_row_count | 22277
| | |
|
GSM402201 | GPL3921 |
|
HMEC 184D14pM85X.1 Stasis
|
HMEC
|
cell type: mammary epithelial cell
individual: 184
passage: 14p
growth status: Stasis
|
Human Cell Lines
|
| Sample_geo_accession | GSM402201
| | Sample_status | Public on May 12 2010
| | Sample_submission_date | May 12 2009
| | Sample_last_update_date | May 12 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell cultures grown in the indicated media were harvested and different points in their growth from early passage good growing to near stasis, agonescence, or senescence.
| | Sample_growth_protocol_ch1 | Finite life span HMEC and HMFC from Specimens 184, 48 and 240L were obtained from reduction mammoplasty tissue of women aged 21, 16, and 19 respectively. HMEC were grown starting from organoids in either serum free MCDB170 medium, or the serum-containing M85+CT±X medium described in this publication. HMFC were grown in DME/F12+FCS+I
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cell were lysed with trizol reagent (Invitrogen) according manufacturer's protocol. RNA was resuspended in 100 µl nuclease free water and subject to a second step purification on ion exchange column (Qiagen)
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | For each sample, the RNA target is prepared by annealing 2.0µg of total RNA in 5µl water with 5µl of 10µM T7 (Oligo dt) primer. First and second strand cDNA synthesis is performed and the cDNA products purified using magnetic beads. Labeled cRNA is synthesized from the cDNA using T7 RNA polymerase followed by clean-up with magnetic beads. Purified cRNA is quantitated and fragmented.
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HT_HG-U133A Array. GeneChips were 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 | Raw probe level intensities were processed for background correction, normalization and summarization using Probel level linear (PLM) model in LIMMA module(v.2.16.3) of Bioconductor package.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Sanchita,,Bhattacharya
| | Sample_contact_email | SBhattacharya@lbl.gov
| | Sample_contact_phone | 510-486-6881
| | Sample_contact_institute | MIT
| | Sample_contact_address | 1 Cyclotron Rd
| | Sample_contact_city | Berkely
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94720
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM402nnn/GSM402201/suppl/GSM402201.CEL.gz
| | Sample_series_id | GSE16058
| | Sample_data_row_count | 22277
| | |
|
GSM402202 | GPL3921 |
|
HMEC 184D14pM85X.2 Stasis
|
HMEC
|
cell type: mammary epithelial cell
individual: 184
passage: 14p
growth status: Stasis
|
Human Cell Lines
|
| Sample_geo_accession | GSM402202
| | Sample_status | Public on May 12 2010
| | Sample_submission_date | May 12 2009
| | Sample_last_update_date | May 12 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell cultures grown in the indicated media were harvested and different points in their growth from early passage good growing to near stasis, agonescence, or senescence.
| | Sample_growth_protocol_ch1 | Finite life span HMEC and HMFC from Specimens 184, 48 and 240L were obtained from reduction mammoplasty tissue of women aged 21, 16, and 19 respectively. HMEC were grown starting from organoids in either serum free MCDB170 medium, or the serum-containing M85+CT±X medium described in this publication. HMFC were grown in DME/F12+FCS+I
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cell were lysed with trizol reagent (Invitrogen) according manufacturer's protocol. RNA was resuspended in 100 µl nuclease free water and subject to a second step purification on ion exchange column (Qiagen)
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | For each sample, the RNA target is prepared by annealing 2.0µg of total RNA in 5µl water with 5µl of 10µM T7 (Oligo dt) primer. First and second strand cDNA synthesis is performed and the cDNA products purified using magnetic beads. Labeled cRNA is synthesized from the cDNA using T7 RNA polymerase followed by clean-up with magnetic beads. Purified cRNA is quantitated and fragmented.
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HT_HG-U133A Array. GeneChips were 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 | Raw probe level intensities were processed for background correction, normalization and summarization using Probel level linear (PLM) model in LIMMA module(v.2.16.3) of Bioconductor package.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Sanchita,,Bhattacharya
| | Sample_contact_email | SBhattacharya@lbl.gov
| | Sample_contact_phone | 510-486-6881
| | Sample_contact_institute | MIT
| | Sample_contact_address | 1 Cyclotron Rd
| | Sample_contact_city | Berkely
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94720
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM402nnn/GSM402202/suppl/GSM402202.CEL.gz
| | Sample_series_id | GSE16058
| | Sample_data_row_count | 22277
| | |
|
GSM402203 | GPL3921 |
|
HMEC 184B9 PostSelection
|
HMEC
|
cell type: mammary epithelial cell
individual: 184
passage: 9p
growth status: PostSelection
|
Human Cell Lines
|
| Sample_geo_accession | GSM402203
| | Sample_status | Public on May 12 2010
| | Sample_submission_date | May 12 2009
| | Sample_last_update_date | May 12 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell cultures grown in the indicated media were harvested and different points in their growth from early passage good growing to near stasis, agonescence, or senescence.
| | Sample_growth_protocol_ch1 | Finite life span HMEC and HMFC from Specimens 184, 48 and 240L were obtained from reduction mammoplasty tissue of women aged 21, 16, and 19 respectively. HMEC were grown starting from organoids in either serum free MCDB170 medium, or the serum-containing M85+CT±X medium described in this publication. HMFC were grown in DME/F12+FCS+I
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cell were lysed with trizol reagent (Invitrogen) according manufacturer's protocol. RNA was resuspended in 100 µl nuclease free water and subject to a second step purification on ion exchange column (Qiagen)
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | For each sample, the RNA target is prepared by annealing 2.0µg of total RNA in 5µl water with 5µl of 10µM T7 (Oligo dt) primer. First and second strand cDNA synthesis is performed and the cDNA products purified using magnetic beads. Labeled cRNA is synthesized from the cDNA using T7 RNA polymerase followed by clean-up with magnetic beads. Purified cRNA is quantitated and fragmented.
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HT_HG-U133A Array. GeneChips were 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 | Raw probe level intensities were processed for background correction, normalization and summarization using Probel level linear (PLM) model in LIMMA module(v.2.16.3) of Bioconductor package.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Sanchita,,Bhattacharya
| | Sample_contact_email | SBhattacharya@lbl.gov
| | Sample_contact_phone | 510-486-6881
| | Sample_contact_institute | MIT
| | Sample_contact_address | 1 Cyclotron Rd
| | Sample_contact_city | Berkely
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94720
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM402nnn/GSM402203/suppl/GSM402203.CEL.gz
| | Sample_series_id | GSE16058
| | Sample_data_row_count | 22277
| | |
|
GSM402204 | GPL3921 |
|
HMEC 184B14.1 Agonesence
|
HMEC
|
cell type: mammary epithelial cell
individual: 184
passage: 14p
growth status: Agonesence-Postselection
|
Human Cell Lines
|
| Sample_geo_accession | GSM402204
| | Sample_status | Public on May 12 2010
| | Sample_submission_date | May 12 2009
| | Sample_last_update_date | May 12 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell cultures grown in the indicated media were harvested and different points in their growth from early passage good growing to near stasis, agonescence, or senescence.
| | Sample_growth_protocol_ch1 | Finite life span HMEC and HMFC from Specimens 184, 48 and 240L were obtained from reduction mammoplasty tissue of women aged 21, 16, and 19 respectively. HMEC were grown starting from organoids in either serum free MCDB170 medium, or the serum-containing M85+CT±X medium described in this publication. HMFC were grown in DME/F12+FCS+I
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cell were lysed with trizol reagent (Invitrogen) according manufacturer's protocol. RNA was resuspended in 100 µl nuclease free water and subject to a second step purification on ion exchange column (Qiagen)
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | For each sample, the RNA target is prepared by annealing 2.0µg of total RNA in 5µl water with 5µl of 10µM T7 (Oligo dt) primer. First and second strand cDNA synthesis is performed and the cDNA products purified using magnetic beads. Labeled cRNA is synthesized from the cDNA using T7 RNA polymerase followed by clean-up with magnetic beads. Purified cRNA is quantitated and fragmented.
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HT_HG-U133A Array. GeneChips were 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 | Raw probe level intensities were processed for background correction, normalization and summarization using Probel level linear (PLM) model in LIMMA module(v.2.16.3) of Bioconductor package.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Sanchita,,Bhattacharya
| | Sample_contact_email | SBhattacharya@lbl.gov
| | Sample_contact_phone | 510-486-6881
| | Sample_contact_institute | MIT
| | Sample_contact_address | 1 Cyclotron Rd
| | Sample_contact_city | Berkely
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94720
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM402nnn/GSM402204/suppl/GSM402204.CEL.gz
| | Sample_series_id | GSE16058
| | Sample_data_row_count | 22277
| | |
|
GSM402205 | GPL3921 |
|
HMEC 184B14.2 Agonesence
|
HMEC
|
cell type: mammary epithelial cell
individual: 184
passage: 14p
growth status: Agonesence-Postselection
|
Human Cell Lines
|
| Sample_geo_accession | GSM402205
| | Sample_status | Public on May 12 2010
| | Sample_submission_date | May 12 2009
| | Sample_last_update_date | May 12 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell cultures grown in the indicated media were harvested and different points in their growth from early passage good growing to near stasis, agonescence, or senescence.
| | Sample_growth_protocol_ch1 | Finite life span HMEC and HMFC from Specimens 184, 48 and 240L were obtained from reduction mammoplasty tissue of women aged 21, 16, and 19 respectively. HMEC were grown starting from organoids in either serum free MCDB170 medium, or the serum-containing M85+CT±X medium described in this publication. HMFC were grown in DME/F12+FCS+I
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cell were lysed with trizol reagent (Invitrogen) according manufacturer's protocol. RNA was resuspended in 100 µl nuclease free water and subject to a second step purification on ion exchange column (Qiagen)
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | For each sample, the RNA target is prepared by annealing 2.0µg of total RNA in 5µl water with 5µl of 10µM T7 (Oligo dt) primer. First and second strand cDNA synthesis is performed and the cDNA products purified using magnetic beads. Labeled cRNA is synthesized from the cDNA using T7 RNA polymerase followed by clean-up with magnetic beads. Purified cRNA is quantitated and fragmented.
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HT_HG-U133A Array. GeneChips were 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 | Raw probe level intensities were processed for background correction, normalization and summarization using Probel level linear (PLM) model in LIMMA module(v.2.16.3) of Bioconductor package.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Sanchita,,Bhattacharya
| | Sample_contact_email | SBhattacharya@lbl.gov
| | Sample_contact_phone | 510-486-6881
| | Sample_contact_institute | MIT
| | Sample_contact_address | 1 Cyclotron Rd
| | Sample_contact_city | Berkely
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94720
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM402nnn/GSM402205/suppl/GSM402205.CEL.gz
| | Sample_series_id | GSE16058
| | Sample_data_row_count | 22277
| | |
|
GSM402206 | GPL3921 |
|
HMEC 184B8p170IP Postselection
|
HMEC
|
cell type: mammary epithelial cell
individual: 184
passage: 8p
growth status: Growing-Postselection
|
Human Cell Lines
|
| Sample_geo_accession | GSM402206
| | Sample_status | Public on May 12 2010
| | Sample_submission_date | May 12 2009
| | Sample_last_update_date | May 12 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell cultures grown in the indicated media were harvested and different points in their growth from early passage good growing to near stasis, agonescence, or senescence.
| | Sample_growth_protocol_ch1 | Finite life span HMEC and HMFC from Specimens 184, 48 and 240L were obtained from reduction mammoplasty tissue of women aged 21, 16, and 19 respectively. HMEC were grown starting from organoids in either serum free MCDB170 medium, or the serum-containing M85+CT±X medium described in this publication. HMFC were grown in DME/F12+FCS+I
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cell were lysed with trizol reagent (Invitrogen) according manufacturer's protocol. RNA was resuspended in 100 µl nuclease free water and subject to a second step purification on ion exchange column (Qiagen)
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | For each sample, the RNA target is prepared by annealing 2.0µg of total RNA in 5µl water with 5µl of 10µM T7 (Oligo dt) primer. First and second strand cDNA synthesis is performed and the cDNA products purified using magnetic beads. Labeled cRNA is synthesized from the cDNA using T7 RNA polymerase followed by clean-up with magnetic beads. Purified cRNA is quantitated and fragmented.
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HT_HG-U133A Array. GeneChips were 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 | Raw probe level intensities were processed for background correction, normalization and summarization using Probel level linear (PLM) model in LIMMA module(v.2.16.3) of Bioconductor package.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Sanchita,,Bhattacharya
| | Sample_contact_email | SBhattacharya@lbl.gov
| | Sample_contact_phone | 510-486-6881
| | Sample_contact_institute | MIT
| | Sample_contact_address | 1 Cyclotron Rd
| | Sample_contact_city | Berkely
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94720
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM402nnn/GSM402206/suppl/GSM402206.CEL.gz
| | Sample_series_id | GSE16058
| | Sample_data_row_count | 22277
| | |
|
GSM402207 | GPL3921 |
|
HMEC 48RS11p170IP Postselection
|
HMEC
|
cell type: mammary epithelial cell
individual: 48
passage: 11p
growth status: Growing-Postselection
|
Human Cell Lines
|
| Sample_geo_accession | GSM402207
| | Sample_status | Public on May 12 2010
| | Sample_submission_date | May 12 2009
| | Sample_last_update_date | May 12 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell cultures grown in the indicated media were harvested and different points in their growth from early passage good growing to near stasis, agonescence, or senescence.
| | Sample_growth_protocol_ch1 | Finite life span HMEC and HMFC from Specimens 184, 48 and 240L were obtained from reduction mammoplasty tissue of women aged 21, 16, and 19 respectively. HMEC were grown starting from organoids in either serum free MCDB170 medium, or the serum-containing M85+CT±X medium described in this publication. HMFC were grown in DME/F12+FCS+I
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cell were lysed with trizol reagent (Invitrogen) according manufacturer's protocol. RNA was resuspended in 100 µl nuclease free water and subject to a second step purification on ion exchange column (Qiagen)
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | For each sample, the RNA target is prepared by annealing 2.0µg of total RNA in 5µl water with 5µl of 10µM T7 (Oligo dt) primer. First and second strand cDNA synthesis is performed and the cDNA products purified using magnetic beads. Labeled cRNA is synthesized from the cDNA using T7 RNA polymerase followed by clean-up with magnetic beads. Purified cRNA is quantitated and fragmented.
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HT_HG-U133A Array. GeneChips were 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 | Raw probe level intensities were processed for background correction, normalization and summarization using Probel level linear (PLM) model in LIMMA module(v.2.16.3) of Bioconductor package.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Sanchita,,Bhattacharya
| | Sample_contact_email | SBhattacharya@lbl.gov
| | Sample_contact_phone | 510-486-6881
| | Sample_contact_institute | MIT
| | Sample_contact_address | 1 Cyclotron Rd
| | Sample_contact_city | Berkely
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94720
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM402nnn/GSM402207/suppl/GSM402207.CEL.gz
| | Sample_series_id | GSE16058
| | Sample_data_row_count | 22277
| | |
|
GSM402208 | GPL3921 |
|
HMEC 48RS11p170IP.1 Postselection
|
HMEC
|
cell type: mammary epithelial cell
individual: 48
passage: 11p
growth status: Growing-Postselection
|
Human Cell Lines
|
| Sample_geo_accession | GSM402208
| | Sample_status | Public on May 12 2010
| | Sample_submission_date | May 12 2009
| | Sample_last_update_date | May 12 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell cultures grown in the indicated media were harvested and different points in their growth from early passage good growing to near stasis, agonescence, or senescence.
| | Sample_growth_protocol_ch1 | Finite life span HMEC and HMFC from Specimens 184, 48 and 240L were obtained from reduction mammoplasty tissue of women aged 21, 16, and 19 respectively. HMEC were grown starting from organoids in either serum free MCDB170 medium, or the serum-containing M85+CT±X medium described in this publication. HMFC were grown in DME/F12+FCS+I
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cell were lysed with trizol reagent (Invitrogen) according manufacturer's protocol. RNA was resuspended in 100 µl nuclease free water and subject to a second step purification on ion exchange column (Qiagen)
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | For each sample, the RNA target is prepared by annealing 2.0µg of total RNA in 5µl water with 5µl of 10µM T7 (Oligo dt) primer. First and second strand cDNA synthesis is performed and the cDNA products purified using magnetic beads. Labeled cRNA is synthesized from the cDNA using T7 RNA polymerase followed by clean-up with magnetic beads. Purified cRNA is quantitated and fragmented.
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HT_HG-U133A Array. GeneChips were 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 | Raw probe level intensities were processed for background correction, normalization and summarization using Probel level linear (PLM) model in LIMMA module(v.2.16.3) of Bioconductor package.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Sanchita,,Bhattacharya
| | Sample_contact_email | SBhattacharya@lbl.gov
| | Sample_contact_phone | 510-486-6881
| | Sample_contact_institute | MIT
| | Sample_contact_address | 1 Cyclotron Rd
| | Sample_contact_city | Berkely
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94720
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM402nnn/GSM402208/suppl/GSM402208.CEL.gz
| | Sample_series_id | GSE16058
| | Sample_data_row_count | 22277
| | |
|
GSM402209 | GPL3921 |
|
HMEC 48RS11p170IP.2 Postselection
|
HMEC
|
cell type: mammary epithelial cell
individual: 48
passage: 11p
growth status: Growing-Postselection
|
Human Cell Lines
|
| Sample_geo_accession | GSM402209
| | Sample_status | Public on May 12 2010
| | Sample_submission_date | May 12 2009
| | Sample_last_update_date | May 12 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell cultures grown in the indicated media were harvested and different points in their growth from early passage good growing to near stasis, agonescence, or senescence.
| | Sample_growth_protocol_ch1 | Finite life span HMEC and HMFC from Specimens 184, 48 and 240L were obtained from reduction mammoplasty tissue of women aged 21, 16, and 19 respectively. HMEC were grown starting from organoids in either serum free MCDB170 medium, or the serum-containing M85+CT±X medium described in this publication. HMFC were grown in DME/F12+FCS+I
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cell were lysed with trizol reagent (Invitrogen) according manufacturer's protocol. RNA was resuspended in 100 µl nuclease free water and subject to a second step purification on ion exchange column (Qiagen)
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | For each sample, the RNA target is prepared by annealing 2.0µg of total RNA in 5µl water with 5µl of 10µM T7 (Oligo dt) primer. First and second strand cDNA synthesis is performed and the cDNA products purified using magnetic beads. Labeled cRNA is synthesized from the cDNA using T7 RNA polymerase followed by clean-up with magnetic beads. Purified cRNA is quantitated and fragmented.
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HT_HG-U133A Array. GeneChips were 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 | Raw probe level intensities were processed for background correction, normalization and summarization using Probel level linear (PLM) model in LIMMA module(v.2.16.3) of Bioconductor package.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Sanchita,,Bhattacharya
| | Sample_contact_email | SBhattacharya@lbl.gov
| | Sample_contact_phone | 510-486-6881
| | Sample_contact_institute | MIT
| | Sample_contact_address | 1 Cyclotron Rd
| | Sample_contact_city | Berkely
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94720
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM402nnn/GSM402209/suppl/GSM402209.CEL.gz
| | Sample_series_id | GSE16058
| | Sample_data_row_count | 22277
| | |
|
GSM402210 | GPL3921 |
|
HMEC 48RS22p170IP.1 Agonesence
|
HMEC
|
cell type: mammary epithelial cell
individual: 48
passage: 22p
growth status: Agonesence-Postselection
|
Human Cell Lines
|
| Sample_geo_accession | GSM402210
| | Sample_status | Public on May 12 2010
| | Sample_submission_date | May 12 2009
| | Sample_last_update_date | May 12 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell cultures grown in the indicated media were harvested and different points in their growth from early passage good growing to near stasis, agonescence, or senescence.
| | Sample_growth_protocol_ch1 | Finite life span HMEC and HMFC from Specimens 184, 48 and 240L were obtained from reduction mammoplasty tissue of women aged 21, 16, and 19 respectively. HMEC were grown starting from organoids in either serum free MCDB170 medium, or the serum-containing M85+CT±X medium described in this publication. HMFC were grown in DME/F12+FCS+I
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cell were lysed with trizol reagent (Invitrogen) according manufacturer's protocol. RNA was resuspended in 100 µl nuclease free water and subject to a second step purification on ion exchange column (Qiagen)
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | For each sample, the RNA target is prepared by annealing 2.0µg of total RNA in 5µl water with 5µl of 10µM T7 (Oligo dt) primer. First and second strand cDNA synthesis is performed and the cDNA products purified using magnetic beads. Labeled cRNA is synthesized from the cDNA using T7 RNA polymerase followed by clean-up with magnetic beads. Purified cRNA is quantitated and fragmented.
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HT_HG-U133A Array. GeneChips were 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 | Raw probe level intensities were processed for background correction, normalization and summarization using Probel level linear (PLM) model in LIMMA module(v.2.16.3) of Bioconductor package.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Sanchita,,Bhattacharya
| | Sample_contact_email | SBhattacharya@lbl.gov
| | Sample_contact_phone | 510-486-6881
| | Sample_contact_institute | MIT
| | Sample_contact_address | 1 Cyclotron Rd
| | Sample_contact_city | Berkely
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94720
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM402nnn/GSM402210/suppl/GSM402210.CEL.gz
| | Sample_series_id | GSE16058
| | Sample_data_row_count | 22277
| | |
|
GSM402211 | GPL3921 |
|
HMEC 48RS22p170IP.2 Agonesence
|
HMEC
|
cell type: mammary epithelial cell
individual: 48
passage: 22p
growth status: Agonesence-Postselection
|
Human Cell Lines
|
| Sample_geo_accession | GSM402211
| | Sample_status | Public on May 12 2010
| | Sample_submission_date | May 12 2009
| | Sample_last_update_date | May 12 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell cultures grown in the indicated media were harvested and different points in their growth from early passage good growing to near stasis, agonescence, or senescence.
| | Sample_growth_protocol_ch1 | Finite life span HMEC and HMFC from Specimens 184, 48 and 240L were obtained from reduction mammoplasty tissue of women aged 21, 16, and 19 respectively. HMEC were grown starting from organoids in either serum free MCDB170 medium, or the serum-containing M85+CT±X medium described in this publication. HMFC were grown in DME/F12+FCS+I
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cell were lysed with trizol reagent (Invitrogen) according manufacturer's protocol. RNA was resuspended in 100 µl nuclease free water and subject to a second step purification on ion exchange column (Qiagen)
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | For each sample, the RNA target is prepared by annealing 2.0µg of total RNA in 5µl water with 5µl of 10µM T7 (Oligo dt) primer. First and second strand cDNA synthesis is performed and the cDNA products purified using magnetic beads. Labeled cRNA is synthesized from the cDNA using T7 RNA polymerase followed by clean-up with magnetic beads. Purified cRNA is quantitated and fragmented.
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HT_HG-U133A Array. GeneChips were 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 | Raw probe level intensities were processed for background correction, normalization and summarization using Probel level linear (PLM) model in LIMMA module(v.2.16.3) of Bioconductor package.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Sanchita,,Bhattacharya
| | Sample_contact_email | SBhattacharya@lbl.gov
| | Sample_contact_phone | 510-486-6881
| | Sample_contact_institute | MIT
| | Sample_contact_address | 1 Cyclotron Rd
| | Sample_contact_city | Berkely
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94720
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM402nnn/GSM402211/suppl/GSM402211.CEL.gz
| | Sample_series_id | GSE16058
| | Sample_data_row_count | 22277
| | |
|
GSM402212 | GPL3921 |
|
HMEC 48RT2pM85 Prestasis
|
HMEC
|
cell type: mammary epithelial cell
individual: 48
passage: 2p
growth status: Growing-Prestasis
|
Human Cell Lines
|
| Sample_geo_accession | GSM402212
| | Sample_status | Public on May 12 2010
| | Sample_submission_date | May 12 2009
| | Sample_last_update_date | May 12 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell cultures grown in the indicated media were harvested and different points in their growth from early passage good growing to near stasis, agonescence, or senescence.
| | Sample_growth_protocol_ch1 | Finite life span HMEC and HMFC from Specimens 184, 48 and 240L were obtained from reduction mammoplasty tissue of women aged 21, 16, and 19 respectively. HMEC were grown starting from organoids in either serum free MCDB170 medium, or the serum-containing M85+CT±X medium described in this publication. HMFC were grown in DME/F12+FCS+I
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cell were lysed with trizol reagent (Invitrogen) according manufacturer's protocol. RNA was resuspended in 100 µl nuclease free water and subject to a second step purification on ion exchange column (Qiagen)
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | For each sample, the RNA target is prepared by annealing 2.0µg of total RNA in 5µl water with 5µl of 10µM T7 (Oligo dt) primer. First and second strand cDNA synthesis is performed and the cDNA products purified using magnetic beads. Labeled cRNA is synthesized from the cDNA using T7 RNA polymerase followed by clean-up with magnetic beads. Purified cRNA is quantitated and fragmented.
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HT_HG-U133A Array. GeneChips were 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 | Raw probe level intensities were processed for background correction, normalization and summarization using Probel level linear (PLM) model in LIMMA module(v.2.16.3) of Bioconductor package.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Sanchita,,Bhattacharya
| | Sample_contact_email | SBhattacharya@lbl.gov
| | Sample_contact_phone | 510-486-6881
| | Sample_contact_institute | MIT
| | Sample_contact_address | 1 Cyclotron Rd
| | Sample_contact_city | Berkely
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94720
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM402nnn/GSM402212/suppl/GSM402212.CEL.gz
| | Sample_series_id | GSE16058
| | Sample_data_row_count | 22277
| | |
|
GSM402213 | GPL3921 |
|
HMEC 48RT4pM85 Prestasis
|
HMEC
|
cell type: mammary epithelial cell
individual: 48
passage: 4p
growth status: Growing-Prestasis
|
Human Cell Lines
|
| Sample_geo_accession | GSM402213
| | Sample_status | Public on May 12 2010
| | Sample_submission_date | May 12 2009
| | Sample_last_update_date | May 12 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell cultures grown in the indicated media were harvested and different points in their growth from early passage good growing to near stasis, agonescence, or senescence.
| | Sample_growth_protocol_ch1 | Finite life span HMEC and HMFC from Specimens 184, 48 and 240L were obtained from reduction mammoplasty tissue of women aged 21, 16, and 19 respectively. HMEC were grown starting from organoids in either serum free MCDB170 medium, or the serum-containing M85+CT±X medium described in this publication. HMFC were grown in DME/F12+FCS+I
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cell were lysed with trizol reagent (Invitrogen) according manufacturer's protocol. RNA was resuspended in 100 µl nuclease free water and subject to a second step purification on ion exchange column (Qiagen)
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | For each sample, the RNA target is prepared by annealing 2.0µg of total RNA in 5µl water with 5µl of 10µM T7 (Oligo dt) primer. First and second strand cDNA synthesis is performed and the cDNA products purified using magnetic beads. Labeled cRNA is synthesized from the cDNA using T7 RNA polymerase followed by clean-up with magnetic beads. Purified cRNA is quantitated and fragmented.
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HT_HG-U133A Array. GeneChips were 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 | Raw probe level intensities were processed for background correction, normalization and summarization using Probel level linear (PLM) model in LIMMA module(v.2.16.3) of Bioconductor package.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Sanchita,,Bhattacharya
| | Sample_contact_email | SBhattacharya@lbl.gov
| | Sample_contact_phone | 510-486-6881
| | Sample_contact_institute | MIT
| | Sample_contact_address | 1 Cyclotron Rd
| | Sample_contact_city | Berkely
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94720
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM402nnn/GSM402213/suppl/GSM402213.CEL.gz
| | Sample_series_id | GSE16058
| | Sample_data_row_count | 22277
| | |
|
GSM402214 | GPL3921 |
|
HMEC 48RT12pM85.1 Stasis
|
HMEC
|
cell type: mammary epithelial cell
individual: 48
passage: 12p
growth status: Stasis
|
Human Cell Lines
|
| Sample_geo_accession | GSM402214
| | Sample_status | Public on May 12 2010
| | Sample_submission_date | May 12 2009
| | Sample_last_update_date | May 12 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell cultures grown in the indicated media were harvested and different points in their growth from early passage good growing to near stasis, agonescence, or senescence.
| | Sample_growth_protocol_ch1 | Finite life span HMEC and HMFC from Specimens 184, 48 and 240L were obtained from reduction mammoplasty tissue of women aged 21, 16, and 19 respectively. HMEC were grown starting from organoids in either serum free MCDB170 medium, or the serum-containing M85+CT±X medium described in this publication. HMFC were grown in DME/F12+FCS+I
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cell were lysed with trizol reagent (Invitrogen) according manufacturer's protocol. RNA was resuspended in 100 µl nuclease free water and subject to a second step purification on ion exchange column (Qiagen)
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | For each sample, the RNA target is prepared by annealing 2.0µg of total RNA in 5µl water with 5µl of 10µM T7 (Oligo dt) primer. First and second strand cDNA synthesis is performed and the cDNA products purified using magnetic beads. Labeled cRNA is synthesized from the cDNA using T7 RNA polymerase followed by clean-up with magnetic beads. Purified cRNA is quantitated and fragmented.
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HT_HG-U133A Array. GeneChips were 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 | Raw probe level intensities were processed for background correction, normalization and summarization using Probel level linear (PLM) model in LIMMA module(v.2.16.3) of Bioconductor package.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Sanchita,,Bhattacharya
| | Sample_contact_email | SBhattacharya@lbl.gov
| | Sample_contact_phone | 510-486-6881
| | Sample_contact_institute | MIT
| | Sample_contact_address | 1 Cyclotron Rd
| | Sample_contact_city | Berkely
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94720
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM402nnn/GSM402214/suppl/GSM402214.CEL.gz
| | Sample_series_id | GSE16058
| | Sample_data_row_count | 22277
| | |
|
GSM402215 | GPL3921 |
|
HMEC 48RT12pM85.2 Stasis
|
HMEC
|
cell type: mammary epithelial cell
individual: 48
passage: 12p
growth status: Stasis
|
Human Cell Lines
|
| Sample_geo_accession | GSM402215
| | Sample_status | Public on May 12 2010
| | Sample_submission_date | May 12 2009
| | Sample_last_update_date | May 12 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell cultures grown in the indicated media were harvested and different points in their growth from early passage good growing to near stasis, agonescence, or senescence.
| | Sample_growth_protocol_ch1 | Finite life span HMEC and HMFC from Specimens 184, 48 and 240L were obtained from reduction mammoplasty tissue of women aged 21, 16, and 19 respectively. HMEC were grown starting from organoids in either serum free MCDB170 medium, or the serum-containing M85+CT±X medium described in this publication. HMFC were grown in DME/F12+FCS+I
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cell were lysed with trizol reagent (Invitrogen) according manufacturer's protocol. RNA was resuspended in 100 µl nuclease free water and subject to a second step purification on ion exchange column (Qiagen)
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | For each sample, the RNA target is prepared by annealing 2.0µg of total RNA in 5µl water with 5µl of 10µM T7 (Oligo dt) primer. First and second strand cDNA synthesis is performed and the cDNA products purified using magnetic beads. Labeled cRNA is synthesized from the cDNA using T7 RNA polymerase followed by clean-up with magnetic beads. Purified cRNA is quantitated and fragmented.
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HT_HG-U133A Array. GeneChips were 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 | Raw probe level intensities were processed for background correction, normalization and summarization using Probel level linear (PLM) model in LIMMA module(v.2.16.3) of Bioconductor package.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Sanchita,,Bhattacharya
| | Sample_contact_email | SBhattacharya@lbl.gov
| | Sample_contact_phone | 510-486-6881
| | Sample_contact_institute | MIT
| | Sample_contact_address | 1 Cyclotron Rd
| | Sample_contact_city | Berkely
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94720
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM402nnn/GSM402215/suppl/GSM402215.CEL.gz
| | Sample_series_id | GSE16058
| | Sample_data_row_count | 22277
| | |
|
GSM402216 | GPL3921 |
|
HMEC 48RT3X Prestasis
|
HMEC
|
cell type: mammary epithelial cell
individual: 48
passage: 3p
growth status: Growing-Prestasis
|
Human Cell Lines
|
| Sample_geo_accession | GSM402216
| | Sample_status | Public on May 12 2010
| | Sample_submission_date | May 12 2009
| | Sample_last_update_date | May 12 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell cultures grown in the indicated media were harvested and different points in their growth from early passage good growing to near stasis, agonescence, or senescence.
| | Sample_growth_protocol_ch1 | Finite life span HMEC and HMFC from Specimens 184, 48 and 240L were obtained from reduction mammoplasty tissue of women aged 21, 16, and 19 respectively. HMEC were grown starting from organoids in either serum free MCDB170 medium, or the serum-containing M85+CT±X medium described in this publication. HMFC were grown in DME/F12+FCS+I
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cell were lysed with trizol reagent (Invitrogen) according manufacturer's protocol. RNA was resuspended in 100 µl nuclease free water and subject to a second step purification on ion exchange column (Qiagen)
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | For each sample, the RNA target is prepared by annealing 2.0µg of total RNA in 5µl water with 5µl of 10µM T7 (Oligo dt) primer. First and second strand cDNA synthesis is performed and the cDNA products purified using magnetic beads. Labeled cRNA is synthesized from the cDNA using T7 RNA polymerase followed by clean-up with magnetic beads. Purified cRNA is quantitated and fragmented.
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HT_HG-U133A Array. GeneChips were 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 | Raw probe level intensities were processed for background correction, normalization and summarization using Probel level linear (PLM) model in LIMMA module(v.2.16.3) of Bioconductor package.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Sanchita,,Bhattacharya
| | Sample_contact_email | SBhattacharya@lbl.gov
| | Sample_contact_phone | 510-486-6881
| | Sample_contact_institute | MIT
| | Sample_contact_address | 1 Cyclotron Rd
| | Sample_contact_city | Berkely
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94720
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM402nnn/GSM402216/suppl/GSM402216.CEL.gz
| | Sample_series_id | GSE16058
| | Sample_data_row_count | 22277
| | |
|
GSM402217 | GPL3921 |
|
HMEC 48RT5X Prestasis
|
HMEC
|
cell type: mammary epithelial cell
individual: 48
passage: 5p
growth status: Growing-Prestasis
|
Human Cell Lines
|
| Sample_geo_accession | GSM402217
| | Sample_status | Public on May 12 2010
| | Sample_submission_date | May 12 2009
| | Sample_last_update_date | May 12 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell cultures grown in the indicated media were harvested and different points in their growth from early passage good growing to near stasis, agonescence, or senescence.
| | Sample_growth_protocol_ch1 | Finite life span HMEC and HMFC from Specimens 184, 48 and 240L were obtained from reduction mammoplasty tissue of women aged 21, 16, and 19 respectively. HMEC were grown starting from organoids in either serum free MCDB170 medium, or the serum-containing M85+CT±X medium described in this publication. HMFC were grown in DME/F12+FCS+I
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cell were lysed with trizol reagent (Invitrogen) according manufacturer's protocol. RNA was resuspended in 100 µl nuclease free water and subject to a second step purification on ion exchange column (Qiagen)
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | For each sample, the RNA target is prepared by annealing 2.0µg of total RNA in 5µl water with 5µl of 10µM T7 (Oligo dt) primer. First and second strand cDNA synthesis is performed and the cDNA products purified using magnetic beads. Labeled cRNA is synthesized from the cDNA using T7 RNA polymerase followed by clean-up with magnetic beads. Purified cRNA is quantitated and fragmented.
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HT_HG-U133A Array. GeneChips were 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 | Raw probe level intensities were processed for background correction, normalization and summarization using Probel level linear (PLM) model in LIMMA module(v.2.16.3) of Bioconductor package.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Sanchita,,Bhattacharya
| | Sample_contact_email | SBhattacharya@lbl.gov
| | Sample_contact_phone | 510-486-6881
| | Sample_contact_institute | MIT
| | Sample_contact_address | 1 Cyclotron Rd
| | Sample_contact_city | Berkely
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94720
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM402nnn/GSM402217/suppl/GSM402217.CEL.gz
| | Sample_series_id | GSE16058
| | Sample_data_row_count | 22277
| | |
|
GSM402218 | GPL3921 |
|
HMEC 48RT8X Intermediate
|
HMEC
|
cell type: mammary epithelial cell
individual: 48
passage: 8p
growth status: Intermediate-Prestasis
|
Human Cell Lines
|
| Sample_geo_accession | GSM402218
| | Sample_status | Public on May 12 2010
| | Sample_submission_date | May 12 2009
| | Sample_last_update_date | May 12 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell cultures grown in the indicated media were harvested and different points in their growth from early passage good growing to near stasis, agonescence, or senescence.
| | Sample_growth_protocol_ch1 | Finite life span HMEC and HMFC from Specimens 184, 48 and 240L were obtained from reduction mammoplasty tissue of women aged 21, 16, and 19 respectively. HMEC were grown starting from organoids in either serum free MCDB170 medium, or the serum-containing M85+CT±X medium described in this publication. HMFC were grown in DME/F12+FCS+I
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cell were lysed with trizol reagent (Invitrogen) according manufacturer's protocol. RNA was resuspended in 100 µl nuclease free water and subject to a second step purification on ion exchange column (Qiagen)
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | For each sample, the RNA target is prepared by annealing 2.0µg of total RNA in 5µl water with 5µl of 10µM T7 (Oligo dt) primer. First and second strand cDNA synthesis is performed and the cDNA products purified using magnetic beads. Labeled cRNA is synthesized from the cDNA using T7 RNA polymerase followed by clean-up with magnetic beads. Purified cRNA is quantitated and fragmented.
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HT_HG-U133A Array. GeneChips were 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 | Raw probe level intensities were processed for background correction, normalization and summarization using Probel level linear (PLM) model in LIMMA module(v.2.16.3) of Bioconductor package.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Sanchita,,Bhattacharya
| | Sample_contact_email | SBhattacharya@lbl.gov
| | Sample_contact_phone | 510-486-6881
| | Sample_contact_institute | MIT
| | Sample_contact_address | 1 Cyclotron Rd
| | Sample_contact_city | Berkely
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94720
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM402nnn/GSM402218/suppl/GSM402218.CEL.gz
| | Sample_series_id | GSE16058
| | Sample_data_row_count | 22277
| | |
|
GSM402219 | GPL3921 |
|
HMEC 48RT10X Intermediate
|
HMEC
|
cell type: mammary epithelial cell
individual: 48
passage: 10p
growth status: Intermediate-Prestasis
|
Human Cell Lines
|
| Sample_geo_accession | GSM402219
| | Sample_status | Public on May 12 2010
| | Sample_submission_date | May 12 2009
| | Sample_last_update_date | May 12 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell cultures grown in the indicated media were harvested and different points in their growth from early passage good growing to near stasis, agonescence, or senescence.
| | Sample_growth_protocol_ch1 | Finite life span HMEC and HMFC from Specimens 184, 48 and 240L were obtained from reduction mammoplasty tissue of women aged 21, 16, and 19 respectively. HMEC were grown starting from organoids in either serum free MCDB170 medium, or the serum-containing M85+CT±X medium described in this publication. HMFC were grown in DME/F12+FCS+I
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cell were lysed with trizol reagent (Invitrogen) according manufacturer's protocol. RNA was resuspended in 100 µl nuclease free water and subject to a second step purification on ion exchange column (Qiagen)
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | For each sample, the RNA target is prepared by annealing 2.0µg of total RNA in 5µl water with 5µl of 10µM T7 (Oligo dt) primer. First and second strand cDNA synthesis is performed and the cDNA products purified using magnetic beads. Labeled cRNA is synthesized from the cDNA using T7 RNA polymerase followed by clean-up with magnetic beads. Purified cRNA is quantitated and fragmented.
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HT_HG-U133A Array. GeneChips were 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 | Raw probe level intensities were processed for background correction, normalization and summarization using Probel level linear (PLM) model in LIMMA module(v.2.16.3) of Bioconductor package.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Sanchita,,Bhattacharya
| | Sample_contact_email | SBhattacharya@lbl.gov
| | Sample_contact_phone | 510-486-6881
| | Sample_contact_institute | MIT
| | Sample_contact_address | 1 Cyclotron Rd
| | Sample_contact_city | Berkely
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94720
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM402nnn/GSM402219/suppl/GSM402219.CEL.gz
| | Sample_series_id | GSE16058
| | Sample_data_row_count | 22277
| | |
|
GSM402220 | GPL3921 |
|
HMEC 48RT12X Intermediate
|
HMEC
|
cell type: mammary epithelial cell
individual: 48
passage: 12p
growth status: Intermediate-Prestasis
|
Human Cell Lines
|
| Sample_geo_accession | GSM402220
| | Sample_status | Public on May 12 2010
| | Sample_submission_date | May 12 2009
| | Sample_last_update_date | May 12 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell cultures grown in the indicated media were harvested and different points in their growth from early passage good growing to near stasis, agonescence, or senescence.
| | Sample_growth_protocol_ch1 | Finite life span HMEC and HMFC from Specimens 184, 48 and 240L were obtained from reduction mammoplasty tissue of women aged 21, 16, and 19 respectively. HMEC were grown starting from organoids in either serum free MCDB170 medium, or the serum-containing M85+CT±X medium described in this publication. HMFC were grown in DME/F12+FCS+I
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cell were lysed with trizol reagent (Invitrogen) according manufacturer's protocol. RNA was resuspended in 100 µl nuclease free water and subject to a second step purification on ion exchange column (Qiagen)
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | For each sample, the RNA target is prepared by annealing 2.0µg of total RNA in 5µl water with 5µl of 10µM T7 (Oligo dt) primer. First and second strand cDNA synthesis is performed and the cDNA products purified using magnetic beads. Labeled cRNA is synthesized from the cDNA using T7 RNA polymerase followed by clean-up with magnetic beads. Purified cRNA is quantitated and fragmented.
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HT_HG-U133A Array. GeneChips were 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 | Raw probe level intensities were processed for background correction, normalization and summarization using Probel level linear (PLM) model in LIMMA module(v.2.16.3) of Bioconductor package.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Sanchita,,Bhattacharya
| | Sample_contact_email | SBhattacharya@lbl.gov
| | Sample_contact_phone | 510-486-6881
| | Sample_contact_institute | MIT
| | Sample_contact_address | 1 Cyclotron Rd
| | Sample_contact_city | Berkely
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94720
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM402nnn/GSM402220/suppl/GSM402220.CEL.gz
| | Sample_series_id | GSE16058
| | Sample_data_row_count | 22277
| | |
|
GSM402221 | GPL3921 |
|
HMEC 48RT15X Stasis
|
HMEC
|
cell type: mammary epithelial cell
individual: 48
passage: 15p
growth status: Stasis
|
Human Cell Lines
|
| Sample_geo_accession | GSM402221
| | Sample_status | Public on May 12 2010
| | Sample_submission_date | May 12 2009
| | Sample_last_update_date | May 12 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell cultures grown in the indicated media were harvested and different points in their growth from early passage good growing to near stasis, agonescence, or senescence.
| | Sample_growth_protocol_ch1 | Finite life span HMEC and HMFC from Specimens 184, 48 and 240L were obtained from reduction mammoplasty tissue of women aged 21, 16, and 19 respectively. HMEC were grown starting from organoids in either serum free MCDB170 medium, or the serum-containing M85+CT±X medium described in this publication. HMFC were grown in DME/F12+FCS+I
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cell were lysed with trizol reagent (Invitrogen) according manufacturer's protocol. RNA was resuspended in 100 µl nuclease free water and subject to a second step purification on ion exchange column (Qiagen)
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | For each sample, the RNA target is prepared by annealing 2.0µg of total RNA in 5µl water with 5µl of 10µM T7 (Oligo dt) primer. First and second strand cDNA synthesis is performed and the cDNA products purified using magnetic beads. Labeled cRNA is synthesized from the cDNA using T7 RNA polymerase followed by clean-up with magnetic beads. Purified cRNA is quantitated and fragmented.
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HT_HG-U133A Array. GeneChips were 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 | Raw probe level intensities were processed for background correction, normalization and summarization using Probel level linear (PLM) model in LIMMA module(v.2.16.3) of Bioconductor package.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Sanchita,,Bhattacharya
| | Sample_contact_email | SBhattacharya@lbl.gov
| | Sample_contact_phone | 510-486-6881
| | Sample_contact_institute | MIT
| | Sample_contact_address | 1 Cyclotron Rd
| | Sample_contact_city | Berkely
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94720
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM402nnn/GSM402221/suppl/GSM402221.CEL.gz
| | Sample_series_id | GSE16058
| | Sample_data_row_count | 22277
| | |
|
GSM402222 | GPL3921 |
|
HMEC 48RT16X Stasis
|
HMEC
|
cell type: mammary epithelial cell
individual: 48
passage: 16p
growth status: Stasis
|
Human Cell Lines
|
| Sample_geo_accession | GSM402222
| | Sample_status | Public on May 12 2010
| | Sample_submission_date | May 12 2009
| | Sample_last_update_date | May 12 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell cultures grown in the indicated media were harvested and different points in their growth from early passage good growing to near stasis, agonescence, or senescence.
| | Sample_growth_protocol_ch1 | Finite life span HMEC and HMFC from Specimens 184, 48 and 240L were obtained from reduction mammoplasty tissue of women aged 21, 16, and 19 respectively. HMEC were grown starting from organoids in either serum free MCDB170 medium, or the serum-containing M85+CT±X medium described in this publication. HMFC were grown in DME/F12+FCS+I
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cell were lysed with trizol reagent (Invitrogen) according manufacturer's protocol. RNA was resuspended in 100 µl nuclease free water and subject to a second step purification on ion exchange column (Qiagen)
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | For each sample, the RNA target is prepared by annealing 2.0µg of total RNA in 5µl water with 5µl of 10µM T7 (Oligo dt) primer. First and second strand cDNA synthesis is performed and the cDNA products purified using magnetic beads. Labeled cRNA is synthesized from the cDNA using T7 RNA polymerase followed by clean-up with magnetic beads. Purified cRNA is quantitated and fragmented.
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HT_HG-U133A Array. GeneChips were 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 | Raw probe level intensities were processed for background correction, normalization and summarization using Probel level linear (PLM) model in LIMMA module(v.2.16.3) of Bioconductor package.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Sanchita,,Bhattacharya
| | Sample_contact_email | SBhattacharya@lbl.gov
| | Sample_contact_phone | 510-486-6881
| | Sample_contact_institute | MIT
| | Sample_contact_address | 1 Cyclotron Rd
| | Sample_contact_city | Berkely
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94720
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM402nnn/GSM402222/suppl/GSM402222.CEL.gz
| | Sample_series_id | GSE16058
| | Sample_data_row_count | 22277
| | |
|
GSM402223 | GPL3921 |
|
HMEC 240L2X Prestasis
|
HMEC
|
cell type: mammary epithelial cell
individual: 240L
passage: 2p
growth status: Growing-Prestasis
|
Human Cell Lines
|
| Sample_geo_accession | GSM402223
| | Sample_status | Public on May 12 2010
| | Sample_submission_date | May 12 2009
| | Sample_last_update_date | May 12 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell cultures grown in the indicated media were harvested and different points in their growth from early passage good growing to near stasis, agonescence, or senescence.
| | Sample_growth_protocol_ch1 | Finite life span HMEC and HMFC from Specimens 184, 48 and 240L were obtained from reduction mammoplasty tissue of women aged 21, 16, and 19 respectively. HMEC were grown starting from organoids in either serum free MCDB170 medium, or the serum-containing M85+CT±X medium described in this publication. HMFC were grown in DME/F12+FCS+I
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cell were lysed with trizol reagent (Invitrogen) according manufacturer's protocol. RNA was resuspended in 100 µl nuclease free water and subject to a second step purification on ion exchange column (Qiagen)
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | For each sample, the RNA target is prepared by annealing 2.0µg of total RNA in 5µl water with 5µl of 10µM T7 (Oligo dt) primer. First and second strand cDNA synthesis is performed and the cDNA products purified using magnetic beads. Labeled cRNA is synthesized from the cDNA using T7 RNA polymerase followed by clean-up with magnetic beads. Purified cRNA is quantitated and fragmented.
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HT_HG-U133A Array. GeneChips were 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 | Raw probe level intensities were processed for background correction, normalization and summarization using Probel level linear (PLM) model in LIMMA module(v.2.16.3) of Bioconductor package.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Sanchita,,Bhattacharya
| | Sample_contact_email | SBhattacharya@lbl.gov
| | Sample_contact_phone | 510-486-6881
| | Sample_contact_institute | MIT
| | Sample_contact_address | 1 Cyclotron Rd
| | Sample_contact_city | Berkely
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94720
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM402nnn/GSM402223/suppl/GSM402223.CEL.gz
| | Sample_series_id | GSE16058
| | Sample_data_row_count | 22277
| | |
|
GSM402224 | GPL3921 |
|
HMEC 240L5X Prestasis
|
HMEC
|
cell type: mammary epithelial cell
individual: 240L
passage: 5p
growth status: Growing-Prestasis
|
Human Cell Lines
|
| Sample_geo_accession | GSM402224
| | Sample_status | Public on May 12 2010
| | Sample_submission_date | May 12 2009
| | Sample_last_update_date | May 12 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell cultures grown in the indicated media were harvested and different points in their growth from early passage good growing to near stasis, agonescence, or senescence.
| | Sample_growth_protocol_ch1 | Finite life span HMEC and HMFC from Specimens 184, 48 and 240L were obtained from reduction mammoplasty tissue of women aged 21, 16, and 19 respectively. HMEC were grown starting from organoids in either serum free MCDB170 medium, or the serum-containing M85+CT±X medium described in this publication. HMFC were grown in DME/F12+FCS+I
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cell were lysed with trizol reagent (Invitrogen) according manufacturer's protocol. RNA was resuspended in 100 µl nuclease free water and subject to a second step purification on ion exchange column (Qiagen)
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | For each sample, the RNA target is prepared by annealing 2.0µg of total RNA in 5µl water with 5µl of 10µM T7 (Oligo dt) primer. First and second strand cDNA synthesis is performed and the cDNA products purified using magnetic beads. Labeled cRNA is synthesized from the cDNA using T7 RNA polymerase followed by clean-up with magnetic beads. Purified cRNA is quantitated and fragmented.
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HT_HG-U133A Array. GeneChips were 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 | Raw probe level intensities were processed for background correction, normalization and summarization using Probel level linear (PLM) model in LIMMA module(v.2.16.3) of Bioconductor package.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Sanchita,,Bhattacharya
| | Sample_contact_email | SBhattacharya@lbl.gov
| | Sample_contact_phone | 510-486-6881
| | Sample_contact_institute | MIT
| | Sample_contact_address | 1 Cyclotron Rd
| | Sample_contact_city | Berkely
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94720
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM402nnn/GSM402224/suppl/GSM402224.CEL.gz
| | Sample_series_id | GSE16058
| | Sample_data_row_count | 22277
| | |
|
GSM402225 | GPL3921 |
|
HMEC 240L8X Intermediate
|
HMEC
|
cell type: mammary epithelial cell
individual: 240L
passage: 8p
growth status: Intermediate-Prestasis
|
Human Cell Lines
|
| Sample_geo_accession | GSM402225
| | Sample_status | Public on May 12 2010
| | Sample_submission_date | May 12 2009
| | Sample_last_update_date | May 12 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell cultures grown in the indicated media were harvested and different points in their growth from early passage good growing to near stasis, agonescence, or senescence.
| | Sample_growth_protocol_ch1 | Finite life span HMEC and HMFC from Specimens 184, 48 and 240L were obtained from reduction mammoplasty tissue of women aged 21, 16, and 19 respectively. HMEC were grown starting from organoids in either serum free MCDB170 medium, or the serum-containing M85+CT±X medium described in this publication. HMFC were grown in DME/F12+FCS+I
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cell were lysed with trizol reagent (Invitrogen) according manufacturer's protocol. RNA was resuspended in 100 µl nuclease free water and subject to a second step purification on ion exchange column (Qiagen)
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | For each sample, the RNA target is prepared by annealing 2.0µg of total RNA in 5µl water with 5µl of 10µM T7 (Oligo dt) primer. First and second strand cDNA synthesis is performed and the cDNA products purified using magnetic beads. Labeled cRNA is synthesized from the cDNA using T7 RNA polymerase followed by clean-up with magnetic beads. Purified cRNA is quantitated and fragmented.
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HT_HG-U133A Array. GeneChips were 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 | Raw probe level intensities were processed for background correction, normalization and summarization using Probel level linear (PLM) model in LIMMA module(v.2.16.3) of Bioconductor package.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Sanchita,,Bhattacharya
| | Sample_contact_email | SBhattacharya@lbl.gov
| | Sample_contact_phone | 510-486-6881
| | Sample_contact_institute | MIT
| | Sample_contact_address | 1 Cyclotron Rd
| | Sample_contact_city | Berkely
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94720
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM402nnn/GSM402225/suppl/GSM402225.CEL.gz
| | Sample_series_id | GSE16058
| | Sample_data_row_count | 22277
| | |
|
GSM402226 | GPL3921 |
|
HMEC 240L10X Stasis
|
HMEC
|
cell type: mammary epithelial cell
individual: 240L
passage: 10p
growth status: Stasis
|
Human Cell Lines
|
| Sample_geo_accession | GSM402226
| | Sample_status | Public on May 12 2010
| | Sample_submission_date | May 12 2009
| | Sample_last_update_date | May 12 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell cultures grown in the indicated media were harvested and different points in their growth from early passage good growing to near stasis, agonescence, or senescence.
| | Sample_growth_protocol_ch1 | Finite life span HMEC and HMFC from Specimens 184, 48 and 240L were obtained from reduction mammoplasty tissue of women aged 21, 16, and 19 respectively. HMEC were grown starting from organoids in either serum free MCDB170 medium, or the serum-containing M85+CT±X medium described in this publication. HMFC were grown in DME/F12+FCS+I
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cell were lysed with trizol reagent (Invitrogen) according manufacturer's protocol. RNA was resuspended in 100 µl nuclease free water and subject to a second step purification on ion exchange column (Qiagen)
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | For each sample, the RNA target is prepared by annealing 2.0µg of total RNA in 5µl water with 5µl of 10µM T7 (Oligo dt) primer. First and second strand cDNA synthesis is performed and the cDNA products purified using magnetic beads. Labeled cRNA is synthesized from the cDNA using T7 RNA polymerase followed by clean-up with magnetic beads. Purified cRNA is quantitated and fragmented.
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HT_HG-U133A Array. GeneChips were 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 | Raw probe level intensities were processed for background correction, normalization and summarization using Probel level linear (PLM) model in LIMMA module(v.2.16.3) of Bioconductor package.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Sanchita,,Bhattacharya
| | Sample_contact_email | SBhattacharya@lbl.gov
| | Sample_contact_phone | 510-486-6881
| | Sample_contact_institute | MIT
| | Sample_contact_address | 1 Cyclotron Rd
| | Sample_contact_city | Berkely
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94720
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM402nnn/GSM402226/suppl/GSM402226.CEL.gz
| | Sample_series_id | GSE16058
| | Sample_data_row_count | 22277
| | |
|
GSM402227 | GPL3921 |
|
HMEC 240L11X Stasis
|
HMEC
|
cell type: mammary epithelial cell
individual: 240L
passage: 11p
growth status: Stasis
|
Human Cell Lines
|
| Sample_geo_accession | GSM402227
| | Sample_status | Public on May 12 2010
| | Sample_submission_date | May 12 2009
| | Sample_last_update_date | May 12 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell cultures grown in the indicated media were harvested and different points in their growth from early passage good growing to near stasis, agonescence, or senescence.
| | Sample_growth_protocol_ch1 | Finite life span HMEC and HMFC from Specimens 184, 48 and 240L were obtained from reduction mammoplasty tissue of women aged 21, 16, and 19 respectively. HMEC were grown starting from organoids in either serum free MCDB170 medium, or the serum-containing M85+CT±X medium described in this publication. HMFC were grown in DME/F12+FCS+I
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cell were lysed with trizol reagent (Invitrogen) according manufacturer's protocol. RNA was resuspended in 100 µl nuclease free water and subject to a second step purification on ion exchange column (Qiagen)
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | For each sample, the RNA target is prepared by annealing 2.0µg of total RNA in 5µl water with 5µl of 10µM T7 (Oligo dt) primer. First and second strand cDNA synthesis is performed and the cDNA products purified using magnetic beads. Labeled cRNA is synthesized from the cDNA using T7 RNA polymerase followed by clean-up with magnetic beads. Purified cRNA is quantitated and fragmented.
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HT_HG-U133A Array. GeneChips were 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 | Raw probe level intensities were processed for background correction, normalization and summarization using Probel level linear (PLM) model in LIMMA module(v.2.16.3) of Bioconductor package.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Sanchita,,Bhattacharya
| | Sample_contact_email | SBhattacharya@lbl.gov
| | Sample_contact_phone | 510-486-6881
| | Sample_contact_institute | MIT
| | Sample_contact_address | 1 Cyclotron Rd
| | Sample_contact_city | Berkely
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94720
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM402nnn/GSM402227/suppl/GSM402227.CEL.gz
| | Sample_series_id | GSE16058
| | Sample_data_row_count | 22277
| | |
|
GSM402228 | GPL3921 |
|
HMEC 240L5 Postselection
|
HMEC
|
cell type: mammary epithelial cell
individual: 240L
passage: 5p
growth status: Growing-Postselection
|
Human Cell Lines
|
| Sample_geo_accession | GSM402228
| | Sample_status | Public on May 12 2010
| | Sample_submission_date | May 12 2009
| | Sample_last_update_date | May 12 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell cultures grown in the indicated media were harvested and different points in their growth from early passage good growing to near stasis, agonescence, or senescence.
| | Sample_growth_protocol_ch1 | Finite life span HMEC and HMFC from Specimens 184, 48 and 240L were obtained from reduction mammoplasty tissue of women aged 21, 16, and 19 respectively. HMEC were grown starting from organoids in either serum free MCDB170 medium, or the serum-containing M85+CT±X medium described in this publication. HMFC were grown in DME/F12+FCS+I
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cell were lysed with trizol reagent (Invitrogen) according manufacturer's protocol. RNA was resuspended in 100 µl nuclease free water and subject to a second step purification on ion exchange column (Qiagen)
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | For each sample, the RNA target is prepared by annealing 2.0µg of total RNA in 5µl water with 5µl of 10µM T7 (Oligo dt) primer. First and second strand cDNA synthesis is performed and the cDNA products purified using magnetic beads. Labeled cRNA is synthesized from the cDNA using T7 RNA polymerase followed by clean-up with magnetic beads. Purified cRNA is quantitated and fragmented.
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HT_HG-U133A Array. GeneChips were 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 | Raw probe level intensities were processed for background correction, normalization and summarization using Probel level linear (PLM) model in LIMMA module(v.2.16.3) of Bioconductor package.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Sanchita,,Bhattacharya
| | Sample_contact_email | SBhattacharya@lbl.gov
| | Sample_contact_phone | 510-486-6881
| | Sample_contact_institute | MIT
| | Sample_contact_address | 1 Cyclotron Rd
| | Sample_contact_city | Berkely
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94720
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM402nnn/GSM402228/suppl/GSM402228.CEL.gz
| | Sample_series_id | GSE16058
| | Sample_data_row_count | 22277
| | |
|
GSM402229 | GPL3921 |
|
HMEC 240L6 Postselection
|
HMEC
|
cell type: mammary epithelial cell
individual: 240L
passage: 6p
growth status: Growing-Postselection
|
Human Cell Lines
|
| Sample_geo_accession | GSM402229
| | Sample_status | Public on May 12 2010
| | Sample_submission_date | May 12 2009
| | Sample_last_update_date | May 12 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell cultures grown in the indicated media were harvested and different points in their growth from early passage good growing to near stasis, agonescence, or senescence.
| | Sample_growth_protocol_ch1 | Finite life span HMEC and HMFC from Specimens 184, 48 and 240L were obtained from reduction mammoplasty tissue of women aged 21, 16, and 19 respectively. HMEC were grown starting from organoids in either serum free MCDB170 medium, or the serum-containing M85+CT±X medium described in this publication. HMFC were grown in DME/F12+FCS+I
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cell were lysed with trizol reagent (Invitrogen) according manufacturer's protocol. RNA was resuspended in 100 µl nuclease free water and subject to a second step purification on ion exchange column (Qiagen)
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | For each sample, the RNA target is prepared by annealing 2.0µg of total RNA in 5µl water with 5µl of 10µM T7 (Oligo dt) primer. First and second strand cDNA synthesis is performed and the cDNA products purified using magnetic beads. Labeled cRNA is synthesized from the cDNA using T7 RNA polymerase followed by clean-up with magnetic beads. Purified cRNA is quantitated and fragmented.
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HT_HG-U133A Array. GeneChips were 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 | Raw probe level intensities were processed for background correction, normalization and summarization using Probel level linear (PLM) model in LIMMA module(v.2.16.3) of Bioconductor package.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Sanchita,,Bhattacharya
| | Sample_contact_email | SBhattacharya@lbl.gov
| | Sample_contact_phone | 510-486-6881
| | Sample_contact_institute | MIT
| | Sample_contact_address | 1 Cyclotron Rd
| | Sample_contact_city | Berkely
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94720
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM402nnn/GSM402229/suppl/GSM402229.CEL.gz
| | Sample_series_id | GSE16058
| | Sample_data_row_count | 22277
| | |
|
GSM402230 | GPL3921 |
|
HMEC 250MK3pM85X.1 Prestasis
|
HMEC
|
cell type: mammary epithelial cell
individual: 250MK
passage: 3p
growth status: Growing-Prestasis
|
Human Cell Lines
|
| Sample_geo_accession | GSM402230
| | Sample_status | Public on May 12 2010
| | Sample_submission_date | May 12 2009
| | Sample_last_update_date | May 12 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell cultures grown in the indicated media were harvested and different points in their growth from early passage good growing to near stasis, agonescence, or senescence.
| | Sample_growth_protocol_ch1 | Finite life span HMEC and HMFC from Specimens 184, 48 and 240L were obtained from reduction mammoplasty tissue of women aged 21, 16, and 19 respectively. HMEC were grown starting from organoids in either serum free MCDB170 medium, or the serum-containing M85+CT±X medium described in this publication. HMFC were grown in DME/F12+FCS+I
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cell were lysed with trizol reagent (Invitrogen) according manufacturer's protocol. RNA was resuspended in 100 µl nuclease free water and subject to a second step purification on ion exchange column (Qiagen)
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | For each sample, the RNA target is prepared by annealing 2.0µg of total RNA in 5µl water with 5µl of 10µM T7 (Oligo dt) primer. First and second strand cDNA synthesis is performed and the cDNA products purified using magnetic beads. Labeled cRNA is synthesized from the cDNA using T7 RNA polymerase followed by clean-up with magnetic beads. Purified cRNA is quantitated and fragmented.
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HT_HG-U133A Array. GeneChips were 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 | Raw probe level intensities were processed for background correction, normalization and summarization using Probel level linear (PLM) model in LIMMA module(v.2.16.3) of Bioconductor package.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Sanchita,,Bhattacharya
| | Sample_contact_email | SBhattacharya@lbl.gov
| | Sample_contact_phone | 510-486-6881
| | Sample_contact_institute | MIT
| | Sample_contact_address | 1 Cyclotron Rd
| | Sample_contact_city | Berkely
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94720
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM402nnn/GSM402230/suppl/GSM402230.CEL.gz
| | Sample_series_id | GSE16058
| | Sample_data_row_count | 22277
| | |
|
GSM402231 | GPL3921 |
|
HMEC 250MK4pM85X.1 Prestasis
|
HMEC
|
cell type: mammary epithelial cell
individual: 250MK
passage: 4p
growth status: Growing-Prestasis
|
Human Cell Lines
|
| Sample_geo_accession | GSM402231
| | Sample_status | Public on May 12 2010
| | Sample_submission_date | May 12 2009
| | Sample_last_update_date | May 12 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell cultures grown in the indicated media were harvested and different points in their growth from early passage good growing to near stasis, agonescence, or senescence.
| | Sample_growth_protocol_ch1 | Finite life span HMEC and HMFC from Specimens 184, 48 and 240L were obtained from reduction mammoplasty tissue of women aged 21, 16, and 19 respectively. HMEC were grown starting from organoids in either serum free MCDB170 medium, or the serum-containing M85+CT±X medium described in this publication. HMFC were grown in DME/F12+FCS+I
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cell were lysed with trizol reagent (Invitrogen) according manufacturer's protocol. RNA was resuspended in 100 µl nuclease free water and subject to a second step purification on ion exchange column (Qiagen)
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | For each sample, the RNA target is prepared by annealing 2.0µg of total RNA in 5µl water with 5µl of 10µM T7 (Oligo dt) primer. First and second strand cDNA synthesis is performed and the cDNA products purified using magnetic beads. Labeled cRNA is synthesized from the cDNA using T7 RNA polymerase followed by clean-up with magnetic beads. Purified cRNA is quantitated and fragmented.
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HT_HG-U133A Array. GeneChips were 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 | Raw probe level intensities were processed for background correction, normalization and summarization using Probel level linear (PLM) model in LIMMA module(v.2.16.3) of Bioconductor package.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Sanchita,,Bhattacharya
| | Sample_contact_email | SBhattacharya@lbl.gov
| | Sample_contact_phone | 510-486-6881
| | Sample_contact_institute | MIT
| | Sample_contact_address | 1 Cyclotron Rd
| | Sample_contact_city | Berkely
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94720
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM402nnn/GSM402231/suppl/GSM402231.CEL.gz
| | Sample_series_id | GSE16058
| | Sample_data_row_count | 22277
| | |
|
GSM402232 | GPL3921 |
|
HMFC 184Fb7p.1 Prestasis
|
HMFC
|
cell type: mammary fibroblast cell
individual: 184
passage: 7p
growth status: Growing
|
Human Cell Lines
|
| Sample_geo_accession | GSM402232
| | Sample_status | Public on May 12 2010
| | Sample_submission_date | May 12 2009
| | Sample_last_update_date | May 12 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell cultures grown in the indicated media were harvested and different points in their growth from early passage good growing to near stasis, agonescence, or senescence.
| | Sample_growth_protocol_ch1 | Finite life span HMEC and HMFC from Specimens 184, 48 and 240L were obtained from reduction mammoplasty tissue of women aged 21, 16, and 19 respectively. HMEC were grown starting from organoids in either serum free MCDB170 medium, or the serum-containing M85+CT±X medium described in this publication. HMFC were grown in DME/F12+FCS+I
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cell were lysed with trizol reagent (Invitrogen) according manufacturer's protocol. RNA was resuspended in 100 µl nuclease free water and subject to a second step purification on ion exchange column (Qiagen)
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | For each sample, the RNA target is prepared by annealing 2.0µg of total RNA in 5µl water with 5µl of 10µM T7 (Oligo dt) primer. First and second strand cDNA synthesis is performed and the cDNA products purified using magnetic beads. Labeled cRNA is synthesized from the cDNA using T7 RNA polymerase followed by clean-up with magnetic beads. Purified cRNA is quantitated and fragmented.
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HT_HG-U133A Array. GeneChips were 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 | Raw probe level intensities were processed for background correction, normalization and summarization using Probel level linear (PLM) model in LIMMA module(v.2.16.3) of Bioconductor package.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Sanchita,,Bhattacharya
| | Sample_contact_email | SBhattacharya@lbl.gov
| | Sample_contact_phone | 510-486-6881
| | Sample_contact_institute | MIT
| | Sample_contact_address | 1 Cyclotron Rd
| | Sample_contact_city | Berkely
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94720
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM402nnn/GSM402232/suppl/GSM402232.CEL.gz
| | Sample_series_id | GSE16058
| | Sample_data_row_count | 22277
| | |
|
GSM402233 | GPL3921 |
|
HMFC 184Fb7p.2 Prestasis
|
HMFC
|
cell type: mammary fibroblast cell
individual: 184
passage: 7p
growth status: Growing
|
Human Cell Lines
|
| Sample_geo_accession | GSM402233
| | Sample_status | Public on May 12 2010
| | Sample_submission_date | May 12 2009
| | Sample_last_update_date | May 12 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell cultures grown in the indicated media were harvested and different points in their growth from early passage good growing to near stasis, agonescence, or senescence.
| | Sample_growth_protocol_ch1 | Finite life span HMEC and HMFC from Specimens 184, 48 and 240L were obtained from reduction mammoplasty tissue of women aged 21, 16, and 19 respectively. HMEC were grown starting from organoids in either serum free MCDB170 medium, or the serum-containing M85+CT±X medium described in this publication. HMFC were grown in DME/F12+FCS+I
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cell were lysed with trizol reagent (Invitrogen) according manufacturer's protocol. RNA was resuspended in 100 µl nuclease free water and subject to a second step purification on ion exchange column (Qiagen)
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | For each sample, the RNA target is prepared by annealing 2.0µg of total RNA in 5µl water with 5µl of 10µM T7 (Oligo dt) primer. First and second strand cDNA synthesis is performed and the cDNA products purified using magnetic beads. Labeled cRNA is synthesized from the cDNA using T7 RNA polymerase followed by clean-up with magnetic beads. Purified cRNA is quantitated and fragmented.
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HT_HG-U133A Array. GeneChips were 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 | Raw probe level intensities were processed for background correction, normalization and summarization using Probel level linear (PLM) model in LIMMA module(v.2.16.3) of Bioconductor package.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Sanchita,,Bhattacharya
| | Sample_contact_email | SBhattacharya@lbl.gov
| | Sample_contact_phone | 510-486-6881
| | Sample_contact_institute | MIT
| | Sample_contact_address | 1 Cyclotron Rd
| | Sample_contact_city | Berkely
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94720
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM402nnn/GSM402233/suppl/GSM402233.CEL.gz
| | Sample_series_id | GSE16058
| | Sample_data_row_count | 22277
| | |
|
GSM402234 | GPL3921 |
|
HMFC 184Fb15p.1 Senescent
|
HMFC
|
cell type: mammary fibroblast cell
individual: 184
passage: 15p
growth status: Senescent
|
Human Cell Lines
|
| Sample_geo_accession | GSM402234
| | Sample_status | Public on May 12 2010
| | Sample_submission_date | May 12 2009
| | Sample_last_update_date | May 12 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell cultures grown in the indicated media were harvested and different points in their growth from early passage good growing to near stasis, agonescence, or senescence.
| | Sample_growth_protocol_ch1 | Finite life span HMEC and HMFC from Specimens 184, 48 and 240L were obtained from reduction mammoplasty tissue of women aged 21, 16, and 19 respectively. HMEC were grown starting from organoids in either serum free MCDB170 medium, or the serum-containing M85+CT±X medium described in this publication. HMFC were grown in DME/F12+FCS+I
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cell were lysed with trizol reagent (Invitrogen) according manufacturer's protocol. RNA was resuspended in 100 µl nuclease free water and subject to a second step purification on ion exchange column (Qiagen)
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | For each sample, the RNA target is prepared by annealing 2.0µg of total RNA in 5µl water with 5µl of 10µM T7 (Oligo dt) primer. First and second strand cDNA synthesis is performed and the cDNA products purified using magnetic beads. Labeled cRNA is synthesized from the cDNA using T7 RNA polymerase followed by clean-up with magnetic beads. Purified cRNA is quantitated and fragmented.
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HT_HG-U133A Array. GeneChips were 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 | Raw probe level intensities were processed for background correction, normalization and summarization using Probel level linear (PLM) model in LIMMA module(v.2.16.3) of Bioconductor package.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Sanchita,,Bhattacharya
| | Sample_contact_email | SBhattacharya@lbl.gov
| | Sample_contact_phone | 510-486-6881
| | Sample_contact_institute | MIT
| | Sample_contact_address | 1 Cyclotron Rd
| | Sample_contact_city | Berkely
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94720
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM402nnn/GSM402234/suppl/GSM402234.CEL.gz
| | Sample_series_id | GSE16058
| | Sample_data_row_count | 22277
| | |
|
GSM402235 | GPL3921 |
|
HMFC 184Fb15p.2 Senescent
|
HMFC
|
cell type: mammary fibroblast cell
individual: 184
passage: 15p
growth status: Senescent
|
Human Cell Lines
|
| Sample_geo_accession | GSM402235
| | Sample_status | Public on May 12 2010
| | Sample_submission_date | May 12 2009
| | Sample_last_update_date | May 12 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell cultures grown in the indicated media were harvested and different points in their growth from early passage good growing to near stasis, agonescence, or senescence.
| | Sample_growth_protocol_ch1 | Finite life span HMEC and HMFC from Specimens 184, 48 and 240L were obtained from reduction mammoplasty tissue of women aged 21, 16, and 19 respectively. HMEC were grown starting from organoids in either serum free MCDB170 medium, or the serum-containing M85+CT±X medium described in this publication. HMFC were grown in DME/F12+FCS+I
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cell were lysed with trizol reagent (Invitrogen) according manufacturer's protocol. RNA was resuspended in 100 µl nuclease free water and subject to a second step purification on ion exchange column (Qiagen)
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | For each sample, the RNA target is prepared by annealing 2.0µg of total RNA in 5µl water with 5µl of 10µM T7 (Oligo dt) primer. First and second strand cDNA synthesis is performed and the cDNA products purified using magnetic beads. Labeled cRNA is synthesized from the cDNA using T7 RNA polymerase followed by clean-up with magnetic beads. Purified cRNA is quantitated and fragmented.
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HT_HG-U133A Array. GeneChips were 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 | Raw probe level intensities were processed for background correction, normalization and summarization using Probel level linear (PLM) model in LIMMA module(v.2.16.3) of Bioconductor package.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Sanchita,,Bhattacharya
| | Sample_contact_email | SBhattacharya@lbl.gov
| | Sample_contact_phone | 510-486-6881
| | Sample_contact_institute | MIT
| | Sample_contact_address | 1 Cyclotron Rd
| | Sample_contact_city | Berkely
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94720
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM402nnn/GSM402235/suppl/GSM402235.CEL.gz
| | Sample_series_id | GSE16058
| | Sample_data_row_count | 22277
| | |
|
GSM402236 | GPL3921 |
|
HMFC 48Fb6p.2 Prestasis
|
HMFC
|
cell type: mammary fibroblast cell
individual: 48
passage: 6p
growth status: Growing
|
Human Cell Lines
|
| Sample_geo_accession | GSM402236
| | Sample_status | Public on May 12 2010
| | Sample_submission_date | May 12 2009
| | Sample_last_update_date | May 12 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell cultures grown in the indicated media were harvested and different points in their growth from early passage good growing to near stasis, agonescence, or senescence.
| | Sample_growth_protocol_ch1 | Finite life span HMEC and HMFC from Specimens 184, 48 and 240L were obtained from reduction mammoplasty tissue of women aged 21, 16, and 19 respectively. HMEC were grown starting from organoids in either serum free MCDB170 medium, or the serum-containing M85+CT±X medium described in this publication. HMFC were grown in DME/F12+FCS+I
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cell were lysed with trizol reagent (Invitrogen) according manufacturer's protocol. RNA was resuspended in 100 µl nuclease free water and subject to a second step purification on ion exchange column (Qiagen)
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | For each sample, the RNA target is prepared by annealing 2.0µg of total RNA in 5µl water with 5µl of 10µM T7 (Oligo dt) primer. First and second strand cDNA synthesis is performed and the cDNA products purified using magnetic beads. Labeled cRNA is synthesized from the cDNA using T7 RNA polymerase followed by clean-up with magnetic beads. Purified cRNA is quantitated and fragmented.
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HT_HG-U133A Array. GeneChips were 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 | Raw probe level intensities were processed for background correction, normalization and summarization using Probel level linear (PLM) model in LIMMA module(v.2.16.3) of Bioconductor package.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Sanchita,,Bhattacharya
| | Sample_contact_email | SBhattacharya@lbl.gov
| | Sample_contact_phone | 510-486-6881
| | Sample_contact_institute | MIT
| | Sample_contact_address | 1 Cyclotron Rd
| | Sample_contact_city | Berkely
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94720
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM402nnn/GSM402236/suppl/GSM402236.CEL.gz
| | Sample_series_id | GSE16058
| | Sample_data_row_count | 22277
| | |
|
GSM402237 | GPL3921 |
|
HMFC 48Fb6p.3 Prestasis
|
HMFC
|
cell type: mammary fibroblast cell
individual: 48
passage: 6p
growth status: Growing
|
Human Cell Lines
|
| Sample_geo_accession | GSM402237
| | Sample_status | Public on May 12 2010
| | Sample_submission_date | May 12 2009
| | Sample_last_update_date | May 12 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell cultures grown in the indicated media were harvested and different points in their growth from early passage good growing to near stasis, agonescence, or senescence.
| | Sample_growth_protocol_ch1 | Finite life span HMEC and HMFC from Specimens 184, 48 and 240L were obtained from reduction mammoplasty tissue of women aged 21, 16, and 19 respectively. HMEC were grown starting from organoids in either serum free MCDB170 medium, or the serum-containing M85+CT±X medium described in this publication. HMFC were grown in DME/F12+FCS+I
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cell were lysed with trizol reagent (Invitrogen) according manufacturer's protocol. RNA was resuspended in 100 µl nuclease free water and subject to a second step purification on ion exchange column (Qiagen)
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | For each sample, the RNA target is prepared by annealing 2.0µg of total RNA in 5µl water with 5µl of 10µM T7 (Oligo dt) primer. First and second strand cDNA synthesis is performed and the cDNA products purified using magnetic beads. Labeled cRNA is synthesized from the cDNA using T7 RNA polymerase followed by clean-up with magnetic beads. Purified cRNA is quantitated and fragmented.
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HT_HG-U133A Array. GeneChips were 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 | Raw probe level intensities were processed for background correction, normalization and summarization using Probel level linear (PLM) model in LIMMA module(v.2.16.3) of Bioconductor package.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Sanchita,,Bhattacharya
| | Sample_contact_email | SBhattacharya@lbl.gov
| | Sample_contact_phone | 510-486-6881
| | Sample_contact_institute | MIT
| | Sample_contact_address | 1 Cyclotron Rd
| | Sample_contact_city | Berkely
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94720
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM402nnn/GSM402237/suppl/GSM402237.CEL.gz
| | Sample_series_id | GSE16058
| | Sample_data_row_count | 22277
| | |
|
GSM402238 | GPL3921 |
|
HMFC 48Fb21p.1 Senescent
|
HMFC
|
cell type: mammary fibroblast cell
individual: 48
passage: 21p
growth status: Senescent
|
Human Cell Lines
|
| Sample_geo_accession | GSM402238
| | Sample_status | Public on May 12 2010
| | Sample_submission_date | May 12 2009
| | Sample_last_update_date | May 12 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell cultures grown in the indicated media were harvested and different points in their growth from early passage good growing to near stasis, agonescence, or senescence.
| | Sample_growth_protocol_ch1 | Finite life span HMEC and HMFC from Specimens 184, 48 and 240L were obtained from reduction mammoplasty tissue of women aged 21, 16, and 19 respectively. HMEC were grown starting from organoids in either serum free MCDB170 medium, or the serum-containing M85+CT±X medium described in this publication. HMFC were grown in DME/F12+FCS+I
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cell were lysed with trizol reagent (Invitrogen) according manufacturer's protocol. RNA was resuspended in 100 µl nuclease free water and subject to a second step purification on ion exchange column (Qiagen)
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | For each sample, the RNA target is prepared by annealing 2.0µg of total RNA in 5µl water with 5µl of 10µM T7 (Oligo dt) primer. First and second strand cDNA synthesis is performed and the cDNA products purified using magnetic beads. Labeled cRNA is synthesized from the cDNA using T7 RNA polymerase followed by clean-up with magnetic beads. Purified cRNA is quantitated and fragmented.
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HT_HG-U133A Array. GeneChips were 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 | Raw probe level intensities were processed for background correction, normalization and summarization using Probel level linear (PLM) model in LIMMA module(v.2.16.3) of Bioconductor package.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Sanchita,,Bhattacharya
| | Sample_contact_email | SBhattacharya@lbl.gov
| | Sample_contact_phone | 510-486-6881
| | Sample_contact_institute | MIT
| | Sample_contact_address | 1 Cyclotron Rd
| | Sample_contact_city | Berkely
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94720
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM402nnn/GSM402238/suppl/GSM402238.CEL.gz
| | Sample_series_id | GSE16058
| | Sample_data_row_count | 22277
| | |
|
GSM402239 | GPL3921 |
|
HMFC 48Fb21p.2 Senescent
|
HMFC
|
cell type: mammary fibroblast cell
individual: 48
passage: 21p
growth status: Senescent
|
Human Cell Lines
|
| Sample_geo_accession | GSM402239
| | Sample_status | Public on May 12 2010
| | Sample_submission_date | May 12 2009
| | Sample_last_update_date | May 12 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | Cell cultures grown in the indicated media were harvested and different points in their growth from early passage good growing to near stasis, agonescence, or senescence.
| | Sample_growth_protocol_ch1 | Finite life span HMEC and HMFC from Specimens 184, 48 and 240L were obtained from reduction mammoplasty tissue of women aged 21, 16, and 19 respectively. HMEC were grown starting from organoids in either serum free MCDB170 medium, or the serum-containing M85+CT±X medium described in this publication. HMFC were grown in DME/F12+FCS+I
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Cell were lysed with trizol reagent (Invitrogen) according manufacturer's protocol. RNA was resuspended in 100 µl nuclease free water and subject to a second step purification on ion exchange column (Qiagen)
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | For each sample, the RNA target is prepared by annealing 2.0µg of total RNA in 5µl water with 5µl of 10µM T7 (Oligo dt) primer. First and second strand cDNA synthesis is performed and the cDNA products purified using magnetic beads. Labeled cRNA is synthesized from the cDNA using T7 RNA polymerase followed by clean-up with magnetic beads. Purified cRNA is quantitated and fragmented.
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip HT_HG-U133A Array. GeneChips were 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 | Raw probe level intensities were processed for background correction, normalization and summarization using Probel level linear (PLM) model in LIMMA module(v.2.16.3) of Bioconductor package.
| | Sample_platform_id | GPL3921
| | Sample_contact_name | Sanchita,,Bhattacharya
| | Sample_contact_email | SBhattacharya@lbl.gov
| | Sample_contact_phone | 510-486-6881
| | Sample_contact_institute | MIT
| | Sample_contact_address | 1 Cyclotron Rd
| | Sample_contact_city | Berkely
| | Sample_contact_state | CA
| | Sample_contact_zip/postal_code | 94720
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM402nnn/GSM402239/suppl/GSM402239.CEL.gz
| | Sample_series_id | GSE16058
| | Sample_data_row_count | 22277
| | |
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