Search results for the GEO ID: GSE9951  |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM251620 | GPL570 |
|
Cadmium_00hr_rep1
|
Cadmium_00hr
|
Gender: Male; Tissue: prostate.
|
Immortalized normal prostate epithelial cell line (NPrEC), which showed basal epithelial cell phenotype, was established in our lab (Mobley et al., 2003).
|
| Sample_geo_accession | GSM251620
| | Sample_status | Public on Mar 01 2008
| | Sample_submission_date | Dec 18 2007
| | Sample_last_update_date | Dec 20 2007
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_biomaterial_provider_ch1 | Dr. Shuk-mei Ho's laboratory.
| | Sample_treatment_protocol_ch1 | Briefly exposed the cells to 2.5 uM CdCl2.
| | Sample_growth_protocol_ch1 | The cells were grown in Defined Keratinocyte-SFM medium (Invitrogen, Carlsbad, CA) with growth promoting supplement. Cell cultures were maintained at 37°C in a humidified incubator with a 5% CO2 atmosphere.
| | Sample_growth_protocol_ch1 | Before cadmium treatment, the cells were synchronized via starvation by maintaining the cells in medium without supplement for 72 hr.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted from NPrEC cells by using TRIzol reagent (Invitrogen) according to the manufacture’s instruction. The quality of RNA was assessed by the absorbance ratio at 260/280 nm and gel electrophoresis before further analysis.
| | Sample_label_ch1 | Biotin.
| | Sample_label_protocol_ch1 | According to Affymetrix protocols.
| | Sample_hyb_protocol | Hybridized to arrays at 45°C for 16 hr.
| | Sample_scan_protocol | Arrays were scanned with an Affymetrix scanner.
| | Sample_data_processing | All steps of data preprocessing including background correction, normalization and expression set summaries were performed using the RMA algorithm. Chip quality was assessed with the affyQCReport package of Bioconductor and one chip (Cd_04hr) was removed from analysis due to poor quality.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Xiang,,Zhang
| | Sample_contact_email | e.xiangzhang@gmail.com
| | Sample_contact_phone | 5135581162
| | Sample_contact_fax | 5135585155
| | Sample_contact_department | Environmental Health
| | Sample_contact_institute | University of Cincinnati
| | Sample_contact_address | Kettering labs PO box 670056, 3223 Eden Ave
| | Sample_contact_city | Cincinnati
| | Sample_contact_state | OH
| | Sample_contact_zip/postal_code | 45267-0056
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM251nnn/GSM251620/suppl/GSM251620.CEL.gz
| | Sample_series_id | GSE9951
| | Sample_data_row_count | 54675
| | |
|
GSM251622 | GPL570 |
|
cadmium_04hr_rep1
|
cadmium_04hr
|
Gender: Male; Tissue: Prostate.
|
Immortalized normal prostate epithelial cell line (NPrEC), which showed basal epithelial cell phenotype, was established in our lab (Mobley et al., 2003).
|
| Sample_geo_accession | GSM251622
| | Sample_status | Public on Mar 01 2008
| | Sample_submission_date | Dec 18 2007
| | Sample_last_update_date | Dec 20 2007
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_biomaterial_provider_ch1 | Dr. Shuk-mei Ho's laboratory.
| | Sample_treatment_protocol_ch1 | Cells were treated with 2.5 uM CdCl2 in the complete medium for 4 hours.
| | Sample_growth_protocol_ch1 | The cells were grown in Defined Keratinocyte-SFM medium (Invitrogen, Carlsbad, CA) with growth promoting supplement. Cell cultures were maintained at 37°C in a humidified incubator with a 5% CO2 atmosphere.
| | Sample_growth_protocol_ch1 | Before cadmium treatment, the cells were synchronized via starvation by maintaining the cells in medium without supplement for 72 hr.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted from NPrEC cells by using TRIzol reagent (Invitrogen) according to the manufacture’s instruction. The quality of RNA was assessed by the absorbance ratio at 260/280 nm and gel electrophoresis before further analysis.
| | Sample_label_ch1 | Biotin.
| | Sample_label_protocol_ch1 | According to Affymetrix protocols.
| | Sample_hyb_protocol | Hybridized to arrays at 45°C for 16 hr.
| | Sample_scan_protocol | Arrays were scanned with an Affymetrix scanner.
| | Sample_data_processing | All steps of data preprocessing including background correction, normalization and expression set summaries were performed using the RMA algorithm. Chip quality was assessed with the affyQCReport package of Bioconductor and one chip (Cd_04hr) was removed from analysis due to poor quality.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Xiang,,Zhang
| | Sample_contact_email | e.xiangzhang@gmail.com
| | Sample_contact_phone | 5135581162
| | Sample_contact_fax | 5135585155
| | Sample_contact_department | Environmental Health
| | Sample_contact_institute | University of Cincinnati
| | Sample_contact_address | Kettering labs PO box 670056, 3223 Eden Ave
| | Sample_contact_city | Cincinnati
| | Sample_contact_state | OH
| | Sample_contact_zip/postal_code | 45267-0056
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM251nnn/GSM251622/suppl/GSM251622.CEL.gz
| | Sample_series_id | GSE9951
| | Sample_data_row_count | 54675
| | |
|
GSM251623 | GPL570 |
|
cadmium_08hr_rep1
|
cadmium_08hr
|
Gender: Male; Tissue: Prostate.
|
Immortalized normal prostate epithelial cell line (NPrEC), which showed basal epithelial cell phenotype, was established in our lab (Mobley et al., 2003).
|
| Sample_geo_accession | GSM251623
| | Sample_status | Public on Mar 01 2008
| | Sample_submission_date | Dec 18 2007
| | Sample_last_update_date | Dec 20 2007
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_biomaterial_provider_ch1 | Dr. Shuk-mei Ho's laboratory.
| | Sample_treatment_protocol_ch1 | Cells were treated with 2.5 uM CdCl2 in the complete medium for 8 hours.
| | Sample_growth_protocol_ch1 | The cells were grown in Defined Keratinocyte-SFM medium (Invitrogen, Carlsbad, CA) with growth promoting supplement. Cell cultures were maintained at 37°C in a humidified incubator with a 5% CO2 atmosphere.
| | Sample_growth_protocol_ch1 | Before cadmium treatment, the cells were synchronized via starvation by maintaining the cells in medium without supplement for 72 hr.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted from NPrEC cells by using TRIzol reagent (Invitrogen) according to the manufacture’s instruction. The quality of RNA was assessed by the absorbance ratio at 260/280 nm and gel electrophoresis before further analysis.
| | Sample_label_ch1 | Biotin.
| | Sample_label_protocol_ch1 | According to Affymetrix protocols.
| | Sample_hyb_protocol | Hybridized to arrays at 45°C for 16 hr.
| | Sample_scan_protocol | Arrays were scanned with an Affymetrix scanner.
| | Sample_data_processing | All steps of data preprocessing including background correction, normalization and expression set summaries were performed using the RMA algorithm. Chip quality was assessed with the affyQCReport package of Bioconductor and one chip (Cd_04hr) was removed from analysis due to poor quality.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Xiang,,Zhang
| | Sample_contact_email | e.xiangzhang@gmail.com
| | Sample_contact_phone | 5135581162
| | Sample_contact_fax | 5135585155
| | Sample_contact_department | Environmental Health
| | Sample_contact_institute | University of Cincinnati
| | Sample_contact_address | Kettering labs PO box 670056, 3223 Eden Ave
| | Sample_contact_city | Cincinnati
| | Sample_contact_state | OH
| | Sample_contact_zip/postal_code | 45267-0056
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM251nnn/GSM251623/suppl/GSM251623.CEL.gz
| | Sample_series_id | GSE9951
| | Sample_data_row_count | 54675
| | |
|
GSM251624 | GPL570 |
|
cadmium_08hr_rep2
|
cadmium_08hr
|
Gender: Male; Tissue: Prostate.
|
Immortalized normal prostate epithelial cell line (NPrEC), which showed basal epithelial cell phenotype, was established in our lab (Mobley et al., 2003).
|
| Sample_geo_accession | GSM251624
| | Sample_status | Public on Mar 01 2008
| | Sample_submission_date | Dec 18 2007
| | Sample_last_update_date | Dec 20 2007
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_biomaterial_provider_ch1 | Dr. Shuk-mei Ho's laboratory.
| | Sample_treatment_protocol_ch1 | Cells were treated with 2.5 uM CdCl2 in the complete medium for 8 hours.
| | Sample_growth_protocol_ch1 | The cells were grown in Defined Keratinocyte-SFM medium (Invitrogen, Carlsbad, CA) with growth promoting supplement. Cell cultures were maintained at 37°C in a humidified incubator with a 5% CO2 atmosphere.
| | Sample_growth_protocol_ch1 | Before cadmium treatment, the cells were synchronized via starvation by maintaining the cells in medium without supplement for 72 hr.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted from NPrEC cells by using TRIzol reagent (Invitrogen) according to the manufacture’s instruction. The quality of RNA was assessed by the absorbance ratio at 260/280 nm and gel electrophoresis before further analysis.
| | Sample_label_ch1 | Biotin.
| | Sample_label_protocol_ch1 | According to Affymetrix protocols.
| | Sample_hyb_protocol | Hybridized to arrays at 45°C for 16 hr.
| | Sample_scan_protocol | Arrays were scanned with an Affymetrix scanner.
| | Sample_data_processing | All steps of data preprocessing including background correction, normalization and expression set summaries were performed using the RMA algorithm. Chip quality was assessed with the affyQCReport package of Bioconductor and one chip (Cd_04hr) was removed from analysis due to poor quality.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Xiang,,Zhang
| | Sample_contact_email | e.xiangzhang@gmail.com
| | Sample_contact_phone | 5135581162
| | Sample_contact_fax | 5135585155
| | Sample_contact_department | Environmental Health
| | Sample_contact_institute | University of Cincinnati
| | Sample_contact_address | Kettering labs PO box 670056, 3223 Eden Ave
| | Sample_contact_city | Cincinnati
| | Sample_contact_state | OH
| | Sample_contact_zip/postal_code | 45267-0056
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM251nnn/GSM251624/suppl/GSM251624.CEL.gz
| | Sample_series_id | GSE9951
| | Sample_data_row_count | 54675
| | |
|
GSM251625 | GPL570 |
|
cadmium_16hr_rep1
|
cadmium_16hr
|
Gender: Male; Tissue: Prostate.
|
Immortalized normal prostate epithelial cell line (NPrEC), which showed basal epithelial cell phenotype, was established in our lab (Mobley et al., 2003).
|
| Sample_geo_accession | GSM251625
| | Sample_status | Public on Mar 01 2008
| | Sample_submission_date | Dec 18 2007
| | Sample_last_update_date | Dec 20 2007
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_biomaterial_provider_ch1 | Dr. Shuk-mei Ho's laboratory.
| | Sample_treatment_protocol_ch1 | Cells were treated with 2.5 uM CdCl2 in the complete medium for 16 hours.
| | Sample_growth_protocol_ch1 | The cells were grown in Defined Keratinocyte-SFM medium (Invitrogen, Carlsbad, CA) with growth promoting supplement. Cell cultures were maintained at 37°C in a humidified incubator with a 5% CO2 atmosphere.
| | Sample_growth_protocol_ch1 | Before cadmium treatment, the cells were synchronized via starvation by maintaining the cells in medium without supplement for 72 hr.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted from NPrEC cells by using TRIzol reagent (Invitrogen) according to the manufacture’s instruction. The quality of RNA was assessed by the absorbance ratio at 260/280 nm and gel electrophoresis before further analysis.
| | Sample_label_ch1 | Biotin.
| | Sample_label_protocol_ch1 | According to Affymetrix protocols.
| | Sample_hyb_protocol | Hybridized to arrays at 45°C for 16 hr.
| | Sample_scan_protocol | Arrays were scanned with an Affymetrix scanner.
| | Sample_data_processing | All steps of data preprocessing including background correction, normalization and expression set summaries were performed using the RMA algorithm. Chip quality was assessed with the affyQCReport package of Bioconductor and one chip (Cd_04hr) was removed from analysis due to poor quality.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Xiang,,Zhang
| | Sample_contact_email | e.xiangzhang@gmail.com
| | Sample_contact_phone | 5135581162
| | Sample_contact_fax | 5135585155
| | Sample_contact_department | Environmental Health
| | Sample_contact_institute | University of Cincinnati
| | Sample_contact_address | Kettering labs PO box 670056, 3223 Eden Ave
| | Sample_contact_city | Cincinnati
| | Sample_contact_state | OH
| | Sample_contact_zip/postal_code | 45267-0056
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM251nnn/GSM251625/suppl/GSM251625.CEL.gz
| | Sample_series_id | GSE9951
| | Sample_data_row_count | 54675
| | |
|
GSM251626 | GPL570 |
|
cadmium_16hr_rep2
|
cadmium_16hr
|
Gender: Male; Tissue: Prostate.
|
Immortalized normal prostate epithelial cell line (NPrEC), which showed basal epithelial cell phenotype, was established in our lab (Mobley et al., 2003).
|
| Sample_geo_accession | GSM251626
| | Sample_status | Public on Mar 01 2008
| | Sample_submission_date | Dec 18 2007
| | Sample_last_update_date | Dec 20 2007
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_biomaterial_provider_ch1 | Dr. Shuk-mei Ho's laboratory.
| | Sample_treatment_protocol_ch1 | Cells were treated with 2.5 uM CdCl2 in the complete medium for 16 hours.
| | Sample_growth_protocol_ch1 | The cells were grown in Defined Keratinocyte-SFM medium (Invitrogen, Carlsbad, CA) with growth promoting supplement. Cell cultures were maintained at 37°C in a humidified incubator with a 5% CO2 atmosphere.
| | Sample_growth_protocol_ch1 | Before cadmium treatment, the cells were synchronized via starvation by maintaining the cells in medium without supplement for 72 hr.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted from NPrEC cells by using TRIzol reagent (Invitrogen) according to the manufacture’s instruction. The quality of RNA was assessed by the absorbance ratio at 260/280 nm and gel electrophoresis before further analysis.
| | Sample_label_ch1 | Biotin.
| | Sample_label_protocol_ch1 | According to Affymetrix protocols.
| | Sample_hyb_protocol | Hybridized to arrays at 45°C for 16 hr.
| | Sample_scan_protocol | Arrays were scanned with an Affymetrix scanner.
| | Sample_data_processing | All steps of data preprocessing including background correction, normalization and expression set summaries were performed using the RMA algorithm. Chip quality was assessed with the affyQCReport package of Bioconductor and one chip (Cd_04hr) was removed from analysis due to poor quality.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Xiang,,Zhang
| | Sample_contact_email | e.xiangzhang@gmail.com
| | Sample_contact_phone | 5135581162
| | Sample_contact_fax | 5135585155
| | Sample_contact_department | Environmental Health
| | Sample_contact_institute | University of Cincinnati
| | Sample_contact_address | Kettering labs PO box 670056, 3223 Eden Ave
| | Sample_contact_city | Cincinnati
| | Sample_contact_state | OH
| | Sample_contact_zip/postal_code | 45267-0056
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM251nnn/GSM251626/suppl/GSM251626.CEL.gz
| | Sample_series_id | GSE9951
| | Sample_data_row_count | 54675
| | |
|
GSM251627 | GPL570 |
|
cadmium_32hr_rep1
|
cadmium_32hr
|
Gender: Male; Tissue: Prostate.
|
Immortalized normal prostate epithelial cell line (NPrEC), which showed basal epithelial cell phenotype, was established in our lab (Mobley et al., 2003).
|
| Sample_geo_accession | GSM251627
| | Sample_status | Public on Mar 01 2008
| | Sample_submission_date | Dec 18 2007
| | Sample_last_update_date | Dec 20 2007
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_biomaterial_provider_ch1 | Dr. Shuk-mei Ho's laboratory.
| | Sample_treatment_protocol_ch1 | Cells were treated with 2.5 uM CdCl2 in the complete medium for 32 hours.
| | Sample_growth_protocol_ch1 | The cells were grown in Defined Keratinocyte-SFM medium (Invitrogen, Carlsbad, CA) with growth promoting supplement. Cell cultures were maintained at 37°C in a humidified incubator with a 5% CO2 atmosphere.
| | Sample_growth_protocol_ch1 | Before cadmium treatment, the cells were synchronized via starvation by maintaining the cells in medium without supplement for 72 hr.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted from NPrEC cells by using TRIzol reagent (Invitrogen) according to the manufacture’s instruction. The quality of RNA was assessed by the absorbance ratio at 260/280 nm and gel electrophoresis before further analysis.
| | Sample_label_ch1 | Biotin.
| | Sample_label_protocol_ch1 | According to Affymetrix protocols.
| | Sample_hyb_protocol | Hybridized to arrays at 45°C for 16 hr.
| | Sample_scan_protocol | Arrays were scanned with an Affymetrix scanner.
| | Sample_data_processing | All steps of data preprocessing including background correction, normalization and expression set summaries were performed using the RMA algorithm. Chip quality was assessed with the affyQCReport package of Bioconductor and one chip (Cd_04hr) was removed from analysis due to poor quality.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Xiang,,Zhang
| | Sample_contact_email | e.xiangzhang@gmail.com
| | Sample_contact_phone | 5135581162
| | Sample_contact_fax | 5135585155
| | Sample_contact_department | Environmental Health
| | Sample_contact_institute | University of Cincinnati
| | Sample_contact_address | Kettering labs PO box 670056, 3223 Eden Ave
| | Sample_contact_city | Cincinnati
| | Sample_contact_state | OH
| | Sample_contact_zip/postal_code | 45267-0056
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM251nnn/GSM251627/suppl/GSM251627.CEL.gz
| | Sample_series_id | GSE9951
| | Sample_data_row_count | 54675
| | |
|
GSM251629 | GPL570 |
|
cadmium_32hr_rep2
|
cadmium_32hr
|
Gender: Male; Tissue: Prostate.
|
Immortalized normal prostate epithelial cell line (NPrEC), which showed basal epithelial cell phenotype, was established in our lab (Mobley et al., 2003).
|
| Sample_geo_accession | GSM251629
| | Sample_status | Public on Mar 01 2008
| | Sample_submission_date | Dec 18 2007
| | Sample_last_update_date | Dec 20 2007
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_biomaterial_provider_ch1 | Dr. Shuk-mei Ho's laboratory.
| | Sample_treatment_protocol_ch1 | Cells were treated with 2.5 uM CdCl2 in the complete medium for 32 hours.
| | Sample_growth_protocol_ch1 | The cells were grown in Defined Keratinocyte-SFM medium (Invitrogen, Carlsbad, CA) with growth promoting supplement. Cell cultures were maintained at 37°C in a humidified incubator with a 5% CO2 atmosphere.
| | Sample_growth_protocol_ch1 | Before cadmium treatment, the cells were synchronized via starvation by maintaining the cells in medium without supplement for 72 hr.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted from NPrEC cells by using TRIzol reagent (Invitrogen) according to the manufacture’s instruction. The quality of RNA was assessed by the absorbance ratio at 260/280 nm and gel electrophoresis before further analysis.
| | Sample_label_ch1 | Biotin.
| | Sample_label_protocol_ch1 | According to Affymetrix protocols.
| | Sample_hyb_protocol | Hybridized to arrays at 45°C for 16 hr.
| | Sample_scan_protocol | Arrays were scanned with an Affymetrix scanner.
| | Sample_data_processing | All steps of data preprocessing including background correction, normalization and expression set summaries were performed using the RMA algorithm. Chip quality was assessed with the affyQCReport package of Bioconductor and one chip (Cd_04hr) was removed from analysis due to poor quality.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Xiang,,Zhang
| | Sample_contact_email | e.xiangzhang@gmail.com
| | Sample_contact_phone | 5135581162
| | Sample_contact_fax | 5135585155
| | Sample_contact_department | Environmental Health
| | Sample_contact_institute | University of Cincinnati
| | Sample_contact_address | Kettering labs PO box 670056, 3223 Eden Ave
| | Sample_contact_city | Cincinnati
| | Sample_contact_state | OH
| | Sample_contact_zip/postal_code | 45267-0056
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM251nnn/GSM251629/suppl/GSM251629.CEL.gz
| | Sample_series_id | GSE9951
| | Sample_data_row_count | 54675
| | |
|
GSM251630 | GPL570 |
|
control_00hr_rep1
|
control_00hr
|
Gender: Male; Tissue: Prostate.
|
Immortalized normal prostate epithelial cell line (NPrEC), which showed basal epithelial cell phenotype, was established in our lab (Mobley et al., 2003).
|
| Sample_geo_accession | GSM251630
| | Sample_status | Public on Mar 01 2008
| | Sample_submission_date | Dec 18 2007
| | Sample_last_update_date | Dec 20 2007
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_biomaterial_provider_ch1 | Dr. Shuk-mei Ho's laboratory.
| | Sample_treatment_protocol_ch1 | After 72 hrs of starvation, the cells were briefly exposed to complete medium without CdCl2.
| | Sample_growth_protocol_ch1 | The cells were grown in Defined Keratinocyte-SFM medium (Invitrogen, Carlsbad, CA) with growth promoting supplement. Cell cultures were maintained at 37°C in a humidified incubator with a 5% CO2 atmosphere.
| | Sample_growth_protocol_ch1 | Before cadmium treatment, the cells were synchronized via starvation by maintaining the cells in medium without supplement for 72 hr.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted from NPrEC cells by using TRIzol reagent (Invitrogen) according to the manufacture’s instruction. The quality of RNA was assessed by the absorbance ratio at 260/280 nm and gel electrophoresis before further analysis.
| | Sample_label_ch1 | Biotin.
| | Sample_label_protocol_ch1 | According to Affymetrix protocols.
| | Sample_hyb_protocol | Hybridized to arrays at 45°C for 16 hr.
| | Sample_scan_protocol | Arrays were scanned with an Affymetrix scanner.
| | Sample_data_processing | All steps of data preprocessing including background correction, normalization and expression set summaries were performed using the RMA algorithm. Chip quality was assessed with the affyQCReport package of Bioconductor and one chip (Cd_04hr) was removed from analysis due to poor quality.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Xiang,,Zhang
| | Sample_contact_email | e.xiangzhang@gmail.com
| | Sample_contact_phone | 5135581162
| | Sample_contact_fax | 5135585155
| | Sample_contact_department | Environmental Health
| | Sample_contact_institute | University of Cincinnati
| | Sample_contact_address | Kettering labs PO box 670056, 3223 Eden Ave
| | Sample_contact_city | Cincinnati
| | Sample_contact_state | OH
| | Sample_contact_zip/postal_code | 45267-0056
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM251nnn/GSM251630/suppl/GSM251630.CEL.gz
| | Sample_series_id | GSE9951
| | Sample_data_row_count | 54675
| | |
|
GSM251633 | GPL570 |
|
control_00hr_rep2
|
control_00hr
|
Gender: Male; Tissue: Prostate.
|
Immortalized normal prostate epithelial cell line (NPrEC), which showed basal epithelial cell phenotype, was established in our lab (Mobley et al., 2003).
|
| Sample_geo_accession | GSM251633
| | Sample_status | Public on Mar 01 2008
| | Sample_submission_date | Dec 18 2007
| | Sample_last_update_date | Dec 20 2007
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_biomaterial_provider_ch1 | Dr. Shuk-mei Ho's laboratory.
| | Sample_treatment_protocol_ch1 | After 72 hrs of starvation, the cells were briefly exposed to complete medium without CdCl2.
| | Sample_growth_protocol_ch1 | The cells were grown in Defined Keratinocyte-SFM medium (Invitrogen, Carlsbad, CA) with growth promoting supplement. Cell cultures were maintained at 37°C in a humidified incubator with a 5% CO2 atmosphere.
| | Sample_growth_protocol_ch1 | Before cadmium treatment, the cells were synchronized via starvation by maintaining the cells in medium without supplement for 72 hr.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted from NPrEC cells by using TRIzol reagent (Invitrogen) according to the manufacture’s instruction. The quality of RNA was assessed by the absorbance ratio at 260/280 nm and gel electrophoresis before further analysis.
| | Sample_label_ch1 | Biotin.
| | Sample_label_protocol_ch1 | According to Affymetrix protocols.
| | Sample_hyb_protocol | Hybridized to arrays at 45°C for 16 hr.
| | Sample_scan_protocol | Arrays were scanned with an Affymetrix scanner.
| | Sample_data_processing | All steps of data preprocessing including background correction, normalization and expression set summaries were performed using the RMA algorithm. Chip quality was assessed with the affyQCReport package of Bioconductor and one chip (Cd_04hr) was removed from analysis due to poor quality.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Xiang,,Zhang
| | Sample_contact_email | e.xiangzhang@gmail.com
| | Sample_contact_phone | 5135581162
| | Sample_contact_fax | 5135585155
| | Sample_contact_department | Environmental Health
| | Sample_contact_institute | University of Cincinnati
| | Sample_contact_address | Kettering labs PO box 670056, 3223 Eden Ave
| | Sample_contact_city | Cincinnati
| | Sample_contact_state | OH
| | Sample_contact_zip/postal_code | 45267-0056
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM251nnn/GSM251633/suppl/GSM251633.CEL.gz
| | Sample_series_id | GSE9951
| | Sample_data_row_count | 54675
| | |
|
GSM251635 | GPL570 |
|
control_04hr_rep1
|
control_04hr
|
Gender: Male; Tissue: Prostate.
|
Immortalized normal prostate epithelial cell line (NPrEC), which showed basal epithelial cell phenotype, was established in our lab (Mobley et al., 2003).
|
| Sample_geo_accession | GSM251635
| | Sample_status | Public on Mar 01 2008
| | Sample_submission_date | Dec 18 2007
| | Sample_last_update_date | Dec 20 2007
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_biomaterial_provider_ch1 | Dr. Shuk-mei Ho's laboratory.
| | Sample_treatment_protocol_ch1 | After 72 hrs of starvation, the cells were maintained in complete medium without CdCl2 for 4 hrs.
| | Sample_growth_protocol_ch1 | The cells were grown in Defined Keratinocyte-SFM medium (Invitrogen, Carlsbad, CA) with growth promoting supplement. Cell cultures were maintained at 37°C in a humidified incubator with a 5% CO2 atmosphere.
| | Sample_growth_protocol_ch1 | Before cadmium treatment, the cells were synchronized via starvation by maintaining the cells in medium without supplement for 72 hr.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted from NPrEC cells by using TRIzol reagent (Invitrogen) according to the manufacture’s instruction. The quality of RNA was assessed by the absorbance ratio at 260/280 nm and gel electrophoresis before further analysis.
| | Sample_label_ch1 | Biotin.
| | Sample_label_protocol_ch1 | According to Affymetrix protocols.
| | Sample_hyb_protocol | Hybridized to arrays at 45°C for 16 hr.
| | Sample_scan_protocol | Arrays were scanned with an Affymetrix scanner.
| | Sample_data_processing | All steps of data preprocessing including background correction, normalization and expression set summaries were performed using the RMA algorithm. Chip quality was assessed with the affyQCReport package of Bioconductor and one chip (Cd_04hr) was removed from analysis due to poor quality.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Xiang,,Zhang
| | Sample_contact_email | e.xiangzhang@gmail.com
| | Sample_contact_phone | 5135581162
| | Sample_contact_fax | 5135585155
| | Sample_contact_department | Environmental Health
| | Sample_contact_institute | University of Cincinnati
| | Sample_contact_address | Kettering labs PO box 670056, 3223 Eden Ave
| | Sample_contact_city | Cincinnati
| | Sample_contact_state | OH
| | Sample_contact_zip/postal_code | 45267-0056
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM251nnn/GSM251635/suppl/GSM251635.CEL.gz
| | Sample_series_id | GSE9951
| | Sample_data_row_count | 54675
| | |
|
GSM251636 | GPL570 |
|
control_04hr_rep2
|
control_04hr
|
Gender: Male; Tissue: Prostate.
|
Immortalized normal prostate epithelial cell line (NPrEC), which showed basal epithelial cell phenotype, was established in our lab (Mobley et al., 2003).
|
| Sample_geo_accession | GSM251636
| | Sample_status | Public on Mar 01 2008
| | Sample_submission_date | Dec 18 2007
| | Sample_last_update_date | Dec 20 2007
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_biomaterial_provider_ch1 | Dr. Shuk-mei Ho's laboratory
| | Sample_treatment_protocol_ch1 | After 72 hrs of starvation, the cells were maintained in complete medium without CdCl2 for 4 hrs.
| | Sample_growth_protocol_ch1 | The cells were grown in Defined Keratinocyte-SFM medium (Invitrogen, Carlsbad, CA) with growth promoting supplement. Cell cultures were maintained at 37°C in a humidified incubator with a 5% CO2 atmosphere.
| | Sample_growth_protocol_ch1 | Before cadmium treatment, the cells were synchronized via starvation by maintaining the cells in medium without supplement for 72 hr.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted from NPrEC cells by using TRIzol reagent (Invitrogen) according to the manufacture’s instruction. The quality of RNA was assessed by the absorbance ratio at 260/280 nm and gel electrophoresis before further analysis.
| | Sample_label_ch1 | Biotin.
| | Sample_label_protocol_ch1 | According to Affymetrix protocols.
| | Sample_hyb_protocol | Hybridized to arrays at 45°C for 16 hr.
| | Sample_scan_protocol | Arrays were scanned with an Affymetrix scanner.
| | Sample_data_processing | All steps of data preprocessing including background correction, normalization and expression set summaries were performed using the RMA algorithm. Chip quality was assessed with the affyQCReport package of Bioconductor and one chip (Cd_04hr) was removed from analysis due to poor quality.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Xiang,,Zhang
| | Sample_contact_email | e.xiangzhang@gmail.com
| | Sample_contact_phone | 5135581162
| | Sample_contact_fax | 5135585155
| | Sample_contact_department | Environmental Health
| | Sample_contact_institute | University of Cincinnati
| | Sample_contact_address | Kettering labs PO box 670056, 3223 Eden Ave
| | Sample_contact_city | Cincinnati
| | Sample_contact_state | OH
| | Sample_contact_zip/postal_code | 45267-0056
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM251nnn/GSM251636/suppl/GSM251636.CEL.gz
| | Sample_series_id | GSE9951
| | Sample_data_row_count | 54675
| | |
|
GSM251637 | GPL570 |
|
control_08hr_rep1
|
control_08hr
|
Gender: Male; Tissue: Prostate.
|
Immortalized normal prostate epithelial cell line (NPrEC), which showed basal epithelial cell phenotype, was established in our lab (Mobley et al., 2003).
|
| Sample_geo_accession | GSM251637
| | Sample_status | Public on Mar 01 2008
| | Sample_submission_date | Dec 18 2007
| | Sample_last_update_date | Dec 20 2007
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_biomaterial_provider_ch1 | Dr. Shuk-mei Ho's laboratory.
| | Sample_treatment_protocol_ch1 | After 72 hrs of starvation, the cells were maintained in complete medium without CdCl2 for 8 hrs.
| | Sample_growth_protocol_ch1 | The cells were grown in Defined Keratinocyte-SFM medium (Invitrogen, Carlsbad, CA) with growth promoting supplement. Cell cultures were maintained at 37°C in a humidified incubator with a 5% CO2 atmosphere.
| | Sample_growth_protocol_ch1 | Before cadmium treatment, the cells were synchronized via starvation by maintaining the cells in medium without supplement for 72 hr.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted from NPrEC cells by using TRIzol reagent (Invitrogen) according to the manufacture’s instruction. The quality of RNA was assessed by the absorbance ratio at 260/280 nm and gel electrophoresis before further analysis.
| | Sample_label_ch1 | Biotin.
| | Sample_label_protocol_ch1 | According to Affymetrix protocols.
| | Sample_hyb_protocol | Hybridized to arrays at 45°C for 16 hr.
| | Sample_scan_protocol | Arrays were scanned with an Affymetrix scanner.
| | Sample_data_processing | All steps of data preprocessing including background correction, normalization and expression set summaries were performed using the RMA algorithm. Chip quality was assessed with the affyQCReport package of Bioconductor and one chip (Cd_04hr) was removed from analysis due to poor quality.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Xiang,,Zhang
| | Sample_contact_email | e.xiangzhang@gmail.com
| | Sample_contact_phone | 5135581162
| | Sample_contact_fax | 5135585155
| | Sample_contact_department | Environmental Health
| | Sample_contact_institute | University of Cincinnati
| | Sample_contact_address | Kettering labs PO box 670056, 3223 Eden Ave
| | Sample_contact_city | Cincinnati
| | Sample_contact_state | OH
| | Sample_contact_zip/postal_code | 45267-0056
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM251nnn/GSM251637/suppl/GSM251637.CEL.gz
| | Sample_series_id | GSE9951
| | Sample_data_row_count | 54675
| | |
|
GSM251638 | GPL570 |
|
control_08hr_rep2
|
control_08hr
|
Gender: Male; Tissue: Prostate.
|
Immortalized normal prostate epithelial cell line (NPrEC), which showed basal epithelial cell phenotype, was established in our lab (Mobley et al., 2003).
|
| Sample_geo_accession | GSM251638
| | Sample_status | Public on Mar 01 2008
| | Sample_submission_date | Dec 18 2007
| | Sample_last_update_date | Dec 20 2007
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_biomaterial_provider_ch1 | Dr. Shuk-mei Ho's laboratory.
| | Sample_treatment_protocol_ch1 | After 72 hrs of starvation, the cells were maintained in complete medium without CdCl2 for 8 hrs.
| | Sample_growth_protocol_ch1 | The cells were grown in Defined Keratinocyte-SFM medium (Invitrogen, Carlsbad, CA) with growth promoting supplement. Cell cultures were maintained at 37°C in a humidified incubator with a 5% CO2 atmosphere.
| | Sample_growth_protocol_ch1 | Before cadmium treatment, the cells were synchronized via starvation by maintaining the cells in medium without supplement for 72 hr.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted from NPrEC cells by using TRIzol reagent (Invitrogen) according to the manufacture’s instruction. The quality of RNA was assessed by the absorbance ratio at 260/280 nm and gel electrophoresis before further analysis.
| | Sample_label_ch1 | Biotin.
| | Sample_label_protocol_ch1 | According to Affymetrix protocols.
| | Sample_hyb_protocol | Hybridized to arrays at 45°C for 16 hr.
| | Sample_scan_protocol | Arrays were scanned with an Affymetrix scanner.
| | Sample_data_processing | All steps of data preprocessing including background correction, normalization and expression set summaries were performed using the RMA algorithm. Chip quality was assessed with the affyQCReport package of Bioconductor and one chip (Cd_04hr) was removed from analysis due to poor quality.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Xiang,,Zhang
| | Sample_contact_email | e.xiangzhang@gmail.com
| | Sample_contact_phone | 5135581162
| | Sample_contact_fax | 5135585155
| | Sample_contact_department | Environmental Health
| | Sample_contact_institute | University of Cincinnati
| | Sample_contact_address | Kettering labs PO box 670056, 3223 Eden Ave
| | Sample_contact_city | Cincinnati
| | Sample_contact_state | OH
| | Sample_contact_zip/postal_code | 45267-0056
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM251nnn/GSM251638/suppl/GSM251638.CEL.gz
| | Sample_series_id | GSE9951
| | Sample_data_row_count | 54675
| | |
|
GSM251639 | GPL570 |
|
control_16hr_rep1
|
control_16hr
|
Gender: Male; Tissue: Prostate.
|
Immortalized normal prostate epithelial cell line (NPrEC), which showed basal epithelial cell phenotype, was established in our lab (Mobley et al., 2003).
|
| Sample_geo_accession | GSM251639
| | Sample_status | Public on Mar 01 2008
| | Sample_submission_date | Dec 18 2007
| | Sample_last_update_date | Dec 20 2007
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_biomaterial_provider_ch1 | Dr. Shuk-mei Ho's laboratory.
| | Sample_treatment_protocol_ch1 | After 72 hrs of starvation, the cells were maintained in complete medium without CdCl2 for 16 hrs.
| | Sample_growth_protocol_ch1 | The cells were grown in Defined Keratinocyte-SFM medium (Invitrogen, Carlsbad, CA) with growth promoting supplement. Cell cultures were maintained at 37°C in a humidified incubator with a 5% CO2 atmosphere.
| | Sample_growth_protocol_ch1 | Before cadmium treatment, the cells were synchronized via starvation by maintaining the cells in medium without supplement for 72 hr.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted from NPrEC cells by using TRIzol reagent (Invitrogen) according to the manufacture’s instruction. The quality of RNA was assessed by the absorbance ratio at 260/280 nm and gel electrophoresis before further analysis.
| | Sample_label_ch1 | Biotin.
| | Sample_label_protocol_ch1 | According to Affymetrix protocols.
| | Sample_hyb_protocol | Hybridized to arrays at 45°C for 16 hr.
| | Sample_scan_protocol | Arrays were scanned with an Affymetrix scanner.
| | Sample_data_processing | All steps of data preprocessing including background correction, normalization and expression set summaries were performed using the RMA algorithm. Chip quality was assessed with the affyQCReport package of Bioconductor and one chip (Cd_04hr) was removed from analysis due to poor quality.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Xiang,,Zhang
| | Sample_contact_email | e.xiangzhang@gmail.com
| | Sample_contact_phone | 5135581162
| | Sample_contact_fax | 5135585155
| | Sample_contact_department | Environmental Health
| | Sample_contact_institute | University of Cincinnati
| | Sample_contact_address | Kettering labs PO box 670056, 3223 Eden Ave
| | Sample_contact_city | Cincinnati
| | Sample_contact_state | OH
| | Sample_contact_zip/postal_code | 45267-0056
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM251nnn/GSM251639/suppl/GSM251639.CEL.gz
| | Sample_series_id | GSE9951
| | Sample_data_row_count | 54675
| | |
|
GSM251640 | GPL570 |
|
control_16hr_rep2
|
control_16hr
|
Gender: Male; Tissue: Prostate.
|
Immortalized normal prostate epithelial cell line (NPrEC), which showed basal epithelial cell phenotype, was established in our lab (Mobley et al., 2003).
|
| Sample_geo_accession | GSM251640
| | Sample_status | Public on Mar 01 2008
| | Sample_submission_date | Dec 18 2007
| | Sample_last_update_date | Dec 20 2007
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_biomaterial_provider_ch1 | Dr. Shuk-mei Ho's laboratory.
| | Sample_treatment_protocol_ch1 | After 72 hrs of starvation, the cells were maintained in complete medium without CdCl2 for 16 hrs.
| | Sample_growth_protocol_ch1 | The cells were grown in Defined Keratinocyte-SFM medium (Invitrogen, Carlsbad, CA) with growth promoting supplement. Cell cultures were maintained at 37°C in a humidified incubator with a 5% CO2 atmosphere.
| | Sample_growth_protocol_ch1 | Before cadmium treatment, the cells were synchronized via starvation by maintaining the cells in medium without supplement for 72 hr.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted from NPrEC cells by using TRIzol reagent (Invitrogen) according to the manufacture’s instruction. The quality of RNA was assessed by the absorbance ratio at 260/280 nm and gel electrophoresis before further analysis.
| | Sample_label_ch1 | Biotin.
| | Sample_label_protocol_ch1 | According to Affymetrix protocols.
| | Sample_hyb_protocol | Hybridized to arrays at 45°C for 16 hr.
| | Sample_scan_protocol | Arrays were scanned with an Affymetrix scanner.
| | Sample_data_processing | All steps of data preprocessing including background correction, normalization and expression set summaries were performed using the RMA algorithm. Chip quality was assessed with the affyQCReport package of Bioconductor and one chip (Cd_04hr) was removed from analysis due to poor quality.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Xiang,,Zhang
| | Sample_contact_email | e.xiangzhang@gmail.com
| | Sample_contact_phone | 5135581162
| | Sample_contact_fax | 5135585155
| | Sample_contact_department | Environmental Health
| | Sample_contact_institute | University of Cincinnati
| | Sample_contact_address | Kettering labs PO box 670056, 3223 Eden Ave
| | Sample_contact_city | Cincinnati
| | Sample_contact_state | OH
| | Sample_contact_zip/postal_code | 45267-0056
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM251nnn/GSM251640/suppl/GSM251640.CEL.gz
| | Sample_series_id | GSE9951
| | Sample_data_row_count | 54675
| | |
|
GSM251649 | GPL570 |
|
control_32hr_rep1
|
control_32hr
|
Gender: Male; Tissue: Prostate.
|
Immortalized normal prostate epithelial cell line (NPrEC), which showed basal epithelial cell phenotype, was established in our lab (Mobley et al., 2003).
|
| Sample_geo_accession | GSM251649
| | Sample_status | Public on Mar 01 2008
| | Sample_submission_date | Dec 18 2007
| | Sample_last_update_date | Dec 20 2007
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_biomaterial_provider_ch1 | Dr. Shuk-mei Ho's laboratory.
| | Sample_treatment_protocol_ch1 | After 72 hrs of starvation, the cells were maintained in complete medium without CdCl2 for 32 hrs.
| | Sample_growth_protocol_ch1 | The cells were grown in Defined Keratinocyte-SFM medium (Invitrogen, Carlsbad, CA) with growth promoting supplement. Cell cultures were maintained at 37°C in a humidified incubator with a 5% CO2 atmosphere.
| | Sample_growth_protocol_ch1 | Before cadmium treatment, the cells were synchronized via starvation by maintaining the cells in medium without supplement for 72 hr.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted from NPrEC cells by using TRIzol reagent (Invitrogen) according to the manufacture’s instruction. The quality of RNA was assessed by the absorbance ratio at 260/280 nm and gel electrophoresis before further analysis.
| | Sample_label_ch1 | Biotin.
| | Sample_label_protocol_ch1 | According to Affymetrix protocols.
| | Sample_hyb_protocol | Hybridized to arrays at 45°C for 16 hr.
| | Sample_scan_protocol | Arrays were scanned with an Affymetrix scanner.
| | Sample_data_processing | All steps of data preprocessing including background correction, normalization and expression set summaries were performed using the RMA algorithm. Chip quality was assessed with the affyQCReport package of Bioconductor and one chip (Cd_04hr) was removed from analysis due to poor quality.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Xiang,,Zhang
| | Sample_contact_email | e.xiangzhang@gmail.com
| | Sample_contact_phone | 5135581162
| | Sample_contact_fax | 5135585155
| | Sample_contact_department | Environmental Health
| | Sample_contact_institute | University of Cincinnati
| | Sample_contact_address | Kettering labs PO box 670056, 3223 Eden Ave
| | Sample_contact_city | Cincinnati
| | Sample_contact_state | OH
| | Sample_contact_zip/postal_code | 45267-0056
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM251nnn/GSM251649/suppl/GSM251649.CEL.gz
| | Sample_series_id | GSE9951
| | Sample_data_row_count | 54675
| | |
|
GSM251686 | GPL570 |
|
control_32hr_rep2
|
control_32hr
|
Gender: Male; Tissue: Prostate.
|
Immortalized normal prostate epithelial cell line (NPrEC), which showed basal epithelial cell phenotype, was established in our lab (Mobley et al., 2003).
|
| Sample_geo_accession | GSM251686
| | Sample_status | Public on Mar 01 2008
| | Sample_submission_date | Dec 18 2007
| | Sample_last_update_date | Dec 20 2007
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_biomaterial_provider_ch1 | Dr. Shuk-mei Ho's laboratory.
| | Sample_treatment_protocol_ch1 | After 72 hrs of starvation, the cells were maintained in complete medium without CdCl2 for 32 hrs.
| | Sample_growth_protocol_ch1 | The cells were grown in Defined Keratinocyte-SFM medium (Invitrogen, Carlsbad, CA) with growth promoting supplement. Cell cultures were maintained at 37°C in a humidified incubator with a 5% CO2 atmosphere.
| | Sample_growth_protocol_ch1 | Before cadmium treatment, the cells were synchronized via starvation by maintaining the cells in medium without supplement for 72 hr.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was extracted from NPrEC cells by using TRIzol reagent (Invitrogen) according to the manufacture’s instruction. The quality of RNA was assessed by the absorbance ratio at 260/280 nm and gel electrophoresis before further analysis.
| | Sample_label_ch1 | Biotin.
| | Sample_label_protocol_ch1 | According to Affymetrix protocols.
| | Sample_hyb_protocol | Hybridized to arrays at 45°C for 16 hr.
| | Sample_scan_protocol | Arrays were scanned with an Affymetrix scanner.
| | Sample_data_processing | All steps of data preprocessing including background correction, normalization and expression set summaries were performed using the RMA algorithm. Chip quality was assessed with the affyQCReport package of Bioconductor and one chip (Cd_04hr) was removed from analysis due to poor quality.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Xiang,,Zhang
| | Sample_contact_email | e.xiangzhang@gmail.com
| | Sample_contact_phone | 5135581162
| | Sample_contact_fax | 5135585155
| | Sample_contact_department | Environmental Health
| | Sample_contact_institute | University of Cincinnati
| | Sample_contact_address | Kettering labs PO box 670056, 3223 Eden Ave
| | Sample_contact_city | Cincinnati
| | Sample_contact_state | OH
| | Sample_contact_zip/postal_code | 45267-0056
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM251nnn/GSM251686/suppl/GSM251686.CEL.gz
| | Sample_series_id | GSE9951
| | Sample_data_row_count | 54675
| | |
|
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