Search results for the GEO ID: GSE11097  |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM280267 | GPL1355 |
|
BN3 4month control
|
rat liver from 4month Brown Norway
|
Male Brown Norway rats were obtained from Charles River through NIA.
no additional
|
gene expression data from rat liver samples- 4,12,24 months old
|
| Sample_geo_accession | GSM280267
| | Sample_status | Public on Jul 30 2008
| | Sample_submission_date | Apr 08 2008
| | Sample_last_update_date | Jul 30 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | no treatment
| | Sample_growth_protocol_ch1 | Rats were housed individually. Animal facilities were controlled for temperature (20-24°C) and relative humidity (40-60%), and kept under a 12-h light-dark cycle.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using the TriReagent procedure (Molecular Research Center, Cincinnati, OH) and the Qiagen Rneasy mini RNA cleanup protocol (Qiagen, Valencia, CA)
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Samples were labeled according to the Affymetrix protocol
| | Sample_hyb_protocol | Samples were hybridized according to the Affymetrix protocol
| | Sample_scan_protocol | Affymetrix protocol using a GeneChip scanner 3000
| | Sample_data_processing | Affymetrix GeneChip microarray suite software was used for washing and scanning. Expression summaries were calculated using an analysis algorithm adapted from Choe et al. (2005) [PMID: 15693945], in the sequence of "Background correction (MAS5), Quantile normalization (RMA), Perfect match adjustment (MAS5), Median polish (RMA), LOESS normalization.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Hongzu,,Ren
| | Sample_contact_email | ren.hongzu@epa.gov
| | Sample_contact_phone | 919-541-4576
| | Sample_contact_laboratory | NHEERL Toxicogenomics Core
| | Sample_contact_institute | US Environmental Protection Agency
| | Sample_contact_address | 109 TW Alexander Dr
| | Sample_contact_city | RTP
| | Sample_contact_state | NC
| | Sample_contact_zip/postal_code | 27711
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM280nnn/GSM280267/suppl/GSM280267.CEL.gz
| | Sample_series_id | GSE11097
| | Sample_data_row_count | 23324
| | |
|
GSM280268 | GPL1355 |
|
BN4 4month control
|
rat liver from 4month Brown Norway
|
Male Brown Norway rats were obtained from Charles River through NIA.
no additional
|
gene expression data from rat liver samples- 4,12,24 months old
|
| Sample_geo_accession | GSM280268
| | Sample_status | Public on Jul 30 2008
| | Sample_submission_date | Apr 08 2008
| | Sample_last_update_date | Jul 30 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | no treatment
| | Sample_growth_protocol_ch1 | Rats were housed individually. Animal facilities were controlled for temperature (20-24°C) and relative humidity (40-60%), and kept under a 12-h light-dark cycle.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using the TriReagent procedure (Molecular Research Center, Cincinnati, OH) and the Qiagen Rneasy mini RNA cleanup protocol (Qiagen, Valencia, CA)
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Samples were labeled according to the Affymetrix protocol
| | Sample_hyb_protocol | Samples were hybridized according to the Affymetrix protocol
| | Sample_scan_protocol | Affymetrix protocol using a GeneChip scanner 3000
| | Sample_data_processing | Affymetrix GeneChip microarray suite software was used for washing and scanning. Expression summaries were calculated using an analysis algorithm adapted from Choe et al. (2005) [PMID: 15693945], in the sequence of "Background correction (MAS5), Quantile normalization (RMA), Perfect match adjustment (MAS5), Median polish (RMA), LOESS normalization.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Hongzu,,Ren
| | Sample_contact_email | ren.hongzu@epa.gov
| | Sample_contact_phone | 919-541-4576
| | Sample_contact_laboratory | NHEERL Toxicogenomics Core
| | Sample_contact_institute | US Environmental Protection Agency
| | Sample_contact_address | 109 TW Alexander Dr
| | Sample_contact_city | RTP
| | Sample_contact_state | NC
| | Sample_contact_zip/postal_code | 27711
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM280nnn/GSM280268/suppl/GSM280268.CEL.gz
| | Sample_series_id | GSE11097
| | Sample_data_row_count | 23324
| | |
|
GSM280269 | GPL1355 |
|
BN5 4month control
|
rat liver from 4month Brown Norway
|
Male Brown Norway rats were obtained from Charles River through NIA.
no additional
|
gene expression data from rat liver samples- 4,12,24 months old
|
| Sample_geo_accession | GSM280269
| | Sample_status | Public on Jul 30 2008
| | Sample_submission_date | Apr 08 2008
| | Sample_last_update_date | Jul 30 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | no treatment
| | Sample_growth_protocol_ch1 | Rats were housed individually. Animal facilities were controlled for temperature (20-24°C) and relative humidity (40-60%), and kept under a 12-h light-dark cycle.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using the TriReagent procedure (Molecular Research Center, Cincinnati, OH) and the Qiagen Rneasy mini RNA cleanup protocol (Qiagen, Valencia, CA)
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Samples were labeled according to the Affymetrix protocol
| | Sample_hyb_protocol | Samples were hybridized according to the Affymetrix protocol
| | Sample_scan_protocol | Affymetrix protocol using a GeneChip scanner 3000
| | Sample_data_processing | Affymetrix GeneChip microarray suite software was used for washing and scanning. Expression summaries were calculated using an analysis algorithm adapted from Choe et al. (2005) [PMID: 15693945], in the sequence of "Background correction (MAS5), Quantile normalization (RMA), Perfect match adjustment (MAS5), Median polish (RMA), LOESS normalization.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Hongzu,,Ren
| | Sample_contact_email | ren.hongzu@epa.gov
| | Sample_contact_phone | 919-541-4576
| | Sample_contact_laboratory | NHEERL Toxicogenomics Core
| | Sample_contact_institute | US Environmental Protection Agency
| | Sample_contact_address | 109 TW Alexander Dr
| | Sample_contact_city | RTP
| | Sample_contact_state | NC
| | Sample_contact_zip/postal_code | 27711
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM280nnn/GSM280269/suppl/GSM280269.CEL.gz
| | Sample_series_id | GSE11097
| | Sample_data_row_count | 23324
| | |
|
GSM280270 | GPL1355 |
|
BN19 4month high dose
|
rat liver from 4month Brown Norway exposed to toluene
|
Male Brown Norway rats were obtained from Charles River through NIA.
no additional
|
gene expression data from rat liver samples- 4,12,24 months old
|
| Sample_geo_accession | GSM280270
| | Sample_status | Public on Jul 30 2008
| | Sample_submission_date | Apr 08 2008
| | Sample_last_update_date | Jul 30 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | 1.0g/kg body weight toluene by gavage in corn oil
| | Sample_growth_protocol_ch1 | Rats were housed individually. Animal facilities were controlled for temperature (20-24°C) and relative humidity (40-60%), and kept under a 12-h light-dark cycle.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using the TriReagent procedure (Molecular Research Center, Cincinnati, OH) and the Qiagen Rneasy mini RNA cleanup protocol (Qiagen, Valencia, CA)
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Samples were labeled according to the Affymetrix protocol
| | Sample_hyb_protocol | Samples were hybridized according to the Affymetrix protocol
| | Sample_scan_protocol | Affymetrix protocol using a GeneChip scanner 3000
| | Sample_data_processing | Affymetrix GeneChip microarray suite software was used for washing and scanning. Expression summaries were calculated using an analysis algorithm adapted from Choe et al. (2005) [PMID: 15693945], in the sequence of "Background correction (MAS5), Quantile normalization (RMA), Perfect match adjustment (MAS5), Median polish (RMA), LOESS normalization.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Hongzu,,Ren
| | Sample_contact_email | ren.hongzu@epa.gov
| | Sample_contact_phone | 919-541-4576
| | Sample_contact_laboratory | NHEERL Toxicogenomics Core
| | Sample_contact_institute | US Environmental Protection Agency
| | Sample_contact_address | 109 TW Alexander Dr
| | Sample_contact_city | RTP
| | Sample_contact_state | NC
| | Sample_contact_zip/postal_code | 27711
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM280nnn/GSM280270/suppl/GSM280270.CEL.gz
| | Sample_series_id | GSE11097
| | Sample_data_row_count | 23324
| | |
|
GSM280271 | GPL1355 |
|
BN21 4month high dose
|
rat liver from 4month Brown Norway exposed to toluene
|
Male Brown Norway rats were obtained from Charles River through NIA.
no additional
|
gene expression data from rat liver samples- 4,12,24 months old
|
| Sample_geo_accession | GSM280271
| | Sample_status | Public on Jul 30 2008
| | Sample_submission_date | Apr 08 2008
| | Sample_last_update_date | Jul 30 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | 1.0g/kg body weight toluene by gavage in corn oil
| | Sample_growth_protocol_ch1 | Rats were housed individually. Animal facilities were controlled for temperature (20-24°C) and relative humidity (40-60%), and kept under a 12-h light-dark cycle.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using the TriReagent procedure (Molecular Research Center, Cincinnati, OH) and the Qiagen Rneasy mini RNA cleanup protocol (Qiagen, Valencia, CA)
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Samples were labeled according to the Affymetrix protocol
| | Sample_hyb_protocol | Samples were hybridized according to the Affymetrix protocol
| | Sample_scan_protocol | Affymetrix protocol using a GeneChip scanner 3000
| | Sample_data_processing | Affymetrix GeneChip microarray suite software was used for washing and scanning. Expression summaries were calculated using an analysis algorithm adapted from Choe et al. (2005) [PMID: 15693945], in the sequence of "Background correction (MAS5), Quantile normalization (RMA), Perfect match adjustment (MAS5), Median polish (RMA), LOESS normalization.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Hongzu,,Ren
| | Sample_contact_email | ren.hongzu@epa.gov
| | Sample_contact_phone | 919-541-4576
| | Sample_contact_laboratory | NHEERL Toxicogenomics Core
| | Sample_contact_institute | US Environmental Protection Agency
| | Sample_contact_address | 109 TW Alexander Dr
| | Sample_contact_city | RTP
| | Sample_contact_state | NC
| | Sample_contact_zip/postal_code | 27711
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM280nnn/GSM280271/suppl/GSM280271.CEL.gz
| | Sample_series_id | GSE11097
| | Sample_data_row_count | 23324
| | |
|
GSM280272 | GPL1355 |
|
BN22 4month high dose
|
rat liver from 4month Brown Norway exposed to toluene
|
Male Brown Norway rats were obtained from Charles River through NIA.
no additional
|
gene expression data from rat liver samples- 4,12,24 months old
|
| Sample_geo_accession | GSM280272
| | Sample_status | Public on Jul 30 2008
| | Sample_submission_date | Apr 08 2008
| | Sample_last_update_date | Jul 30 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | 1.0g/kg body weight toluene by gavage in corn oil
| | Sample_growth_protocol_ch1 | Rats were housed individually. Animal facilities were controlled for temperature (20-24°C) and relative humidity (40-60%), and kept under a 12-h light-dark cycle.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using the TriReagent procedure (Molecular Research Center, Cincinnati, OH) and the Qiagen Rneasy mini RNA cleanup protocol (Qiagen, Valencia, CA)
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Samples were labeled according to the Affymetrix protocol
| | Sample_hyb_protocol | Samples were hybridized according to the Affymetrix protocol
| | Sample_scan_protocol | Affymetrix protocol using a GeneChip scanner 3000
| | Sample_data_processing | Affymetrix GeneChip microarray suite software was used for washing and scanning. Expression summaries were calculated using an analysis algorithm adapted from Choe et al. (2005) [PMID: 15693945], in the sequence of "Background correction (MAS5), Quantile normalization (RMA), Perfect match adjustment (MAS5), Median polish (RMA), LOESS normalization.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Hongzu,,Ren
| | Sample_contact_email | ren.hongzu@epa.gov
| | Sample_contact_phone | 919-541-4576
| | Sample_contact_laboratory | NHEERL Toxicogenomics Core
| | Sample_contact_institute | US Environmental Protection Agency
| | Sample_contact_address | 109 TW Alexander Dr
| | Sample_contact_city | RTP
| | Sample_contact_state | NC
| | Sample_contact_zip/postal_code | 27711
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM280nnn/GSM280272/suppl/GSM280272.CEL.gz
| | Sample_series_id | GSE11097
| | Sample_data_row_count | 23324
| | |
|
GSM280273 | GPL1355 |
|
BN25 12month control
|
rat liver from 12month Brown Norway
|
Male Brown Norway rats were obtained from Charles River through NIA.
no additional
|
gene expression data from rat liver samples- 4,12,24 months old
|
| Sample_geo_accession | GSM280273
| | Sample_status | Public on Jul 30 2008
| | Sample_submission_date | Apr 08 2008
| | Sample_last_update_date | Jul 30 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | no treatment
| | Sample_growth_protocol_ch1 | Rats were housed individually. Animal facilities were controlled for temperature (20-24°C) and relative humidity (40-60%), and kept under a 12-h light-dark cycle.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using the TriReagent procedure (Molecular Research Center, Cincinnati, OH) and the Qiagen Rneasy mini RNA cleanup protocol (Qiagen, Valencia, CA)
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Samples were labeled according to the Affymetrix protocol
| | Sample_hyb_protocol | Samples were hybridized according to the Affymetrix protocol
| | Sample_scan_protocol | Affymetrix protocol using a GeneChip scanner 3000
| | Sample_data_processing | Affymetrix GeneChip microarray suite software was used for washing and scanning. Expression summaries were calculated using an analysis algorithm adapted from Choe et al. (2005) [PMID: 15693945], in the sequence of "Background correction (MAS5), Quantile normalization (RMA), Perfect match adjustment (MAS5), Median polish (RMA), LOESS normalization.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Hongzu,,Ren
| | Sample_contact_email | ren.hongzu@epa.gov
| | Sample_contact_phone | 919-541-4576
| | Sample_contact_laboratory | NHEERL Toxicogenomics Core
| | Sample_contact_institute | US Environmental Protection Agency
| | Sample_contact_address | 109 TW Alexander Dr
| | Sample_contact_city | RTP
| | Sample_contact_state | NC
| | Sample_contact_zip/postal_code | 27711
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM280nnn/GSM280273/suppl/GSM280273.CEL.gz
| | Sample_series_id | GSE11097
| | Sample_data_row_count | 23324
| | |
|
GSM280274 | GPL1355 |
|
BN27 12month control
|
rat liver from 12month Brown Norway
|
Male Brown Norway rats were obtained from Charles River through NIA.
no additional
|
gene expression data from rat liver samples- 4,12,24 months old
|
| Sample_geo_accession | GSM280274
| | Sample_status | Public on Jul 30 2008
| | Sample_submission_date | Apr 08 2008
| | Sample_last_update_date | Jul 30 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | no treatment
| | Sample_growth_protocol_ch1 | Rats were housed individually. Animal facilities were controlled for temperature (20-24°C) and relative humidity (40-60%), and kept under a 12-h light-dark cycle.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using the TriReagent procedure (Molecular Research Center, Cincinnati, OH) and the Qiagen Rneasy mini RNA cleanup protocol (Qiagen, Valencia, CA)
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Samples were labeled according to the Affymetrix protocol
| | Sample_hyb_protocol | Samples were hybridized according to the Affymetrix protocol
| | Sample_scan_protocol | Affymetrix protocol using a GeneChip scanner 3000
| | Sample_data_processing | Affymetrix GeneChip microarray suite software was used for washing and scanning. Expression summaries were calculated using an analysis algorithm adapted from Choe et al. (2005) [PMID: 15693945], in the sequence of "Background correction (MAS5), Quantile normalization (RMA), Perfect match adjustment (MAS5), Median polish (RMA), LOESS normalization.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Hongzu,,Ren
| | Sample_contact_email | ren.hongzu@epa.gov
| | Sample_contact_phone | 919-541-4576
| | Sample_contact_laboratory | NHEERL Toxicogenomics Core
| | Sample_contact_institute | US Environmental Protection Agency
| | Sample_contact_address | 109 TW Alexander Dr
| | Sample_contact_city | RTP
| | Sample_contact_state | NC
| | Sample_contact_zip/postal_code | 27711
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM280nnn/GSM280274/suppl/GSM280274.CEL.gz
| | Sample_series_id | GSE11097
| | Sample_data_row_count | 23324
| | |
|
GSM280275 | GPL1355 |
|
BN29 12month control
|
rat liver from 12month Brown Norway
|
Male Brown Norway rats were obtained from Charles River through NIA.
no additional
|
gene expression data from rat liver samples- 4,12,24 months old
|
| Sample_geo_accession | GSM280275
| | Sample_status | Public on Jul 30 2008
| | Sample_submission_date | Apr 08 2008
| | Sample_last_update_date | Jul 30 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | no treatment
| | Sample_growth_protocol_ch1 | Rats were housed individually. Animal facilities were controlled for temperature (20-24°C) and relative humidity (40-60%), and kept under a 12-h light-dark cycle.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using the TriReagent procedure (Molecular Research Center, Cincinnati, OH) and the Qiagen Rneasy mini RNA cleanup protocol (Qiagen, Valencia, CA)
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Samples were labeled according to the Affymetrix protocol
| | Sample_hyb_protocol | Samples were hybridized according to the Affymetrix protocol
| | Sample_scan_protocol | Affymetrix protocol using a GeneChip scanner 3000
| | Sample_data_processing | Affymetrix GeneChip microarray suite software was used for washing and scanning. Expression summaries were calculated using an analysis algorithm adapted from Choe et al. (2005) [PMID: 15693945], in the sequence of "Background correction (MAS5), Quantile normalization (RMA), Perfect match adjustment (MAS5), Median polish (RMA), LOESS normalization.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Hongzu,,Ren
| | Sample_contact_email | ren.hongzu@epa.gov
| | Sample_contact_phone | 919-541-4576
| | Sample_contact_laboratory | NHEERL Toxicogenomics Core
| | Sample_contact_institute | US Environmental Protection Agency
| | Sample_contact_address | 109 TW Alexander Dr
| | Sample_contact_city | RTP
| | Sample_contact_state | NC
| | Sample_contact_zip/postal_code | 27711
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM280nnn/GSM280275/suppl/GSM280275.CEL.gz
| | Sample_series_id | GSE11097
| | Sample_data_row_count | 23324
| | |
|
GSM280276 | GPL1355 |
|
BN43 12month high dose
|
rat liver from 12month Brown Norway exposed to toluene
|
Male Brown Norway rats were obtained from Charles River through NIA.
no additional
|
gene expression data from rat liver samples- 4,12,24 months old
|
| Sample_geo_accession | GSM280276
| | Sample_status | Public on Jul 30 2008
| | Sample_submission_date | Apr 08 2008
| | Sample_last_update_date | Jul 30 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | 1.0g/kg body weight toluene by gavage in corn oil
| | Sample_growth_protocol_ch1 | Rats were housed individually. Animal facilities were controlled for temperature (20-24°C) and relative humidity (40-60%), and kept under a 12-h light-dark cycle.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using the TriReagent procedure (Molecular Research Center, Cincinnati, OH) and the Qiagen Rneasy mini RNA cleanup protocol (Qiagen, Valencia, CA)
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Samples were labeled according to the Affymetrix protocol
| | Sample_hyb_protocol | Samples were hybridized according to the Affymetrix protocol
| | Sample_scan_protocol | Affymetrix protocol using a GeneChip scanner 3000
| | Sample_data_processing | Affymetrix GeneChip microarray suite software was used for washing and scanning. Expression summaries were calculated using an analysis algorithm adapted from Choe et al. (2005) [PMID: 15693945], in the sequence of "Background correction (MAS5), Quantile normalization (RMA), Perfect match adjustment (MAS5), Median polish (RMA), LOESS normalization.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Hongzu,,Ren
| | Sample_contact_email | ren.hongzu@epa.gov
| | Sample_contact_phone | 919-541-4576
| | Sample_contact_laboratory | NHEERL Toxicogenomics Core
| | Sample_contact_institute | US Environmental Protection Agency
| | Sample_contact_address | 109 TW Alexander Dr
| | Sample_contact_city | RTP
| | Sample_contact_state | NC
| | Sample_contact_zip/postal_code | 27711
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM280nnn/GSM280276/suppl/GSM280276.CEL.gz
| | Sample_series_id | GSE11097
| | Sample_data_row_count | 23324
| | |
|
GSM280277 | GPL1355 |
|
BN45 12month high dose
|
rat liver from 12month Brown Norway exposed to toluene
|
Male Brown Norway rats were obtained from Charles River through NIA.
no additional
|
gene expression data from rat liver samples- 4,12,24 months old
|
| Sample_geo_accession | GSM280277
| | Sample_status | Public on Jul 30 2008
| | Sample_submission_date | Apr 08 2008
| | Sample_last_update_date | Jul 30 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | 1.0g/kg body weight toluene by gavage in corn oil
| | Sample_growth_protocol_ch1 | Rats were housed individually. Animal facilities were controlled for temperature (20-24°C) and relative humidity (40-60%), and kept under a 12-h light-dark cycle.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using the TriReagent procedure (Molecular Research Center, Cincinnati, OH) and the Qiagen Rneasy mini RNA cleanup protocol (Qiagen, Valencia, CA)
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Samples were labeled according to the Affymetrix protocol
| | Sample_hyb_protocol | Samples were hybridized according to the Affymetrix protocol
| | Sample_scan_protocol | Affymetrix protocol using a GeneChip scanner 3000
| | Sample_data_processing | Affymetrix GeneChip microarray suite software was used for washing and scanning. Expression summaries were calculated using an analysis algorithm adapted from Choe et al. (2005) [PMID: 15693945], in the sequence of "Background correction (MAS5), Quantile normalization (RMA), Perfect match adjustment (MAS5), Median polish (RMA), LOESS normalization.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Hongzu,,Ren
| | Sample_contact_email | ren.hongzu@epa.gov
| | Sample_contact_phone | 919-541-4576
| | Sample_contact_laboratory | NHEERL Toxicogenomics Core
| | Sample_contact_institute | US Environmental Protection Agency
| | Sample_contact_address | 109 TW Alexander Dr
| | Sample_contact_city | RTP
| | Sample_contact_state | NC
| | Sample_contact_zip/postal_code | 27711
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM280nnn/GSM280277/suppl/GSM280277.CEL.gz
| | Sample_series_id | GSE11097
| | Sample_data_row_count | 23324
| | |
|
GSM280278 | GPL1355 |
|
BN46 12month high dose
|
rat liver from 12month Brown Norway exposed to toluene
|
Male Brown Norway rats were obtained from Charles River through NIA.
no additional
|
gene expression data from rat liver samples- 4,12,24 months old
|
| Sample_geo_accession | GSM280278
| | Sample_status | Public on Jul 30 2008
| | Sample_submission_date | Apr 08 2008
| | Sample_last_update_date | Jul 30 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | 1.0g/kg body weight toluene by gavage in corn oil
| | Sample_growth_protocol_ch1 | Rats were housed individually. Animal facilities were controlled for temperature (20-24°C) and relative humidity (40-60%), and kept under a 12-h light-dark cycle.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using the TriReagent procedure (Molecular Research Center, Cincinnati, OH) and the Qiagen Rneasy mini RNA cleanup protocol (Qiagen, Valencia, CA)
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Samples were labeled according to the Affymetrix protocol
| | Sample_hyb_protocol | Samples were hybridized according to the Affymetrix protocol
| | Sample_scan_protocol | Affymetrix protocol using a GeneChip scanner 3000
| | Sample_data_processing | Affymetrix GeneChip microarray suite software was used for washing and scanning. Expression summaries were calculated using an analysis algorithm adapted from Choe et al. (2005) [PMID: 15693945], in the sequence of "Background correction (MAS5), Quantile normalization (RMA), Perfect match adjustment (MAS5), Median polish (RMA), LOESS normalization.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Hongzu,,Ren
| | Sample_contact_email | ren.hongzu@epa.gov
| | Sample_contact_phone | 919-541-4576
| | Sample_contact_laboratory | NHEERL Toxicogenomics Core
| | Sample_contact_institute | US Environmental Protection Agency
| | Sample_contact_address | 109 TW Alexander Dr
| | Sample_contact_city | RTP
| | Sample_contact_state | NC
| | Sample_contact_zip/postal_code | 27711
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM280nnn/GSM280278/suppl/GSM280278.CEL.gz
| | Sample_series_id | GSE11097
| | Sample_data_row_count | 23324
| | |
|
GSM280279 | GPL1355 |
|
BN51 24month control
|
rat liver from 24month Brown Norway
|
Male Brown Norway rats were obtained from Charles River through NIA.
no additional
|
gene expression data from rat liver samples- 4,12,24 months old
|
| Sample_geo_accession | GSM280279
| | Sample_status | Public on Jul 30 2008
| | Sample_submission_date | Apr 08 2008
| | Sample_last_update_date | Jul 30 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | no treatment
| | Sample_growth_protocol_ch1 | Rats were housed individually. Animal facilities were controlled for temperature (20-24°C) and relative humidity (40-60%), and kept under a 12-h light-dark cycle.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using the TriReagent procedure (Molecular Research Center, Cincinnati, OH) and the Qiagen Rneasy mini RNA cleanup protocol (Qiagen, Valencia, CA)
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Samples were labeled according to the Affymetrix protocol
| | Sample_hyb_protocol | Samples were hybridized according to the Affymetrix protocol
| | Sample_scan_protocol | Affymetrix protocol using a GeneChip scanner 3000
| | Sample_data_processing | Affymetrix GeneChip microarray suite software was used for washing and scanning. Expression summaries were calculated using an analysis algorithm adapted from Choe et al. (2005) [PMID: 15693945], in the sequence of "Background correction (MAS5), Quantile normalization (RMA), Perfect match adjustment (MAS5), Median polish (RMA), LOESS normalization.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Hongzu,,Ren
| | Sample_contact_email | ren.hongzu@epa.gov
| | Sample_contact_phone | 919-541-4576
| | Sample_contact_laboratory | NHEERL Toxicogenomics Core
| | Sample_contact_institute | US Environmental Protection Agency
| | Sample_contact_address | 109 TW Alexander Dr
| | Sample_contact_city | RTP
| | Sample_contact_state | NC
| | Sample_contact_zip/postal_code | 27711
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM280nnn/GSM280279/suppl/GSM280279.CEL.gz
| | Sample_series_id | GSE11097
| | Sample_data_row_count | 23324
| | |
|
GSM280280 | GPL1355 |
|
BN52 24month control
|
rat liver from 24month Brown Norway
|
Male Brown Norway rats were obtained from Charles River through NIA.
no additional
|
gene expression data from rat liver samples- 4,12,24 months old
|
| Sample_geo_accession | GSM280280
| | Sample_status | Public on Jul 30 2008
| | Sample_submission_date | Apr 08 2008
| | Sample_last_update_date | Jul 30 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | no treatment
| | Sample_growth_protocol_ch1 | Rats were housed individually. Animal facilities were controlled for temperature (20-24°C) and relative humidity (40-60%), and kept under a 12-h light-dark cycle.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using the TriReagent procedure (Molecular Research Center, Cincinnati, OH) and the Qiagen Rneasy mini RNA cleanup protocol (Qiagen, Valencia, CA)
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Samples were labeled according to the Affymetrix protocol
| | Sample_hyb_protocol | Samples were hybridized according to the Affymetrix protocol
| | Sample_scan_protocol | Affymetrix protocol using a GeneChip scanner 3000
| | Sample_data_processing | Affymetrix GeneChip microarray suite software was used for washing and scanning. Expression summaries were calculated using an analysis algorithm adapted from Choe et al. (2005) [PMID: 15693945], in the sequence of "Background correction (MAS5), Quantile normalization (RMA), Perfect match adjustment (MAS5), Median polish (RMA), LOESS normalization.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Hongzu,,Ren
| | Sample_contact_email | ren.hongzu@epa.gov
| | Sample_contact_phone | 919-541-4576
| | Sample_contact_laboratory | NHEERL Toxicogenomics Core
| | Sample_contact_institute | US Environmental Protection Agency
| | Sample_contact_address | 109 TW Alexander Dr
| | Sample_contact_city | RTP
| | Sample_contact_state | NC
| | Sample_contact_zip/postal_code | 27711
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM280nnn/GSM280280/suppl/GSM280280.CEL.gz
| | Sample_series_id | GSE11097
| | Sample_data_row_count | 23324
| | |
|
GSM280281 | GPL1355 |
|
BN53 24month control
|
rat liver from 24month Brown Norway
|
Male Brown Norway rats were obtained from Charles River through NIA.
no additional
|
gene expression data from rat liver samples- 4,12,24 months old
|
| Sample_geo_accession | GSM280281
| | Sample_status | Public on Jul 30 2008
| | Sample_submission_date | Apr 08 2008
| | Sample_last_update_date | Jul 30 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | no treatment
| | Sample_growth_protocol_ch1 | Rats were housed individually. Animal facilities were controlled for temperature (20-24°C) and relative humidity (40-60%), and kept under a 12-h light-dark cycle.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using the TriReagent procedure (Molecular Research Center, Cincinnati, OH) and the Qiagen Rneasy mini RNA cleanup protocol (Qiagen, Valencia, CA)
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Samples were labeled according to the Affymetrix protocol
| | Sample_hyb_protocol | Samples were hybridized according to the Affymetrix protocol
| | Sample_scan_protocol | Affymetrix protocol using a GeneChip scanner 3000
| | Sample_data_processing | Affymetrix GeneChip microarray suite software was used for washing and scanning. Expression summaries were calculated using an analysis algorithm adapted from Choe et al. (2005) [PMID: 15693945], in the sequence of "Background correction (MAS5), Quantile normalization (RMA), Perfect match adjustment (MAS5), Median polish (RMA), LOESS normalization.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Hongzu,,Ren
| | Sample_contact_email | ren.hongzu@epa.gov
| | Sample_contact_phone | 919-541-4576
| | Sample_contact_laboratory | NHEERL Toxicogenomics Core
| | Sample_contact_institute | US Environmental Protection Agency
| | Sample_contact_address | 109 TW Alexander Dr
| | Sample_contact_city | RTP
| | Sample_contact_state | NC
| | Sample_contact_zip/postal_code | 27711
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM280nnn/GSM280281/suppl/GSM280281.CEL.gz
| | Sample_series_id | GSE11097
| | Sample_data_row_count | 23324
| | |
|
GSM280282 | GPL1355 |
|
BN69 24month high dose
|
rat liver from 24month Brown Norway exposed to toluene
|
Male Brown Norway rats were obtained from Charles River through NIA.
no additional
|
gene expression data from rat liver samples- 4,12,24 months old
|
| Sample_geo_accession | GSM280282
| | Sample_status | Public on Jul 30 2008
| | Sample_submission_date | Apr 08 2008
| | Sample_last_update_date | Jul 30 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | 1.0g/kg body weight toluene by gavage in corn oil
| | Sample_growth_protocol_ch1 | Rats were housed individually. Animal facilities were controlled for temperature (20-24°C) and relative humidity (40-60%), and kept under a 12-h light-dark cycle.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using the TriReagent procedure (Molecular Research Center, Cincinnati, OH) and the Qiagen Rneasy mini RNA cleanup protocol (Qiagen, Valencia, CA)
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Samples were labeled according to the Affymetrix protocol
| | Sample_hyb_protocol | Samples were hybridized according to the Affymetrix protocol
| | Sample_scan_protocol | Affymetrix protocol using a GeneChip scanner 3000
| | Sample_data_processing | Affymetrix GeneChip microarray suite software was used for washing and scanning. Expression summaries were calculated using an analysis algorithm adapted from Choe et al. (2005) [PMID: 15693945], in the sequence of "Background correction (MAS5), Quantile normalization (RMA), Perfect match adjustment (MAS5), Median polish (RMA), LOESS normalization.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Hongzu,,Ren
| | Sample_contact_email | ren.hongzu@epa.gov
| | Sample_contact_phone | 919-541-4576
| | Sample_contact_laboratory | NHEERL Toxicogenomics Core
| | Sample_contact_institute | US Environmental Protection Agency
| | Sample_contact_address | 109 TW Alexander Dr
| | Sample_contact_city | RTP
| | Sample_contact_state | NC
| | Sample_contact_zip/postal_code | 27711
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM280nnn/GSM280282/suppl/GSM280282.CEL.gz
| | Sample_series_id | GSE11097
| | Sample_data_row_count | 23324
| | |
|
GSM280283 | GPL1355 |
|
BN70 24month high dose
|
rat liver from 24month Brown Norway exposed to toluene
|
Male Brown Norway rats were obtained from Charles River through NIA.
no additional
|
gene expression data from rat liver samples- 4,12,24 months old
|
| Sample_geo_accession | GSM280283
| | Sample_status | Public on Jul 30 2008
| | Sample_submission_date | Apr 08 2008
| | Sample_last_update_date | Jul 30 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | 1.0g/kg body weight toluene by gavage in corn oil
| | Sample_growth_protocol_ch1 | Rats were housed individually. Animal facilities were controlled for temperature (20-24°C) and relative humidity (40-60%), and kept under a 12-h light-dark cycle.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using the TriReagent procedure (Molecular Research Center, Cincinnati, OH) and the Qiagen Rneasy mini RNA cleanup protocol (Qiagen, Valencia, CA)
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Samples were labeled according to the Affymetrix protocol
| | Sample_hyb_protocol | Samples were hybridized according to the Affymetrix protocol
| | Sample_scan_protocol | Affymetrix protocol using a GeneChip scanner 3000
| | Sample_data_processing | Affymetrix GeneChip microarray suite software was used for washing and scanning. Expression summaries were calculated using an analysis algorithm adapted from Choe et al. (2005) [PMID: 15693945], in the sequence of "Background correction (MAS5), Quantile normalization (RMA), Perfect match adjustment (MAS5), Median polish (RMA), LOESS normalization.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Hongzu,,Ren
| | Sample_contact_email | ren.hongzu@epa.gov
| | Sample_contact_phone | 919-541-4576
| | Sample_contact_laboratory | NHEERL Toxicogenomics Core
| | Sample_contact_institute | US Environmental Protection Agency
| | Sample_contact_address | 109 TW Alexander Dr
| | Sample_contact_city | RTP
| | Sample_contact_state | NC
| | Sample_contact_zip/postal_code | 27711
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM280nnn/GSM280283/suppl/GSM280283.CEL.gz
| | Sample_series_id | GSE11097
| | Sample_data_row_count | 23324
| | |
|
GSM280284 | GPL1355 |
|
BN71 24month high dose
|
rat liver from 24month Brown Norway exposed to toluene
|
Male Brown Norway rats were obtained from Charles River through NIA.
no additional
|
gene expression data from rat liver samples- 4,12,24 months old
|
| Sample_geo_accession | GSM280284
| | Sample_status | Public on Jul 30 2008
| | Sample_submission_date | Apr 08 2008
| | Sample_last_update_date | Jul 30 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | 1.0g/kg body weight toluene by gavage in corn oil
| | Sample_growth_protocol_ch1 | Rats were housed individually. Animal facilities were controlled for temperature (20-24°C) and relative humidity (40-60%), and kept under a 12-h light-dark cycle.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using the TriReagent procedure (Molecular Research Center, Cincinnati, OH) and the Qiagen Rneasy mini RNA cleanup protocol (Qiagen, Valencia, CA)
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Samples were labeled according to the Affymetrix protocol
| | Sample_hyb_protocol | Samples were hybridized according to the Affymetrix protocol
| | Sample_scan_protocol | Affymetrix protocol using a GeneChip scanner 3000
| | Sample_data_processing | Affymetrix GeneChip microarray suite software was used for washing and scanning. Expression summaries were calculated using an analysis algorithm adapted from Choe et al. (2005) [PMID: 15693945], in the sequence of "Background correction (MAS5), Quantile normalization (RMA), Perfect match adjustment (MAS5), Median polish (RMA), LOESS normalization.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Hongzu,,Ren
| | Sample_contact_email | ren.hongzu@epa.gov
| | Sample_contact_phone | 919-541-4576
| | Sample_contact_laboratory | NHEERL Toxicogenomics Core
| | Sample_contact_institute | US Environmental Protection Agency
| | Sample_contact_address | 109 TW Alexander Dr
| | Sample_contact_city | RTP
| | Sample_contact_state | NC
| | Sample_contact_zip/postal_code | 27711
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM280nnn/GSM280284/suppl/GSM280284.CEL.gz
| | Sample_series_id | GSE11097
| | Sample_data_row_count | 23324
| | |
|
GSM280394 | GPL1355 |
|
6985_24month
|
rat liver from 24month F344
|
Male F344 rats were obtained from Charles River.
no additional
|
gene expression data from rat liver samples- 6,11,18,24 months old
|
| Sample_geo_accession | GSM280394
| | Sample_status | Public on Jul 30 2008
| | Sample_submission_date | Apr 09 2008
| | Sample_last_update_date | Jul 30 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | no treatment
| | Sample_growth_protocol_ch1 | Rats were housed at Charles River until 1 week before necropsy. Animal facilities were controlled for temperature (20-24°C) and relative humidity (40-60%), and kept under a 12-h light-dark cycle.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using the TriReagent procedure (Molecular Research Center, Cincinnati, OH) and the Qiagen Rneasy mini RNA cleanup protocol (Qiagen, Valencia, CA)
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Samples were labeled according to the Affymetrix protocol
| | Sample_hyb_protocol | Samples were hybridized according to the Affymetrix protocol
| | Sample_scan_protocol | Affymetrix protocol using a GeneChip scanner 3000
| | Sample_data_processing | Affymetrix GeneChip microarray suite software was used for washing and scanning. Expression summaries were calculated using an analysis algorithm adapted from Choe et al. (2005) [PMID: 15693945], in the sequence of "Background correction (MAS5), Quantile normalization (RMA), Perfect match adjustment (MAS5), Median polish (RMA), LOESS normalization.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Hongzu,,Ren
| | Sample_contact_email | ren.hongzu@epa.gov
| | Sample_contact_phone | 919-541-4576
| | Sample_contact_laboratory | NHEERL Toxicogenomics Core
| | Sample_contact_institute | US Environmental Protection Agency
| | Sample_contact_address | 109 TW Alexander Dr
| | Sample_contact_city | RTP
| | Sample_contact_state | NC
| | Sample_contact_zip/postal_code | 27711
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM280nnn/GSM280394/suppl/GSM280394.CEL.gz
| | Sample_series_id | GSE11097
| | Sample_data_row_count | 23324
| | |
|
GSM280395 | GPL1355 |
|
7030_24month
|
rat liver from 24month F344
|
Male F344 rats were obtained from Charles River.
no additional
|
gene expression data from rat liver samples- 6,11,18,24 months old
|
| Sample_geo_accession | GSM280395
| | Sample_status | Public on Jul 30 2008
| | Sample_submission_date | Apr 09 2008
| | Sample_last_update_date | Jul 30 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | no treatment
| | Sample_growth_protocol_ch1 | Rats were housed at Charles River until 1 week before necropsy. Animal facilities were controlled for temperature (20-24°C) and relative humidity (40-60%), and kept under a 12-h light-dark cycle.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using the TriReagent procedure (Molecular Research Center, Cincinnati, OH) and the Qiagen Rneasy mini RNA cleanup protocol (Qiagen, Valencia, CA)
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Samples were labeled according to the Affymetrix protocol
| | Sample_hyb_protocol | Samples were hybridized according to the Affymetrix protocol
| | Sample_scan_protocol | Affymetrix protocol using a GeneChip scanner 3000
| | Sample_data_processing | Affymetrix GeneChip microarray suite software was used for washing and scanning. Expression summaries were calculated using an analysis algorithm adapted from Choe et al. (2005) [PMID: 15693945], in the sequence of "Background correction (MAS5), Quantile normalization (RMA), Perfect match adjustment (MAS5), Median polish (RMA), LOESS normalization.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Hongzu,,Ren
| | Sample_contact_email | ren.hongzu@epa.gov
| | Sample_contact_phone | 919-541-4576
| | Sample_contact_laboratory | NHEERL Toxicogenomics Core
| | Sample_contact_institute | US Environmental Protection Agency
| | Sample_contact_address | 109 TW Alexander Dr
| | Sample_contact_city | RTP
| | Sample_contact_state | NC
| | Sample_contact_zip/postal_code | 27711
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM280nnn/GSM280395/suppl/GSM280395.CEL.gz
| | Sample_series_id | GSE11097
| | Sample_data_row_count | 23324
| | |
|
GSM280396 | GPL1355 |
|
7060_24month
|
rat liver from 24month F344
|
Male F344 rats were obtained from Charles River.
no additional
|
gene expression data from rat liver samples- 6,11,18,24 months old
|
| Sample_geo_accession | GSM280396
| | Sample_status | Public on Jul 30 2008
| | Sample_submission_date | Apr 09 2008
| | Sample_last_update_date | Jul 30 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | no treatment
| | Sample_growth_protocol_ch1 | Rats were housed at Charles River until 1 week before necropsy. Animal facilities were controlled for temperature (20-24°C) and relative humidity (40-60%), and kept under a 12-h light-dark cycle.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using the TriReagent procedure (Molecular Research Center, Cincinnati, OH) and the Qiagen Rneasy mini RNA cleanup protocol (Qiagen, Valencia, CA)
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Samples were labeled according to the Affymetrix protocol
| | Sample_hyb_protocol | Samples were hybridized according to the Affymetrix protocol
| | Sample_scan_protocol | Affymetrix protocol using a GeneChip scanner 3000
| | Sample_data_processing | Affymetrix GeneChip microarray suite software was used for washing and scanning. Expression summaries were calculated using an analysis algorithm adapted from Choe et al. (2005) [PMID: 15693945], in the sequence of "Background correction (MAS5), Quantile normalization (RMA), Perfect match adjustment (MAS5), Median polish (RMA), LOESS normalization.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Hongzu,,Ren
| | Sample_contact_email | ren.hongzu@epa.gov
| | Sample_contact_phone | 919-541-4576
| | Sample_contact_laboratory | NHEERL Toxicogenomics Core
| | Sample_contact_institute | US Environmental Protection Agency
| | Sample_contact_address | 109 TW Alexander Dr
| | Sample_contact_city | RTP
| | Sample_contact_state | NC
| | Sample_contact_zip/postal_code | 27711
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM280nnn/GSM280396/suppl/GSM280396.CEL.gz
| | Sample_series_id | GSE11097
| | Sample_data_row_count | 23324
| | |
|
GSM280397 | GPL1355 |
|
7075_24month
|
rat liver from 24month F344
|
Male F344 rats were obtained from Charles River.
no additional
|
gene expression data from rat liver samples- 6,11,18,24 months old
|
| Sample_geo_accession | GSM280397
| | Sample_status | Public on Jul 30 2008
| | Sample_submission_date | Apr 09 2008
| | Sample_last_update_date | Jul 30 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | no treatment
| | Sample_growth_protocol_ch1 | Rats were housed at Charles River until 1 week before necropsy. Animal facilities were controlled for temperature (20-24°C) and relative humidity (40-60%), and kept under a 12-h light-dark cycle.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using the TriReagent procedure (Molecular Research Center, Cincinnati, OH) and the Qiagen Rneasy mini RNA cleanup protocol (Qiagen, Valencia, CA)
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Samples were labeled according to the Affymetrix protocol
| | Sample_hyb_protocol | Samples were hybridized according to the Affymetrix protocol
| | Sample_scan_protocol | Affymetrix protocol using a GeneChip scanner 3000
| | Sample_data_processing | Affymetrix GeneChip microarray suite software was used for washing and scanning. Expression summaries were calculated using an analysis algorithm adapted from Choe et al. (2005) [PMID: 15693945], in the sequence of "Background correction (MAS5), Quantile normalization (RMA), Perfect match adjustment (MAS5), Median polish (RMA), LOESS normalization.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Hongzu,,Ren
| | Sample_contact_email | ren.hongzu@epa.gov
| | Sample_contact_phone | 919-541-4576
| | Sample_contact_laboratory | NHEERL Toxicogenomics Core
| | Sample_contact_institute | US Environmental Protection Agency
| | Sample_contact_address | 109 TW Alexander Dr
| | Sample_contact_city | RTP
| | Sample_contact_state | NC
| | Sample_contact_zip/postal_code | 27711
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM280nnn/GSM280397/suppl/GSM280397.CEL.gz
| | Sample_series_id | GSE11097
| | Sample_data_row_count | 23324
| | |
|
GSM280398 | GPL1355 |
|
7421_18month
|
rat liver from 18month F344
|
Male F344 rats were obtained from Charles River.
no additional
|
gene expression data from rat liver samples- 6,11,18,24 months old
|
| Sample_geo_accession | GSM280398
| | Sample_status | Public on Jul 30 2008
| | Sample_submission_date | Apr 09 2008
| | Sample_last_update_date | Jul 30 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | no treatment
| | Sample_growth_protocol_ch1 | Rats were housed at Charles River until 1 week before necropsy. Animal facilities were controlled for temperature (20-24°C) and relative humidity (40-60%), and kept under a 12-h light-dark cycle.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using the TriReagent procedure (Molecular Research Center, Cincinnati, OH) and the Qiagen Rneasy mini RNA cleanup protocol (Qiagen, Valencia, CA)
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Samples were labeled according to the Affymetrix protocol
| | Sample_hyb_protocol | Samples were hybridized according to the Affymetrix protocol
| | Sample_scan_protocol | Affymetrix protocol using a GeneChip scanner 3000
| | Sample_data_processing | Affymetrix GeneChip microarray suite software was used for washing and scanning. Expression summaries were calculated using an analysis algorithm adapted from Choe et al. (2005) [PMID: 15693945], in the sequence of "Background correction (MAS5), Quantile normalization (RMA), Perfect match adjustment (MAS5), Median polish (RMA), LOESS normalization.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Hongzu,,Ren
| | Sample_contact_email | ren.hongzu@epa.gov
| | Sample_contact_phone | 919-541-4576
| | Sample_contact_laboratory | NHEERL Toxicogenomics Core
| | Sample_contact_institute | US Environmental Protection Agency
| | Sample_contact_address | 109 TW Alexander Dr
| | Sample_contact_city | RTP
| | Sample_contact_state | NC
| | Sample_contact_zip/postal_code | 27711
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM280nnn/GSM280398/suppl/GSM280398.CEL.gz
| | Sample_series_id | GSE11097
| | Sample_data_row_count | 23324
| | |
|
GSM280399 | GPL1355 |
|
7434_18month
|
rat liver from 18month F344
|
Male F344 rats were obtained from Charles River.
no additional
|
gene expression data from rat liver samples- 6,11,18,24 months old
|
| Sample_geo_accession | GSM280399
| | Sample_status | Public on Jul 30 2008
| | Sample_submission_date | Apr 09 2008
| | Sample_last_update_date | Jul 30 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | no treatment
| | Sample_growth_protocol_ch1 | Rats were housed at Charles River until 1 week before necropsy. Animal facilities were controlled for temperature (20-24°C) and relative humidity (40-60%), and kept under a 12-h light-dark cycle.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using the TriReagent procedure (Molecular Research Center, Cincinnati, OH) and the Qiagen Rneasy mini RNA cleanup protocol (Qiagen, Valencia, CA)
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Samples were labeled according to the Affymetrix protocol
| | Sample_hyb_protocol | Samples were hybridized according to the Affymetrix protocol
| | Sample_scan_protocol | Affymetrix protocol using a GeneChip scanner 3000
| | Sample_data_processing | Affymetrix GeneChip microarray suite software was used for washing and scanning. Expression summaries were calculated using an analysis algorithm adapted from Choe et al. (2005) [PMID: 15693945], in the sequence of "Background correction (MAS5), Quantile normalization (RMA), Perfect match adjustment (MAS5), Median polish (RMA), LOESS normalization.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Hongzu,,Ren
| | Sample_contact_email | ren.hongzu@epa.gov
| | Sample_contact_phone | 919-541-4576
| | Sample_contact_laboratory | NHEERL Toxicogenomics Core
| | Sample_contact_institute | US Environmental Protection Agency
| | Sample_contact_address | 109 TW Alexander Dr
| | Sample_contact_city | RTP
| | Sample_contact_state | NC
| | Sample_contact_zip/postal_code | 27711
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM280nnn/GSM280399/suppl/GSM280399.CEL.gz
| | Sample_series_id | GSE11097
| | Sample_data_row_count | 23324
| | |
|
GSM280400 | GPL1355 |
|
7450_18month
|
rat liver from 18month F344
|
Male F344 rats were obtained from Charles River.
no additional
|
gene expression data from rat liver samples- 6,11,18,24 months old
|
| Sample_geo_accession | GSM280400
| | Sample_status | Public on Jul 30 2008
| | Sample_submission_date | Apr 09 2008
| | Sample_last_update_date | Jul 30 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | no treatment
| | Sample_growth_protocol_ch1 | Rats were housed at Charles River until 1 week before necropsy. Animal facilities were controlled for temperature (20-24°C) and relative humidity (40-60%), and kept under a 12-h light-dark cycle.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using the TriReagent procedure (Molecular Research Center, Cincinnati, OH) and the Qiagen Rneasy mini RNA cleanup protocol (Qiagen, Valencia, CA)
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Samples were labeled according to the Affymetrix protocol
| | Sample_hyb_protocol | Samples were hybridized according to the Affymetrix protocol
| | Sample_scan_protocol | Affymetrix protocol using a GeneChip scanner 3000
| | Sample_data_processing | Affymetrix GeneChip microarray suite software was used for washing and scanning. Expression summaries were calculated using an analysis algorithm adapted from Choe et al. (2005) [PMID: 15693945], in the sequence of "Background correction (MAS5), Quantile normalization (RMA), Perfect match adjustment (MAS5), Median polish (RMA), LOESS normalization.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Hongzu,,Ren
| | Sample_contact_email | ren.hongzu@epa.gov
| | Sample_contact_phone | 919-541-4576
| | Sample_contact_laboratory | NHEERL Toxicogenomics Core
| | Sample_contact_institute | US Environmental Protection Agency
| | Sample_contact_address | 109 TW Alexander Dr
| | Sample_contact_city | RTP
| | Sample_contact_state | NC
| | Sample_contact_zip/postal_code | 27711
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM280nnn/GSM280400/suppl/GSM280400.CEL.gz
| | Sample_series_id | GSE11097
| | Sample_data_row_count | 23324
| | |
|
GSM280401 | GPL1355 |
|
7525_18month
|
rat liver from 18month F344
|
Male F344 rats were obtained from Charles River.
no additional
|
gene expression data from rat liver samples- 6,11,18,24 months old
|
| Sample_geo_accession | GSM280401
| | Sample_status | Public on Jul 30 2008
| | Sample_submission_date | Apr 09 2008
| | Sample_last_update_date | Jul 30 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | no treatment
| | Sample_growth_protocol_ch1 | Rats were housed at Charles River until 1 week before necropsy. Animal facilities were controlled for temperature (20-24°C) and relative humidity (40-60%), and kept under a 12-h light-dark cycle.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using the TriReagent procedure (Molecular Research Center, Cincinnati, OH) and the Qiagen Rneasy mini RNA cleanup protocol (Qiagen, Valencia, CA)
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Samples were labeled according to the Affymetrix protocol
| | Sample_hyb_protocol | Samples were hybridized according to the Affymetrix protocol
| | Sample_scan_protocol | Affymetrix protocol using a GeneChip scanner 3000
| | Sample_data_processing | Affymetrix GeneChip microarray suite software was used for washing and scanning. Expression summaries were calculated using an analysis algorithm adapted from Choe et al. (2005) [PMID: 15693945], in the sequence of "Background correction (MAS5), Quantile normalization (RMA), Perfect match adjustment (MAS5), Median polish (RMA), LOESS normalization.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Hongzu,,Ren
| | Sample_contact_email | ren.hongzu@epa.gov
| | Sample_contact_phone | 919-541-4576
| | Sample_contact_laboratory | NHEERL Toxicogenomics Core
| | Sample_contact_institute | US Environmental Protection Agency
| | Sample_contact_address | 109 TW Alexander Dr
| | Sample_contact_city | RTP
| | Sample_contact_state | NC
| | Sample_contact_zip/postal_code | 27711
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM280nnn/GSM280401/suppl/GSM280401.CEL.gz
| | Sample_series_id | GSE11097
| | Sample_data_row_count | 23324
| | |
|
GSM280402 | GPL1355 |
|
7975_11month
|
rat liver from 11month F344
|
Male F344 rats were obtained from Charles River.
no additional
|
gene expression data from rat liver samples- 6,11,18,24 months old
|
| Sample_geo_accession | GSM280402
| | Sample_status | Public on Jul 30 2008
| | Sample_submission_date | Apr 09 2008
| | Sample_last_update_date | Jul 30 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | no treatment
| | Sample_growth_protocol_ch1 | Rats were housed at Charles River until 1 week before necropsy. Animal facilities were controlled for temperature (20-24°C) and relative humidity (40-60%), and kept under a 12-h light-dark cycle.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using the TriReagent procedure (Molecular Research Center, Cincinnati, OH) and the Qiagen Rneasy mini RNA cleanup protocol (Qiagen, Valencia, CA)
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Samples were labeled according to the Affymetrix protocol
| | Sample_hyb_protocol | Samples were hybridized according to the Affymetrix protocol
| | Sample_scan_protocol | Affymetrix protocol using a GeneChip scanner 3000
| | Sample_data_processing | Affymetrix GeneChip microarray suite software was used for washing and scanning. Expression summaries were calculated using an analysis algorithm adapted from Choe et al. (2005) [PMID: 15693945], in the sequence of "Background correction (MAS5), Quantile normalization (RMA), Perfect match adjustment (MAS5), Median polish (RMA), LOESS normalization.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Hongzu,,Ren
| | Sample_contact_email | ren.hongzu@epa.gov
| | Sample_contact_phone | 919-541-4576
| | Sample_contact_laboratory | NHEERL Toxicogenomics Core
| | Sample_contact_institute | US Environmental Protection Agency
| | Sample_contact_address | 109 TW Alexander Dr
| | Sample_contact_city | RTP
| | Sample_contact_state | NC
| | Sample_contact_zip/postal_code | 27711
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM280nnn/GSM280402/suppl/GSM280402.CEL.gz
| | Sample_series_id | GSE11097
| | Sample_data_row_count | 23324
| | |
|
GSM280403 | GPL1355 |
|
8005_11month
|
rat liver from 11month F344
|
Male F344 rats were obtained from Charles River.
no additional
|
gene expression data from rat liver samples- 6,11,18,24 months old
|
| Sample_geo_accession | GSM280403
| | Sample_status | Public on Jul 30 2008
| | Sample_submission_date | Apr 09 2008
| | Sample_last_update_date | Jul 30 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | no treatment
| | Sample_growth_protocol_ch1 | Rats were housed at Charles River until 1 week before necropsy. Animal facilities were controlled for temperature (20-24°C) and relative humidity (40-60%), and kept under a 12-h light-dark cycle.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using the TriReagent procedure (Molecular Research Center, Cincinnati, OH) and the Qiagen Rneasy mini RNA cleanup protocol (Qiagen, Valencia, CA)
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Samples were labeled according to the Affymetrix protocol
| | Sample_hyb_protocol | Samples were hybridized according to the Affymetrix protocol
| | Sample_scan_protocol | Affymetrix protocol using a GeneChip scanner 3000
| | Sample_data_processing | Affymetrix GeneChip microarray suite software was used for washing and scanning. Expression summaries were calculated using an analysis algorithm adapted from Choe et al. (2005) [PMID: 15693945], in the sequence of "Background correction (MAS5), Quantile normalization (RMA), Perfect match adjustment (MAS5), Median polish (RMA), LOESS normalization.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Hongzu,,Ren
| | Sample_contact_email | ren.hongzu@epa.gov
| | Sample_contact_phone | 919-541-4576
| | Sample_contact_laboratory | NHEERL Toxicogenomics Core
| | Sample_contact_institute | US Environmental Protection Agency
| | Sample_contact_address | 109 TW Alexander Dr
| | Sample_contact_city | RTP
| | Sample_contact_state | NC
| | Sample_contact_zip/postal_code | 27711
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM280nnn/GSM280403/suppl/GSM280403.CEL.gz
| | Sample_series_id | GSE11097
| | Sample_data_row_count | 23324
| | |
|
GSM280404 | GPL1355 |
|
8035_11month
|
rat liver from 11month F344
|
Male F344 rats were obtained from Charles River.
no additional
|
gene expression data from rat liver samples- 6,11,18,24 months old
|
| Sample_geo_accession | GSM280404
| | Sample_status | Public on Jul 30 2008
| | Sample_submission_date | Apr 09 2008
| | Sample_last_update_date | Jul 30 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | no treatment
| | Sample_growth_protocol_ch1 | Rats were housed at Charles River until 1 week before necropsy. Animal facilities were controlled for temperature (20-24°C) and relative humidity (40-60%), and kept under a 12-h light-dark cycle.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using the TriReagent procedure (Molecular Research Center, Cincinnati, OH) and the Qiagen Rneasy mini RNA cleanup protocol (Qiagen, Valencia, CA)
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Samples were labeled according to the Affymetrix protocol
| | Sample_hyb_protocol | Samples were hybridized according to the Affymetrix protocol
| | Sample_scan_protocol | Affymetrix protocol using a GeneChip scanner 3000
| | Sample_data_processing | Affymetrix GeneChip microarray suite software was used for washing and scanning. Expression summaries were calculated using an analysis algorithm adapted from Choe et al. (2005) [PMID: 15693945], in the sequence of "Background correction (MAS5), Quantile normalization (RMA), Perfect match adjustment (MAS5), Median polish (RMA), LOESS normalization.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Hongzu,,Ren
| | Sample_contact_email | ren.hongzu@epa.gov
| | Sample_contact_phone | 919-541-4576
| | Sample_contact_laboratory | NHEERL Toxicogenomics Core
| | Sample_contact_institute | US Environmental Protection Agency
| | Sample_contact_address | 109 TW Alexander Dr
| | Sample_contact_city | RTP
| | Sample_contact_state | NC
| | Sample_contact_zip/postal_code | 27711
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM280nnn/GSM280404/suppl/GSM280404.CEL.gz
| | Sample_series_id | GSE11097
| | Sample_data_row_count | 23324
| | |
|
GSM280405 | GPL1355 |
|
8095_11month
|
rat liver from 11month F344
|
Male F344 rats were obtained from Charles River.
no additional
|
gene expression data from rat liver samples- 6,11,18,24 months old
|
| Sample_geo_accession | GSM280405
| | Sample_status | Public on Jul 30 2008
| | Sample_submission_date | Apr 09 2008
| | Sample_last_update_date | Jul 30 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | no treatment
| | Sample_growth_protocol_ch1 | Rats were housed at Charles River until 1 week before necropsy. Animal facilities were controlled for temperature (20-24°C) and relative humidity (40-60%), and kept under a 12-h light-dark cycle.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using the TriReagent procedure (Molecular Research Center, Cincinnati, OH) and the Qiagen Rneasy mini RNA cleanup protocol (Qiagen, Valencia, CA)
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Samples were labeled according to the Affymetrix protocol
| | Sample_hyb_protocol | Samples were hybridized according to the Affymetrix protocol
| | Sample_scan_protocol | Affymetrix protocol using a GeneChip scanner 3000
| | Sample_data_processing | Affymetrix GeneChip microarray suite software was used for washing and scanning. Expression summaries were calculated using an analysis algorithm adapted from Choe et al. (2005) [PMID: 15693945], in the sequence of "Background correction (MAS5), Quantile normalization (RMA), Perfect match adjustment (MAS5), Median polish (RMA), LOESS normalization.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Hongzu,,Ren
| | Sample_contact_email | ren.hongzu@epa.gov
| | Sample_contact_phone | 919-541-4576
| | Sample_contact_laboratory | NHEERL Toxicogenomics Core
| | Sample_contact_institute | US Environmental Protection Agency
| | Sample_contact_address | 109 TW Alexander Dr
| | Sample_contact_city | RTP
| | Sample_contact_state | NC
| | Sample_contact_zip/postal_code | 27711
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM280nnn/GSM280405/suppl/GSM280405.CEL.gz
| | Sample_series_id | GSE11097
| | Sample_data_row_count | 23324
| | |
|
GSM280406 | GPL1355 |
|
8200_6month
|
rat liver from 6month F344
|
Male F344 rats were obtained from Charles River.
no additional
|
gene expression data from rat liver samples- 6,11,18,24 months old
|
| Sample_geo_accession | GSM280406
| | Sample_status | Public on Jul 30 2008
| | Sample_submission_date | Apr 09 2008
| | Sample_last_update_date | Jul 30 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | no treatment
| | Sample_growth_protocol_ch1 | Rats were housed at Charles River until 1 week before necropsy. Animal facilities were controlled for temperature (20-24°C) and relative humidity (40-60%), and kept under a 12-h light-dark cycle.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using the TriReagent procedure (Molecular Research Center, Cincinnati, OH) and the Qiagen Rneasy mini RNA cleanup protocol (Qiagen, Valencia, CA)
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Samples were labeled according to the Affymetrix protocol
| | Sample_hyb_protocol | Samples were hybridized according to the Affymetrix protocol
| | Sample_scan_protocol | Affymetrix protocol using a GeneChip scanner 3000
| | Sample_data_processing | Affymetrix GeneChip microarray suite software was used for washing and scanning. Expression summaries were calculated using an analysis algorithm adapted from Choe et al. (2005) [PMID: 15693945], in the sequence of "Background correction (MAS5), Quantile normalization (RMA), Perfect match adjustment (MAS5), Median polish (RMA), LOESS normalization.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Hongzu,,Ren
| | Sample_contact_email | ren.hongzu@epa.gov
| | Sample_contact_phone | 919-541-4576
| | Sample_contact_laboratory | NHEERL Toxicogenomics Core
| | Sample_contact_institute | US Environmental Protection Agency
| | Sample_contact_address | 109 TW Alexander Dr
| | Sample_contact_city | RTP
| | Sample_contact_state | NC
| | Sample_contact_zip/postal_code | 27711
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM280nnn/GSM280406/suppl/GSM280406.CEL.gz
| | Sample_series_id | GSE11097
| | Sample_data_row_count | 23324
| | |
|
GSM280407 | GPL1355 |
|
8230_6month
|
rat liver from 6month F344
|
Male F344 rats were obtained from Charles River.
no additional
|
gene expression data from rat liver samples- 6,11,18,24 months old
|
| Sample_geo_accession | GSM280407
| | Sample_status | Public on Jul 30 2008
| | Sample_submission_date | Apr 09 2008
| | Sample_last_update_date | Jul 30 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | no treatment
| | Sample_growth_protocol_ch1 | Rats were housed at Charles River until 1 week before necropsy. Animal facilities were controlled for temperature (20-24°C) and relative humidity (40-60%), and kept under a 12-h light-dark cycle.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using the TriReagent procedure (Molecular Research Center, Cincinnati, OH) and the Qiagen Rneasy mini RNA cleanup protocol (Qiagen, Valencia, CA)
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Samples were labeled according to the Affymetrix protocol
| | Sample_hyb_protocol | Samples were hybridized according to the Affymetrix protocol
| | Sample_scan_protocol | Affymetrix protocol using a GeneChip scanner 3000
| | Sample_data_processing | Affymetrix GeneChip microarray suite software was used for washing and scanning. Expression summaries were calculated using an analysis algorithm adapted from Choe et al. (2005) [PMID: 15693945], in the sequence of "Background correction (MAS5), Quantile normalization (RMA), Perfect match adjustment (MAS5), Median polish (RMA), LOESS normalization.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Hongzu,,Ren
| | Sample_contact_email | ren.hongzu@epa.gov
| | Sample_contact_phone | 919-541-4576
| | Sample_contact_laboratory | NHEERL Toxicogenomics Core
| | Sample_contact_institute | US Environmental Protection Agency
| | Sample_contact_address | 109 TW Alexander Dr
| | Sample_contact_city | RTP
| | Sample_contact_state | NC
| | Sample_contact_zip/postal_code | 27711
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM280nnn/GSM280407/suppl/GSM280407.CEL.gz
| | Sample_series_id | GSE11097
| | Sample_data_row_count | 23324
| | |
|
GSM280408 | GPL1355 |
|
8245_6month
|
rat liver from 6month F344
|
Male F344 rats were obtained from Charles River.
no additional
|
gene expression data from rat liver samples- 6,11,18,24 months old
|
| Sample_geo_accession | GSM280408
| | Sample_status | Public on Jul 30 2008
| | Sample_submission_date | Apr 09 2008
| | Sample_last_update_date | Jul 30 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | no treatment
| | Sample_growth_protocol_ch1 | Rats were housed at Charles River until 1 week before necropsy. Animal facilities were controlled for temperature (20-24°C) and relative humidity (40-60%), and kept under a 12-h light-dark cycle.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using the TriReagent procedure (Molecular Research Center, Cincinnati, OH) and the Qiagen Rneasy mini RNA cleanup protocol (Qiagen, Valencia, CA)
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Samples were labeled according to the Affymetrix protocol
| | Sample_hyb_protocol | Samples were hybridized according to the Affymetrix protocol
| | Sample_scan_protocol | Affymetrix protocol using a GeneChip scanner 3000
| | Sample_data_processing | Affymetrix GeneChip microarray suite software was used for washing and scanning. Expression summaries were calculated using an analysis algorithm adapted from Choe et al. (2005) [PMID: 15693945], in the sequence of "Background correction (MAS5), Quantile normalization (RMA), Perfect match adjustment (MAS5), Median polish (RMA), LOESS normalization.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Hongzu,,Ren
| | Sample_contact_email | ren.hongzu@epa.gov
| | Sample_contact_phone | 919-541-4576
| | Sample_contact_laboratory | NHEERL Toxicogenomics Core
| | Sample_contact_institute | US Environmental Protection Agency
| | Sample_contact_address | 109 TW Alexander Dr
| | Sample_contact_city | RTP
| | Sample_contact_state | NC
| | Sample_contact_zip/postal_code | 27711
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM280nnn/GSM280408/suppl/GSM280408.CEL.gz
| | Sample_series_id | GSE11097
| | Sample_data_row_count | 23324
| | |
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GSM280409 | GPL1355 |
|
8261_6month
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rat liver from 6month F344
|
Male F344 rats were obtained from Charles River.
no additional
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gene expression data from rat liver samples- 6,11,18,24 months old
|
| Sample_geo_accession | GSM280409
| | Sample_status | Public on Jul 30 2008
| | Sample_submission_date | Apr 09 2008
| | Sample_last_update_date | Jul 30 2008
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | no treatment
| | Sample_growth_protocol_ch1 | Rats were housed at Charles River until 1 week before necropsy. Animal facilities were controlled for temperature (20-24°C) and relative humidity (40-60%), and kept under a 12-h light-dark cycle.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated using the TriReagent procedure (Molecular Research Center, Cincinnati, OH) and the Qiagen Rneasy mini RNA cleanup protocol (Qiagen, Valencia, CA)
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Samples were labeled according to the Affymetrix protocol
| | Sample_hyb_protocol | Samples were hybridized according to the Affymetrix protocol
| | Sample_scan_protocol | Affymetrix protocol using a GeneChip scanner 3000
| | Sample_data_processing | Affymetrix GeneChip microarray suite software was used for washing and scanning. Expression summaries were calculated using an analysis algorithm adapted from Choe et al. (2005) [PMID: 15693945], in the sequence of "Background correction (MAS5), Quantile normalization (RMA), Perfect match adjustment (MAS5), Median polish (RMA), LOESS normalization.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Hongzu,,Ren
| | Sample_contact_email | ren.hongzu@epa.gov
| | Sample_contact_phone | 919-541-4576
| | Sample_contact_laboratory | NHEERL Toxicogenomics Core
| | Sample_contact_institute | US Environmental Protection Agency
| | Sample_contact_address | 109 TW Alexander Dr
| | Sample_contact_city | RTP
| | Sample_contact_state | NC
| | Sample_contact_zip/postal_code | 27711
| | Sample_contact_country | USA
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM280nnn/GSM280409/suppl/GSM280409.CEL.gz
| | Sample_series_id | GSE11097
| | Sample_data_row_count | 23324
| | |
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