Search results for the GEO ID: GSE5509  |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM127049 | GPL1355 |
|
Rat liver, treated with ANIT, 125 mg/kg in corn oil per orally, extrated 48 hours after treatment, biological rep1
|
Rat liver, left lateral lobe
|
Male Sprague-Dawley (Crl:CD(SD)IGS Br
Age: between 5 and 6 weeks old
|
Gene expression data from rat liver 48 hours after treatment with compound.
|
| Sample_geo_accession | GSM127049
| | Sample_status | Public on Aug 12 2006
| | Sample_submission_date | Aug 11 2006
| | Sample_last_update_date | Aug 09 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_biomaterial_provider_ch1 | Scantox, Lille Skensved, Denmark
| | Sample_treatment_protocol_ch1 | The animals were sacrificed 48 hours after treatment and organs were frozen for later analysis. Tissue samples of the left lateral lobe of the liver were snap frozen in liquid nitrogen, transferred to dry ice and stored at approximately -80?C
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Frozen liver samples were homogenized in 2 ml TRIzol® reagent (Invitrogen ; Life Technologies, Scotland) using an Ultra Turrax T25 basic homogenizer (IKA Labortechnik; IKA-Werke, Staufen, Germany). Chloroform (400 ?l) was added and homogenized samples were shaken vigorously by hand for 15 seconds. Phase separation was achieved by centrifugation for 15 min at 10,000 × g at 4°C. Total RNA from the aqueous phase was purified using the RNeasy 96 Qiagen vacuum system following the “Clean-up” procedure.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 microg total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 microg of cRNA were hybridized for 16 hr at 45C on GeneChip Rat 230 version 2 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned on GeneChip® Scanner 3000 7G 4C
| | Sample_data_processing = The data were analyzed with RMA. R was used with the affy package. Expresso with the following settings (bgcorrect.method=rma, normalize.method | quantiles.robust, pmcorrect.method=pmonly, summary.method=liwong) was used to normalize
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Jeppe,Skytte,Spicker
| | Sample_contact_email | skytte@cbs.dtu.dk
| | Sample_contact_department | CBS
| | Sample_contact_institute | Danish University of Technology
| | Sample_contact_address | Building 208
| | Sample_contact_city | Lundtofte
| | Sample_contact_zip/postal_code | XXXX
| | Sample_contact_country | Denmark
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM127nnn/GSM127049/suppl/GSM127049.CEL.gz
| | Sample_relation | Reanalyzed by: GSE31289
| | Sample_series_id | GSE5509
| | Sample_data_row_count | 31099
| | |
|
GSM127050 | GPL1355 |
|
Rat liver, treated with ANIT, 125 mg/kg in corn oil per orally, extrated 48 hours after treatment, biological rep2
|
Rat liver, left lateral lobe
|
Male Sprague-Dawley (Crl:CD(SD)IGS Br
Age: between 5 and 6 weeks old
|
Gene expression data from rat liver 48 hours after treatment with compound.
|
| Sample_geo_accession | GSM127050
| | Sample_status | Public on Aug 12 2006
| | Sample_submission_date | Aug 11 2006
| | Sample_last_update_date | Aug 09 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_biomaterial_provider_ch1 | Scantox, Lille Skensved, Denmark
| | Sample_treatment_protocol_ch1 | The animals were sacrificed 48 hours after treatment and organs were frozen for later analysis. Tissue samples of the left lateral lobe of the liver were snap frozen in liquid nitrogen, transferred to dry ice and stored at approximately -80?C
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Frozen liver samples were homogenized in 2 ml TRIzol® reagent (Invitrogen ; Life Technologies, Scotland) using an Ultra Turrax T25 basic homogenizer (IKA Labortechnik; IKA-Werke, Staufen, Germany). Chloroform (400 ?l) was added and homogenized samples were shaken vigorously by hand for 15 seconds. Phase separation was achieved by centrifugation for 15 min at 10,000 × g at 4°C. Total RNA from the aqueous phase was purified using the RNeasy 96 Qiagen vacuum system following the “Clean-up” procedure.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 microg total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 microg of cRNA were hybridized for 16 hr at 45C on GeneChip Rat 230 version 2 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned on GeneChip® Scanner 3000 7G 4C
| | Sample_data_processing = The data were analyzed with RMA. R was used with the affy package. Expresso with the following settings (bgcorrect.method=rma, normalize.method | quantiles.robust, pmcorrect.method=pmonly, summary.method=liwong) was used to normalize
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Jeppe,Skytte,Spicker
| | Sample_contact_email | skytte@cbs.dtu.dk
| | Sample_contact_department | CBS
| | Sample_contact_institute | Danish University of Technology
| | Sample_contact_address | Building 208
| | Sample_contact_city | Lundtofte
| | Sample_contact_zip/postal_code | XXXX
| | Sample_contact_country | Denmark
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM127nnn/GSM127050/suppl/GSM127050.CEL.gz
| | Sample_relation | Reanalyzed by: GSE31289
| | Sample_series_id | GSE5509
| | Sample_data_row_count | 31099
| | |
|
GSM127051 | GPL1355 |
|
Rat liver, treated with ANIT, 125 mg/kg in corn oil per orally, extrated 48 hours after treatment, biological rep3
|
Rat liver, left lateral lobe
|
Male Sprague-Dawley (Crl:CD(SD)IGS Br
Age: between 5 and 6 weeks old
|
Gene expression data from rat liver 48 hours after treatment with compound.
|
| Sample_geo_accession | GSM127051
| | Sample_status | Public on Aug 12 2006
| | Sample_submission_date | Aug 11 2006
| | Sample_last_update_date | Aug 09 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_biomaterial_provider_ch1 | Scantox, Lille Skensved, Denmark
| | Sample_treatment_protocol_ch1 | The animals were sacrificed 48 hours after treatment and organs were frozen for later analysis. Tissue samples of the left lateral lobe of the liver were snap frozen in liquid nitrogen, transferred to dry ice and stored at approximately -80?C
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Frozen liver samples were homogenized in 2 ml TRIzol® reagent (Invitrogen ; Life Technologies, Scotland) using an Ultra Turrax T25 basic homogenizer (IKA Labortechnik; IKA-Werke, Staufen, Germany). Chloroform (400 ?l) was added and homogenized samples were shaken vigorously by hand for 15 seconds. Phase separation was achieved by centrifugation for 15 min at 10,000 × g at 4°C. Total RNA from the aqueous phase was purified using the RNeasy 96 Qiagen vacuum system following the “Clean-up” procedure.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 microg total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 microg of cRNA were hybridized for 16 hr at 45C on GeneChip Rat 230 version 2 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned on GeneChip® Scanner 3000 7G 4C
| | Sample_data_processing = The data were analyzed with RMA. R was used with the affy package. Expresso with the following settings (bgcorrect.method=rma, normalize.method | quantiles.robust, pmcorrect.method=pmonly, summary.method=liwong) was used to normalize
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Jeppe,Skytte,Spicker
| | Sample_contact_email | skytte@cbs.dtu.dk
| | Sample_contact_department | CBS
| | Sample_contact_institute | Danish University of Technology
| | Sample_contact_address | Building 208
| | Sample_contact_city | Lundtofte
| | Sample_contact_zip/postal_code | XXXX
| | Sample_contact_country | Denmark
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM127nnn/GSM127051/suppl/GSM127051.CEL.gz
| | Sample_relation | Reanalyzed by: GSE31289
| | Sample_series_id | GSE5509
| | Sample_data_row_count | 31099
| | |
|
GSM127053 | GPL1355 |
|
Rat liver, treated with ANIT, 125 mg/kg in corn oil per orally, extrated 48 hours after treatment, biological rep5
|
Rat liver, left lateral lobe
|
Male Sprague-Dawley (Crl:CD(SD)IGS Br
Age: between 5 and 6 weeks old
|
Gene expression data from rat liver 48 hours after treatment with compound.
|
| Sample_geo_accession | GSM127053
| | Sample_status | Public on Aug 12 2006
| | Sample_submission_date | Aug 11 2006
| | Sample_last_update_date | Aug 09 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_biomaterial_provider_ch1 | Scantox, Lille Skensved, Denmark
| | Sample_treatment_protocol_ch1 | The animals were sacrificed 48 hours after treatment and organs were frozen for later analysis. Tissue samples of the left lateral lobe of the liver were snap frozen in liquid nitrogen, transferred to dry ice and stored at approximately -80?C
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Frozen liver samples were homogenized in 2 ml TRIzol® reagent (Invitrogen ; Life Technologies, Scotland) using an Ultra Turrax T25 basic homogenizer (IKA Labortechnik; IKA-Werke, Staufen, Germany). Chloroform (400 ?l) was added and homogenized samples were shaken vigorously by hand for 15 seconds. Phase separation was achieved by centrifugation for 15 min at 10,000 × g at 4°C. Total RNA from the aqueous phase was purified using the RNeasy 96 Qiagen vacuum system following the “Clean-up” procedure.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 microg total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 microg of cRNA were hybridized for 16 hr at 45C on GeneChip Rat 230 version 2 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned on GeneChip® Scanner 3000 7G 4C
| | Sample_data_processing = The data were analyzed with RMA. R was used with the affy package. Expresso with the following settings (bgcorrect.method=rma, normalize.method | quantiles.robust, pmcorrect.method=pmonly, summary.method=liwong) was used to normalize
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Jeppe,Skytte,Spicker
| | Sample_contact_email | skytte@cbs.dtu.dk
| | Sample_contact_department | CBS
| | Sample_contact_institute | Danish University of Technology
| | Sample_contact_address | Building 208
| | Sample_contact_city | Lundtofte
| | Sample_contact_zip/postal_code | XXXX
| | Sample_contact_country | Denmark
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM127nnn/GSM127053/suppl/GSM127053.CEL.gz
| | Sample_relation | Reanalyzed by: GSE31289
| | Sample_series_id | GSE5509
| | Sample_data_row_count | 31099
| | |
|
GSM127054 | GPL1355 |
|
Rat liver, treated with Caerulein, 50 µg/kg in saline i.p., extrated 48 hours after treatment, biological rep1
|
Rat liver, left lateral lobe
|
Male Sprague-Dawley (Crl:CD(SD)IGS Br
Age: between 5 and 6 weeks old
|
Gene expression data from rat liver 48 hours after treatment with compound.
|
| Sample_geo_accession | GSM127054
| | Sample_status | Public on Aug 12 2006
| | Sample_submission_date | Aug 11 2006
| | Sample_last_update_date | Aug 09 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_biomaterial_provider_ch1 | Scantox, Lille Skensved, Denmark
| | Sample_treatment_protocol_ch1 | The animals were sacrificed 48 hours after treatment and organs were frozen for later analysis. Tissue samples of the left lateral lobe of the liver were snap frozen in liquid nitrogen, transferred to dry ice and stored at approximately -80?C
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Frozen liver samples were homogenized in 2 ml TRIzol® reagent (Invitrogen ; Life Technologies, Scotland) using an Ultra Turrax T25 basic homogenizer (IKA Labortechnik; IKA-Werke, Staufen, Germany). Chloroform (400 ?l) was added and homogenized samples were shaken vigorously by hand for 15 seconds. Phase separation was achieved by centrifugation for 15 min at 10,000 × g at 4°C. Total RNA from the aqueous phase was purified using the RNeasy 96 Qiagen vacuum system following the “Clean-up” procedure.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 microg total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 microg of cRNA were hybridized for 16 hr at 45C on GeneChip Rat 230 version 2 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned on GeneChip® Scanner 3000 7G 4C
| | Sample_data_processing = The data were analyzed with RMA. R was used with the affy package. Expresso with the following settings (bgcorrect.method=rma, normalize.method | quantiles.robust, pmcorrect.method=pmonly, summary.method=liwong) was used to normalize
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Jeppe,Skytte,Spicker
| | Sample_contact_email | skytte@cbs.dtu.dk
| | Sample_contact_department | CBS
| | Sample_contact_institute | Danish University of Technology
| | Sample_contact_address | Building 208
| | Sample_contact_city | Lundtofte
| | Sample_contact_zip/postal_code | XXXX
| | Sample_contact_country | Denmark
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM127nnn/GSM127054/suppl/GSM127054.CEL.gz
| | Sample_relation | Reanalyzed by: GSE31289
| | Sample_series_id | GSE5509
| | Sample_data_row_count | 31099
| | |
|
GSM127055 | GPL1355 |
|
Rat liver, treated with Caerulein, 50 µg/kg in saline i.p., extrated 48 hours after treatment, biological rep2
|
Rat liver, left lateral lobe
|
Male Sprague-Dawley (Crl:CD(SD)IGS Br
Age: between 5 and 6 weeks old
|
Gene expression data from rat liver 48 hours after treatment with compound.
|
| Sample_geo_accession | GSM127055
| | Sample_status | Public on Aug 12 2006
| | Sample_submission_date | Aug 11 2006
| | Sample_last_update_date | Aug 09 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_biomaterial_provider_ch1 | Scantox, Lille Skensved, Denmark
| | Sample_treatment_protocol_ch1 | The animals were sacrificed 48 hours after treatment and organs were frozen for later analysis. Tissue samples of the left lateral lobe of the liver were snap frozen in liquid nitrogen, transferred to dry ice and stored at approximately -80?C
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Frozen liver samples were homogenized in 2 ml TRIzol® reagent (Invitrogen ; Life Technologies, Scotland) using an Ultra Turrax T25 basic homogenizer (IKA Labortechnik; IKA-Werke, Staufen, Germany). Chloroform (400 ?l) was added and homogenized samples were shaken vigorously by hand for 15 seconds. Phase separation was achieved by centrifugation for 15 min at 10,000 × g at 4°C. Total RNA from the aqueous phase was purified using the RNeasy 96 Qiagen vacuum system following the “Clean-up” procedure.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 microg total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 microg of cRNA were hybridized for 16 hr at 45C on GeneChip Rat 230 version 2 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned on GeneChip® Scanner 3000 7G 4C
| | Sample_data_processing = The data were analyzed with RMA. R was used with the affy package. Expresso with the following settings (bgcorrect.method=rma, normalize.method | quantiles.robust, pmcorrect.method=pmonly, summary.method=liwong) was used to normalize
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Jeppe,Skytte,Spicker
| | Sample_contact_email | skytte@cbs.dtu.dk
| | Sample_contact_department | CBS
| | Sample_contact_institute | Danish University of Technology
| | Sample_contact_address | Building 208
| | Sample_contact_city | Lundtofte
| | Sample_contact_zip/postal_code | XXXX
| | Sample_contact_country | Denmark
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM127nnn/GSM127055/suppl/GSM127055.CEL.gz
| | Sample_relation | Reanalyzed by: GSE31289
| | Sample_series_id | GSE5509
| | Sample_data_row_count | 31099
| | |
|
GSM127056 | GPL1355 |
|
Rat liver, treated with Caerulein, 50 µg/kg in saline i.p., extrated 48 hours after treatment, biological rep3
|
Rat liver, left lateral lobe
|
Male Sprague-Dawley (Crl:CD(SD)IGS Br
Age: between 5 and 6 weeks old
|
Gene expression data from rat liver 48 hours after treatment with compound.
|
| Sample_geo_accession | GSM127056
| | Sample_status | Public on Aug 12 2006
| | Sample_submission_date | Aug 11 2006
| | Sample_last_update_date | Aug 09 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_biomaterial_provider_ch1 | Scantox, Lille Skensved, Denmark
| | Sample_treatment_protocol_ch1 | The animals were sacrificed 48 hours after treatment and organs were frozen for later analysis. Tissue samples of the left lateral lobe of the liver were snap frozen in liquid nitrogen, transferred to dry ice and stored at approximately -80?C
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Frozen liver samples were homogenized in 2 ml TRIzol® reagent (Invitrogen ; Life Technologies, Scotland) using an Ultra Turrax T25 basic homogenizer (IKA Labortechnik; IKA-Werke, Staufen, Germany). Chloroform (400 ?l) was added and homogenized samples were shaken vigorously by hand for 15 seconds. Phase separation was achieved by centrifugation for 15 min at 10,000 × g at 4°C. Total RNA from the aqueous phase was purified using the RNeasy 96 Qiagen vacuum system following the “Clean-up” procedure.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 microg total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 microg of cRNA were hybridized for 16 hr at 45C on GeneChip Rat 230 version 2 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned on GeneChip® Scanner 3000 7G 4C
| | Sample_data_processing = The data were analyzed with RMA. R was used with the affy package. Expresso with the following settings (bgcorrect.method=rma, normalize.method | quantiles.robust, pmcorrect.method=pmonly, summary.method=liwong) was used to normalize
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Jeppe,Skytte,Spicker
| | Sample_contact_email | skytte@cbs.dtu.dk
| | Sample_contact_department | CBS
| | Sample_contact_institute | Danish University of Technology
| | Sample_contact_address | Building 208
| | Sample_contact_city | Lundtofte
| | Sample_contact_zip/postal_code | XXXX
| | Sample_contact_country | Denmark
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM127nnn/GSM127056/suppl/GSM127056.CEL.gz
| | Sample_relation | Reanalyzed by: GSE31289
| | Sample_series_id | GSE5509
| | Sample_data_row_count | 31099
| | |
|
GSM127057 | GPL1355 |
|
Rat liver, treated with Caerulein, 50 µg/kg in saline i.p., extrated 48 hours after treatment, biological rep4
|
Rat liver, left lateral lobe
|
Male Sprague-Dawley (Crl:CD(SD)IGS Br
Age: between 5 and 6 weeks old
|
Gene expression data from rat liver 48 hours after treatment with compound.
|
| Sample_geo_accession | GSM127057
| | Sample_status | Public on Aug 12 2006
| | Sample_submission_date | Aug 11 2006
| | Sample_last_update_date | Aug 09 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_biomaterial_provider_ch1 | Scantox, Lille Skensved, Denmark
| | Sample_treatment_protocol_ch1 | The animals were sacrificed 48 hours after treatment and organs were frozen for later analysis. Tissue samples of the left lateral lobe of the liver were snap frozen in liquid nitrogen, transferred to dry ice and stored at approximately -80?C
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Frozen liver samples were homogenized in 2 ml TRIzol® reagent (Invitrogen ; Life Technologies, Scotland) using an Ultra Turrax T25 basic homogenizer (IKA Labortechnik; IKA-Werke, Staufen, Germany). Chloroform (400 ?l) was added and homogenized samples were shaken vigorously by hand for 15 seconds. Phase separation was achieved by centrifugation for 15 min at 10,000 × g at 4°C. Total RNA from the aqueous phase was purified using the RNeasy 96 Qiagen vacuum system following the “Clean-up” procedure.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 microg total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 microg of cRNA were hybridized for 16 hr at 45C on GeneChip Rat 230 version 2 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned on GeneChip® Scanner 3000 7G 4C
| | Sample_data_processing = The data were analyzed with RMA. R was used with the affy package. Expresso with the following settings (bgcorrect.method=rma, normalize.method | quantiles.robust, pmcorrect.method=pmonly, summary.method=liwong) was used to normalize
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Jeppe,Skytte,Spicker
| | Sample_contact_email | skytte@cbs.dtu.dk
| | Sample_contact_department | CBS
| | Sample_contact_institute | Danish University of Technology
| | Sample_contact_address | Building 208
| | Sample_contact_city | Lundtofte
| | Sample_contact_zip/postal_code | XXXX
| | Sample_contact_country | Denmark
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM127nnn/GSM127057/suppl/GSM127057.CEL.gz
| | Sample_relation | Reanalyzed by: GSE31289
| | Sample_series_id | GSE5509
| | Sample_data_row_count | 31099
| | |
|
GSM127058 | GPL1355 |
|
Rat liver, treated with Caerulein, 50 µg/kg in saline i.p., extrated 48 hours after treatment, biological rep5
|
Rat liver, left lateral lobe
|
Male Sprague-Dawley (Crl:CD(SD)IGS Br
Age: between 5 and 6 weeks old
|
Gene expression data from rat liver 48 hours after treatment with compound.
|
| Sample_geo_accession | GSM127058
| | Sample_status | Public on Aug 12 2006
| | Sample_submission_date | Aug 11 2006
| | Sample_last_update_date | Aug 09 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_biomaterial_provider_ch1 | Scantox, Lille Skensved, Denmark
| | Sample_treatment_protocol_ch1 | The animals were sacrificed 48 hours after treatment and organs were frozen for later analysis. Tissue samples of the left lateral lobe of the liver were snap frozen in liquid nitrogen, transferred to dry ice and stored at approximately -80?C
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Frozen liver samples were homogenized in 2 ml TRIzol® reagent (Invitrogen ; Life Technologies, Scotland) using an Ultra Turrax T25 basic homogenizer (IKA Labortechnik; IKA-Werke, Staufen, Germany). Chloroform (400 ?l) was added and homogenized samples were shaken vigorously by hand for 15 seconds. Phase separation was achieved by centrifugation for 15 min at 10,000 × g at 4°C. Total RNA from the aqueous phase was purified using the RNeasy 96 Qiagen vacuum system following the “Clean-up” procedure.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 microg total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 microg of cRNA were hybridized for 16 hr at 45C on GeneChip Rat 230 version 2 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned on GeneChip® Scanner 3000 7G 4C
| | Sample_data_processing = The data were analyzed with RMA. R was used with the affy package. Expresso with the following settings (bgcorrect.method=rma, normalize.method | quantiles.robust, pmcorrect.method=pmonly, summary.method=liwong) was used to normalize
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Jeppe,Skytte,Spicker
| | Sample_contact_email | skytte@cbs.dtu.dk
| | Sample_contact_department | CBS
| | Sample_contact_institute | Danish University of Technology
| | Sample_contact_address | Building 208
| | Sample_contact_city | Lundtofte
| | Sample_contact_zip/postal_code | XXXX
| | Sample_contact_country | Denmark
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM127nnn/GSM127058/suppl/GSM127058.CEL.gz
| | Sample_relation | Reanalyzed by: GSE31289
| | Sample_series_id | GSE5509
| | Sample_data_row_count | 31099
| | |
|
GSM127059 | GPL1355 |
|
Rat liver, treated with DMN, 15 mg/kg in water per orally, extrated 48 hours after treatment, biological rep1
|
Rat liver, left lateral lobe
|
Male Sprague-Dawley (Crl:CD(SD)IGS Br
Age: between 5 and 6 weeks old
|
Gene expression data from rat liver 48 hours after treatment with compound.
|
| Sample_geo_accession | GSM127059
| | Sample_status | Public on Aug 12 2006
| | Sample_submission_date | Aug 11 2006
| | Sample_last_update_date | Aug 09 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_biomaterial_provider_ch1 | Scantox, Lille Skensved, Denmark
| | Sample_treatment_protocol_ch1 | The animals were sacrificed 48 hours after treatment and organs were frozen for later analysis. Tissue samples of the left lateral lobe of the liver were snap frozen in liquid nitrogen, transferred to dry ice and stored at approximately -80?C
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Frozen liver samples were homogenized in 2 ml TRIzol® reagent (Invitrogen ; Life Technologies, Scotland) using an Ultra Turrax T25 basic homogenizer (IKA Labortechnik; IKA-Werke, Staufen, Germany). Chloroform (400 ?l) was added and homogenized samples were shaken vigorously by hand for 15 seconds. Phase separation was achieved by centrifugation for 15 min at 10,000 × g at 4°C. Total RNA from the aqueous phase was purified using the RNeasy 96 Qiagen vacuum system following the “Clean-up” procedure.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 microg total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 microg of cRNA were hybridized for 16 hr at 45C on GeneChip Rat 230 version 2 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned on GeneChip® Scanner 3000 7G 4C
| | Sample_data_processing = The data were analyzed with RMA. R was used with the affy package. Expresso with the following settings (bgcorrect.method=rma, normalize.method | quantiles.robust, pmcorrect.method=pmonly, summary.method=liwong) was used to normalize
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Jeppe,Skytte,Spicker
| | Sample_contact_email | skytte@cbs.dtu.dk
| | Sample_contact_department | CBS
| | Sample_contact_institute | Danish University of Technology
| | Sample_contact_address | Building 208
| | Sample_contact_city | Lundtofte
| | Sample_contact_zip/postal_code | XXXX
| | Sample_contact_country | Denmark
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM127nnn/GSM127059/suppl/GSM127059.CEL.gz
| | Sample_relation | Reanalyzed by: GSE31289
| | Sample_series_id | GSE5509
| | Sample_data_row_count | 31099
| | |
|
GSM127060 | GPL1355 |
|
Rat liver, treated with DMN, 15 mg/kg in water per orally, extrated 48 hours after treatment, biological rep2
|
Rat liver, left lateral lobe
|
Male Sprague-Dawley (Crl:CD(SD)IGS Br
Age: between 5 and 6 weeks old
|
Gene expression data from rat liver 48 hours after treatment with compound.
|
| Sample_geo_accession | GSM127060
| | Sample_status | Public on Aug 12 2006
| | Sample_submission_date | Aug 11 2006
| | Sample_last_update_date | Aug 09 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_biomaterial_provider_ch1 | Scantox, Lille Skensved, Denmark
| | Sample_treatment_protocol_ch1 | The animals were sacrificed 48 hours after treatment and organs were frozen for later analysis. Tissue samples of the left lateral lobe of the liver were snap frozen in liquid nitrogen, transferred to dry ice and stored at approximately -80?C
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Frozen liver samples were homogenized in 2 ml TRIzol® reagent (Invitrogen ; Life Technologies, Scotland) using an Ultra Turrax T25 basic homogenizer (IKA Labortechnik; IKA-Werke, Staufen, Germany). Chloroform (400 ?l) was added and homogenized samples were shaken vigorously by hand for 15 seconds. Phase separation was achieved by centrifugation for 15 min at 10,000 × g at 4°C. Total RNA from the aqueous phase was purified using the RNeasy 96 Qiagen vacuum system following the “Clean-up” procedure.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 microg total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 microg of cRNA were hybridized for 16 hr at 45C on GeneChip Rat 230 version 2 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned on GeneChip® Scanner 3000 7G 4C
| | Sample_data_processing = The data were analyzed with RMA. R was used with the affy package. Expresso with the following settings (bgcorrect.method=rma, normalize.method | quantiles.robust, pmcorrect.method=pmonly, summary.method=liwong) was used to normalize
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Jeppe,Skytte,Spicker
| | Sample_contact_email | skytte@cbs.dtu.dk
| | Sample_contact_department | CBS
| | Sample_contact_institute | Danish University of Technology
| | Sample_contact_address | Building 208
| | Sample_contact_city | Lundtofte
| | Sample_contact_zip/postal_code | XXXX
| | Sample_contact_country | Denmark
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM127nnn/GSM127060/suppl/GSM127060.CEL.gz
| | Sample_relation | Reanalyzed by: GSE31289
| | Sample_series_id | GSE5509
| | Sample_data_row_count | 31099
| | |
|
GSM127061 | GPL1355 |
|
Rat liver, treated with DMN, 15 mg/kg in water per orally, extrated 48 hours after treatment, biological rep3
|
Rat liver, left lateral lobe
|
Male Sprague-Dawley (Crl:CD(SD)IGS Br
Age: between 5 and 6 weeks old
|
Gene expression data from rat liver 48 hours after treatment with compound.
|
| Sample_geo_accession | GSM127061
| | Sample_status | Public on Aug 12 2006
| | Sample_submission_date | Aug 11 2006
| | Sample_last_update_date | Aug 09 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_biomaterial_provider_ch1 | Scantox, Lille Skensved, Denmark
| | Sample_treatment_protocol_ch1 | The animals were sacrificed 48 hours after treatment and organs were frozen for later analysis. Tissue samples of the left lateral lobe of the liver were snap frozen in liquid nitrogen, transferred to dry ice and stored at approximately -80?C
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Frozen liver samples were homogenized in 2 ml TRIzol® reagent (Invitrogen ; Life Technologies, Scotland) using an Ultra Turrax T25 basic homogenizer (IKA Labortechnik; IKA-Werke, Staufen, Germany). Chloroform (400 ?l) was added and homogenized samples were shaken vigorously by hand for 15 seconds. Phase separation was achieved by centrifugation for 15 min at 10,000 × g at 4°C. Total RNA from the aqueous phase was purified using the RNeasy 96 Qiagen vacuum system following the “Clean-up” procedure.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 microg total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 microg of cRNA were hybridized for 16 hr at 45C on GeneChip Rat 230 version 2 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned on GeneChip® Scanner 3000 7G 4C
| | Sample_data_processing = The data were analyzed with RMA. R was used with the affy package. Expresso with the following settings (bgcorrect.method=rma, normalize.method | quantiles.robust, pmcorrect.method=pmonly, summary.method=liwong) was used to normalize
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Jeppe,Skytte,Spicker
| | Sample_contact_email | skytte@cbs.dtu.dk
| | Sample_contact_department | CBS
| | Sample_contact_institute | Danish University of Technology
| | Sample_contact_address | Building 208
| | Sample_contact_city | Lundtofte
| | Sample_contact_zip/postal_code | XXXX
| | Sample_contact_country | Denmark
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM127nnn/GSM127061/suppl/GSM127061.CEL.gz
| | Sample_relation | Reanalyzed by: GSE31289
| | Sample_series_id | GSE5509
| | Sample_data_row_count | 31099
| | |
|
GSM127062 | GPL1355 |
|
Rat liver, treated with DMN, 15 mg/kg in water per orally, extrated 48 hours after treatment, biological rep4
|
Rat liver, left lateral lobe
|
Male Sprague-Dawley (Crl:CD(SD)IGS Br
Age: between 5 and 6 weeks old
|
Gene expression data from rat liver 48 hours after treatment with compound.
|
| Sample_geo_accession | GSM127062
| | Sample_status | Public on Aug 12 2006
| | Sample_submission_date | Aug 11 2006
| | Sample_last_update_date | Aug 09 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_biomaterial_provider_ch1 | Scantox, Lille Skensved, Denmark
| | Sample_treatment_protocol_ch1 | The animals were sacrificed 48 hours after treatment and organs were frozen for later analysis. Tissue samples of the left lateral lobe of the liver were snap frozen in liquid nitrogen, transferred to dry ice and stored at approximately -80?C
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Frozen liver samples were homogenized in 2 ml TRIzol® reagent (Invitrogen ; Life Technologies, Scotland) using an Ultra Turrax T25 basic homogenizer (IKA Labortechnik; IKA-Werke, Staufen, Germany). Chloroform (400 ?l) was added and homogenized samples were shaken vigorously by hand for 15 seconds. Phase separation was achieved by centrifugation for 15 min at 10,000 × g at 4°C. Total RNA from the aqueous phase was purified using the RNeasy 96 Qiagen vacuum system following the “Clean-up” procedure.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 microg total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 microg of cRNA were hybridized for 16 hr at 45C on GeneChip Rat 230 version 2 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned on GeneChip® Scanner 3000 7G 4C
| | Sample_data_processing = The data were analyzed with RMA. R was used with the affy package. Expresso with the following settings (bgcorrect.method=rma, normalize.method | quantiles.robust, pmcorrect.method=pmonly, summary.method=liwong) was used to normalize
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Jeppe,Skytte,Spicker
| | Sample_contact_email | skytte@cbs.dtu.dk
| | Sample_contact_department | CBS
| | Sample_contact_institute | Danish University of Technology
| | Sample_contact_address | Building 208
| | Sample_contact_city | Lundtofte
| | Sample_contact_zip/postal_code | XXXX
| | Sample_contact_country | Denmark
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM127nnn/GSM127062/suppl/GSM127062.CEL.gz
| | Sample_relation | Reanalyzed by: GSE31289
| | Sample_series_id | GSE5509
| | Sample_data_row_count | 31099
| | |
|
GSM127063 | GPL1355 |
|
Rat liver, treated with DMN, 15 mg/kg in water per orally, extrated 48 hours after treatment, biological rep5
|
Rat liver, left lateral lobe
|
Male Sprague-Dawley (Crl:CD(SD)IGS Br
Age: between 5 and 6 weeks old
|
Gene expression data from rat liver 48 hours after treatment with compound.
|
| Sample_geo_accession | GSM127063
| | Sample_status | Public on Aug 12 2006
| | Sample_submission_date | Aug 11 2006
| | Sample_last_update_date | Aug 09 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_biomaterial_provider_ch1 | Scantox, Lille Skensved, Denmark
| | Sample_treatment_protocol_ch1 | The animals were sacrificed 48 hours after treatment and organs were frozen for later analysis. Tissue samples of the left lateral lobe of the liver were snap frozen in liquid nitrogen, transferred to dry ice and stored at approximately -80?C
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Frozen liver samples were homogenized in 2 ml TRIzol® reagent (Invitrogen ; Life Technologies, Scotland) using an Ultra Turrax T25 basic homogenizer (IKA Labortechnik; IKA-Werke, Staufen, Germany). Chloroform (400 ?l) was added and homogenized samples were shaken vigorously by hand for 15 seconds. Phase separation was achieved by centrifugation for 15 min at 10,000 × g at 4°C. Total RNA from the aqueous phase was purified using the RNeasy 96 Qiagen vacuum system following the “Clean-up” procedure.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 microg total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 microg of cRNA were hybridized for 16 hr at 45C on GeneChip Rat 230 version 2 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned on GeneChip® Scanner 3000 7G 4C
| | Sample_data_processing = The data were analyzed with RMA. R was used with the affy package. Expresso with the following settings (bgcorrect.method=rma, normalize.method | quantiles.robust, pmcorrect.method=pmonly, summary.method=liwong) was used to normalize
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Jeppe,Skytte,Spicker
| | Sample_contact_email | skytte@cbs.dtu.dk
| | Sample_contact_department | CBS
| | Sample_contact_institute | Danish University of Technology
| | Sample_contact_address | Building 208
| | Sample_contact_city | Lundtofte
| | Sample_contact_zip/postal_code | XXXX
| | Sample_contact_country | Denmark
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM127nnn/GSM127063/suppl/GSM127063.CEL.gz
| | Sample_relation | Reanalyzed by: GSE31289
| | Sample_series_id | GSE5509
| | Sample_data_row_count | 31099
| | |
|
GSM127064 | GPL1355 |
|
Rat liver, treated with DNP, 15 mg/kg in water per orally, extrated 48 hours after treatment, biological rep1
|
Rat liver, left lateral lobe
|
Male Sprague-Dawley (Crl:CD(SD)IGS Br
Age: between 5 and 6 weeks old
|
Gene expression data from rat liver 48 hours after treatment with compound.
|
| Sample_geo_accession | GSM127064
| | Sample_status | Public on Aug 12 2006
| | Sample_submission_date | Aug 11 2006
| | Sample_last_update_date | Aug 09 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_biomaterial_provider_ch1 | Scantox, Lille Skensved, Denmark
| | Sample_treatment_protocol_ch1 | The animals were sacrificed 48 hours after treatment and organs were frozen for later analysis. Tissue samples of the left lateral lobe of the liver were snap frozen in liquid nitrogen, transferred to dry ice and stored at approximately -80?C
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Frozen liver samples were homogenized in 2 ml TRIzol® reagent (Invitrogen ; Life Technologies, Scotland) using an Ultra Turrax T25 basic homogenizer (IKA Labortechnik; IKA-Werke, Staufen, Germany). Chloroform (400 ?l) was added and homogenized samples were shaken vigorously by hand for 15 seconds. Phase separation was achieved by centrifugation for 15 min at 10,000 × g at 4°C. Total RNA from the aqueous phase was purified using the RNeasy 96 Qiagen vacuum system following the “Clean-up” procedure.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 microg total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 microg of cRNA were hybridized for 16 hr at 45C on GeneChip Rat 230 version 2 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned on GeneChip® Scanner 3000 7G 4C
| | Sample_data_processing = The data were analyzed with RMA. R was used with the affy package. Expresso with the following settings (bgcorrect.method=rma, normalize.method | quantiles.robust, pmcorrect.method=pmonly, summary.method=liwong) was used to normalize
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Jeppe,Skytte,Spicker
| | Sample_contact_email | skytte@cbs.dtu.dk
| | Sample_contact_department | CBS
| | Sample_contact_institute | Danish University of Technology
| | Sample_contact_address | Building 208
| | Sample_contact_city | Lundtofte
| | Sample_contact_zip/postal_code | XXXX
| | Sample_contact_country | Denmark
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM127nnn/GSM127064/suppl/GSM127064.CEL.gz
| | Sample_relation | Reanalyzed by: GSE31289
| | Sample_series_id | GSE5509
| | Sample_data_row_count | 31099
| | |
|
GSM127065 | GPL1355 |
|
Rat liver, treated with DNP, 15 mg/kg in water per orally, extrated 48 hours after treatment, biological rep2
|
Rat liver, left lateral lobe
|
Male Sprague-Dawley (Crl:CD(SD)IGS Br
Age: between 5 and 6 weeks old
|
Gene expression data from rat liver 48 hours after treatment with compound.
|
| Sample_geo_accession | GSM127065
| | Sample_status | Public on Aug 12 2006
| | Sample_submission_date | Aug 11 2006
| | Sample_last_update_date | Aug 09 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_biomaterial_provider_ch1 | Scantox, Lille Skensved, Denmark
| | Sample_treatment_protocol_ch1 | The animals were sacrificed 48 hours after treatment and organs were frozen for later analysis. Tissue samples of the left lateral lobe of the liver were snap frozen in liquid nitrogen, transferred to dry ice and stored at approximately -80?C
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Frozen liver samples were homogenized in 2 ml TRIzol® reagent (Invitrogen ; Life Technologies, Scotland) using an Ultra Turrax T25 basic homogenizer (IKA Labortechnik; IKA-Werke, Staufen, Germany). Chloroform (400 ?l) was added and homogenized samples were shaken vigorously by hand for 15 seconds. Phase separation was achieved by centrifugation for 15 min at 10,000 × g at 4°C. Total RNA from the aqueous phase was purified using the RNeasy 96 Qiagen vacuum system following the “Clean-up” procedure.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 microg total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 microg of cRNA were hybridized for 16 hr at 45C on GeneChip Rat 230 version 2 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned on GeneChip® Scanner 3000 7G 4C
| | Sample_data_processing = The data were analyzed with RMA. R was used with the affy package. Expresso with the following settings (bgcorrect.method=rma, normalize.method | quantiles.robust, pmcorrect.method=pmonly, summary.method=liwong) was used to normalize
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Jeppe,Skytte,Spicker
| | Sample_contact_email | skytte@cbs.dtu.dk
| | Sample_contact_department | CBS
| | Sample_contact_institute | Danish University of Technology
| | Sample_contact_address | Building 208
| | Sample_contact_city | Lundtofte
| | Sample_contact_zip/postal_code | XXXX
| | Sample_contact_country | Denmark
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM127nnn/GSM127065/suppl/GSM127065.CEL.gz
| | Sample_relation | Reanalyzed by: GSE31289
| | Sample_series_id | GSE5509
| | Sample_data_row_count | 31099
| | |
|
GSM127066 | GPL1355 |
|
Rat liver, treated with DNP, 15 mg/kg in water per orally, extrated 48 hours after treatment, biological rep3
|
Rat liver, left lateral lobe
|
Male Sprague-Dawley (Crl:CD(SD)IGS Br
Age: between 5 and 6 weeks old
|
Gene expression data from rat liver 48 hours after treatment with compound.
|
| Sample_geo_accession | GSM127066
| | Sample_status | Public on Aug 12 2006
| | Sample_submission_date | Aug 11 2006
| | Sample_last_update_date | Aug 09 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_biomaterial_provider_ch1 | Scantox, Lille Skensved, Denmark
| | Sample_treatment_protocol_ch1 | The animals were sacrificed 48 hours after treatment and organs were frozen for later analysis. Tissue samples of the left lateral lobe of the liver were snap frozen in liquid nitrogen, transferred to dry ice and stored at approximately -80?C
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Frozen liver samples were homogenized in 2 ml TRIzol® reagent (Invitrogen ; Life Technologies, Scotland) using an Ultra Turrax T25 basic homogenizer (IKA Labortechnik; IKA-Werke, Staufen, Germany). Chloroform (400 ?l) was added and homogenized samples were shaken vigorously by hand for 15 seconds. Phase separation was achieved by centrifugation for 15 min at 10,000 × g at 4°C. Total RNA from the aqueous phase was purified using the RNeasy 96 Qiagen vacuum system following the “Clean-up” procedure.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 microg total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 microg of cRNA were hybridized for 16 hr at 45C on GeneChip Rat 230 version 2 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned on GeneChip® Scanner 3000 7G 4C
| | Sample_data_processing = The data were analyzed with RMA. R was used with the affy package. Expresso with the following settings (bgcorrect.method=rma, normalize.method | quantiles.robust, pmcorrect.method=pmonly, summary.method=liwong) was used to normalize
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Jeppe,Skytte,Spicker
| | Sample_contact_email | skytte@cbs.dtu.dk
| | Sample_contact_department | CBS
| | Sample_contact_institute | Danish University of Technology
| | Sample_contact_address | Building 208
| | Sample_contact_city | Lundtofte
| | Sample_contact_zip/postal_code | XXXX
| | Sample_contact_country | Denmark
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM127nnn/GSM127066/suppl/GSM127066.CEL.gz
| | Sample_relation | Reanalyzed by: GSE31289
| | Sample_series_id | GSE5509
| | Sample_data_row_count | 31099
| | |
|
GSM127067 | GPL1355 |
|
Rat liver, treated with DNP, 15 mg/kg in water per orally, extrated 48 hours after treatment, biological rep4
|
Rat liver, left lateral lobe
|
Male Sprague-Dawley (Crl:CD(SD)IGS Br
Age: between 5 and 6 weeks old
|
Gene expression data from rat liver 48 hours after treatment with compound.
|
| Sample_geo_accession | GSM127067
| | Sample_status | Public on Aug 12 2006
| | Sample_submission_date | Aug 11 2006
| | Sample_last_update_date | Aug 09 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_biomaterial_provider_ch1 | Scantox, Lille Skensved, Denmark
| | Sample_treatment_protocol_ch1 | The animals were sacrificed 48 hours after treatment and organs were frozen for later analysis. Tissue samples of the left lateral lobe of the liver were snap frozen in liquid nitrogen, transferred to dry ice and stored at approximately -80?C
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Frozen liver samples were homogenized in 2 ml TRIzol® reagent (Invitrogen ; Life Technologies, Scotland) using an Ultra Turrax T25 basic homogenizer (IKA Labortechnik; IKA-Werke, Staufen, Germany). Chloroform (400 ?l) was added and homogenized samples were shaken vigorously by hand for 15 seconds. Phase separation was achieved by centrifugation for 15 min at 10,000 × g at 4°C. Total RNA from the aqueous phase was purified using the RNeasy 96 Qiagen vacuum system following the “Clean-up” procedure.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 microg total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 microg of cRNA were hybridized for 16 hr at 45C on GeneChip Rat 230 version 2 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned on GeneChip® Scanner 3000 7G 4C
| | Sample_data_processing = The data were analyzed with RMA. R was used with the affy package. Expresso with the following settings (bgcorrect.method=rma, normalize.method | quantiles.robust, pmcorrect.method=pmonly, summary.method=liwong) was used to normalize
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Jeppe,Skytte,Spicker
| | Sample_contact_email | skytte@cbs.dtu.dk
| | Sample_contact_department | CBS
| | Sample_contact_institute | Danish University of Technology
| | Sample_contact_address | Building 208
| | Sample_contact_city | Lundtofte
| | Sample_contact_zip/postal_code | XXXX
| | Sample_contact_country | Denmark
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM127nnn/GSM127067/suppl/GSM127067.CEL.gz
| | Sample_relation | Reanalyzed by: GSE31289
| | Sample_series_id | GSE5509
| | Sample_data_row_count | 31099
| | |
|
GSM127068 | GPL1355 |
|
Rat liver, treated with DNP, 15 mg/kg in water per orally, extrated 48 hours after treatment, biological rep5
|
Rat liver, left lateral lobe
|
Male Sprague-Dawley (Crl:CD(SD)IGS Br
Age: between 5 and 6 weeks old
|
Gene expression data from rat liver 48 hours after treatment with compound.
|
| Sample_geo_accession | GSM127068
| | Sample_status | Public on Aug 12 2006
| | Sample_submission_date | Aug 11 2006
| | Sample_last_update_date | Aug 09 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_biomaterial_provider_ch1 | Scantox, Lille Skensved, Denmark
| | Sample_treatment_protocol_ch1 | The animals were sacrificed 48 hours after treatment and organs were frozen for later analysis. Tissue samples of the left lateral lobe of the liver were snap frozen in liquid nitrogen, transferred to dry ice and stored at approximately -80?C
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Frozen liver samples were homogenized in 2 ml TRIzol® reagent (Invitrogen ; Life Technologies, Scotland) using an Ultra Turrax T25 basic homogenizer (IKA Labortechnik; IKA-Werke, Staufen, Germany). Chloroform (400 ?l) was added and homogenized samples were shaken vigorously by hand for 15 seconds. Phase separation was achieved by centrifugation for 15 min at 10,000 × g at 4°C. Total RNA from the aqueous phase was purified using the RNeasy 96 Qiagen vacuum system following the “Clean-up” procedure.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 microg total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 microg of cRNA were hybridized for 16 hr at 45C on GeneChip Rat 230 version 2 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned on GeneChip® Scanner 3000 7G 4C
| | Sample_data_processing = The data were analyzed with RMA. R was used with the affy package. Expresso with the following settings (bgcorrect.method=rma, normalize.method | quantiles.robust, pmcorrect.method=pmonly, summary.method=liwong) was used to normalize
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Jeppe,Skytte,Spicker
| | Sample_contact_email | skytte@cbs.dtu.dk
| | Sample_contact_department | CBS
| | Sample_contact_institute | Danish University of Technology
| | Sample_contact_address | Building 208
| | Sample_contact_city | Lundtofte
| | Sample_contact_zip/postal_code | XXXX
| | Sample_contact_country | Denmark
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM127nnn/GSM127068/suppl/GSM127068.CEL.gz
| | Sample_relation | Reanalyzed by: GSE31289
| | Sample_series_id | GSE5509
| | Sample_data_row_count | 31099
| | |
|
GSM127069 | GPL1355 |
|
Rat liver, treated with NMF, 1000 mg/kg in saline i.p., extrated 48 hours after treatment, biological rep1
|
Rat liver, left lateral lobe
|
Male Sprague-Dawley (Crl:CD(SD)IGS Br
Age: between 5 and 6 weeks old
|
Gene expression data from rat liver 48 hours after treatment with compound.
|
| Sample_geo_accession | GSM127069
| | Sample_status | Public on Aug 12 2006
| | Sample_submission_date | Aug 11 2006
| | Sample_last_update_date | Aug 09 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_biomaterial_provider_ch1 | Scantox, Lille Skensved, Denmark
| | Sample_treatment_protocol_ch1 | The animals were sacrificed 48 hours after treatment and organs were frozen for later analysis. Tissue samples of the left lateral lobe of the liver were snap frozen in liquid nitrogen, transferred to dry ice and stored at approximately -80?C
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Frozen liver samples were homogenized in 2 ml TRIzol® reagent (Invitrogen ; Life Technologies, Scotland) using an Ultra Turrax T25 basic homogenizer (IKA Labortechnik; IKA-Werke, Staufen, Germany). Chloroform (400 ?l) was added and homogenized samples were shaken vigorously by hand for 15 seconds. Phase separation was achieved by centrifugation for 15 min at 10,000 × g at 4°C. Total RNA from the aqueous phase was purified using the RNeasy 96 Qiagen vacuum system following the “Clean-up” procedure.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 microg total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 microg of cRNA were hybridized for 16 hr at 45C on GeneChip Rat 230 version 2 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned on GeneChip® Scanner 3000 7G 4C
| | Sample_data_processing = The data were analyzed with RMA. R was used with the affy package. Expresso with the following settings (bgcorrect.method=rma, normalize.method | quantiles.robust, pmcorrect.method=pmonly, summary.method=liwong) was used to normalize
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Jeppe,Skytte,Spicker
| | Sample_contact_email | skytte@cbs.dtu.dk
| | Sample_contact_department | CBS
| | Sample_contact_institute | Danish University of Technology
| | Sample_contact_address | Building 208
| | Sample_contact_city | Lundtofte
| | Sample_contact_zip/postal_code | XXXX
| | Sample_contact_country | Denmark
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM127nnn/GSM127069/suppl/GSM127069.CEL.gz
| | Sample_relation | Reanalyzed by: GSE31289
| | Sample_series_id | GSE5509
| | Sample_data_row_count | 31099
| | |
|
GSM127070 | GPL1355 |
|
Rat liver, treated with NMF, 1000 mg/kg in saline i.p., extrated 48 hours after treatment, biological rep2
|
Rat liver, left lateral lobe
|
Male Sprague-Dawley (Crl:CD(SD)IGS Br
Age: between 5 and 6 weeks old
|
Gene expression data from rat liver 48 hours after treatment with compound.
|
| Sample_geo_accession | GSM127070
| | Sample_status | Public on Aug 12 2006
| | Sample_submission_date | Aug 11 2006
| | Sample_last_update_date | Aug 09 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_biomaterial_provider_ch1 | Scantox, Lille Skensved, Denmark
| | Sample_treatment_protocol_ch1 | The animals were sacrificed 48 hours after treatment and organs were frozen for later analysis. Tissue samples of the left lateral lobe of the liver were snap frozen in liquid nitrogen, transferred to dry ice and stored at approximately -80?C
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Frozen liver samples were homogenized in 2 ml TRIzol® reagent (Invitrogen ; Life Technologies, Scotland) using an Ultra Turrax T25 basic homogenizer (IKA Labortechnik; IKA-Werke, Staufen, Germany). Chloroform (400 ?l) was added and homogenized samples were shaken vigorously by hand for 15 seconds. Phase separation was achieved by centrifugation for 15 min at 10,000 × g at 4°C. Total RNA from the aqueous phase was purified using the RNeasy 96 Qiagen vacuum system following the “Clean-up” procedure.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 microg total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 microg of cRNA were hybridized for 16 hr at 45C on GeneChip Rat 230 version 2 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned on GeneChip® Scanner 3000 7G 4C
| | Sample_data_processing = The data were analyzed with RMA. R was used with the affy package. Expresso with the following settings (bgcorrect.method=rma, normalize.method | quantiles.robust, pmcorrect.method=pmonly, summary.method=liwong) was used to normalize
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Jeppe,Skytte,Spicker
| | Sample_contact_email | skytte@cbs.dtu.dk
| | Sample_contact_department | CBS
| | Sample_contact_institute | Danish University of Technology
| | Sample_contact_address | Building 208
| | Sample_contact_city | Lundtofte
| | Sample_contact_zip/postal_code | XXXX
| | Sample_contact_country | Denmark
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM127nnn/GSM127070/suppl/GSM127070.CEL.gz
| | Sample_relation | Reanalyzed by: GSE31289
| | Sample_series_id | GSE5509
| | Sample_data_row_count | 31099
| | |
|
GSM127071 | GPL1355 |
|
Rat liver, treated with NMF, 1000 mg/kg in saline i.p., extrated 48 hours after treatment, biological rep3
|
Rat liver, left lateral lobe
|
Male Sprague-Dawley (Crl:CD(SD)IGS Br
Age: between 5 and 6 weeks old
|
Gene expression data from rat liver 48 hours after treatment with compound.
|
| Sample_geo_accession | GSM127071
| | Sample_status | Public on Aug 12 2006
| | Sample_submission_date | Aug 11 2006
| | Sample_last_update_date | Aug 09 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_biomaterial_provider_ch1 | Scantox, Lille Skensved, Denmark
| | Sample_treatment_protocol_ch1 | The animals were sacrificed 48 hours after treatment and organs were frozen for later analysis. Tissue samples of the left lateral lobe of the liver were snap frozen in liquid nitrogen, transferred to dry ice and stored at approximately -80?C
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Frozen liver samples were homogenized in 2 ml TRIzol® reagent (Invitrogen ; Life Technologies, Scotland) using an Ultra Turrax T25 basic homogenizer (IKA Labortechnik; IKA-Werke, Staufen, Germany). Chloroform (400 ?l) was added and homogenized samples were shaken vigorously by hand for 15 seconds. Phase separation was achieved by centrifugation for 15 min at 10,000 × g at 4°C. Total RNA from the aqueous phase was purified using the RNeasy 96 Qiagen vacuum system following the “Clean-up” procedure.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 microg total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 microg of cRNA were hybridized for 16 hr at 45C on GeneChip Rat 230 version 2 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned on GeneChip® Scanner 3000 7G 4C
| | Sample_data_processing = The data were analyzed with RMA. R was used with the affy package. Expresso with the following settings (bgcorrect.method=rma, normalize.method | quantiles.robust, pmcorrect.method=pmonly, summary.method=liwong) was used to normalize
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Jeppe,Skytte,Spicker
| | Sample_contact_email | skytte@cbs.dtu.dk
| | Sample_contact_department | CBS
| | Sample_contact_institute | Danish University of Technology
| | Sample_contact_address | Building 208
| | Sample_contact_city | Lundtofte
| | Sample_contact_zip/postal_code | XXXX
| | Sample_contact_country | Denmark
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM127nnn/GSM127071/suppl/GSM127071.CEL.gz
| | Sample_relation | Reanalyzed by: GSE31289
| | Sample_series_id | GSE5509
| | Sample_data_row_count | 31099
| | |
|
GSM127072 | GPL1355 |
|
Rat liver, treated with NMF, 1000 mg/kg in saline i.p., extrated 48 hours after treatment, biological rep4
|
Rat liver, left lateral lobe
|
Male Sprague-Dawley (Crl:CD(SD)IGS Br
Age: between 5 and 6 weeks old
|
Gene expression data from rat liver 48 hours after treatment with compound.
|
| Sample_geo_accession | GSM127072
| | Sample_status | Public on Aug 12 2006
| | Sample_submission_date | Aug 11 2006
| | Sample_last_update_date | Aug 09 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_biomaterial_provider_ch1 | Scantox, Lille Skensved, Denmark
| | Sample_treatment_protocol_ch1 | The animals were sacrificed 48 hours after treatment and organs were frozen for later analysis. Tissue samples of the left lateral lobe of the liver were snap frozen in liquid nitrogen, transferred to dry ice and stored at approximately -80?C
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Frozen liver samples were homogenized in 2 ml TRIzol® reagent (Invitrogen ; Life Technologies, Scotland) using an Ultra Turrax T25 basic homogenizer (IKA Labortechnik; IKA-Werke, Staufen, Germany). Chloroform (400 ?l) was added and homogenized samples were shaken vigorously by hand for 15 seconds. Phase separation was achieved by centrifugation for 15 min at 10,000 × g at 4°C. Total RNA from the aqueous phase was purified using the RNeasy 96 Qiagen vacuum system following the “Clean-up” procedure.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 microg total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 microg of cRNA were hybridized for 16 hr at 45C on GeneChip Rat 230 version 2 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned on GeneChip® Scanner 3000 7G 4C
| | Sample_data_processing = The data were analyzed with RMA. R was used with the affy package. Expresso with the following settings (bgcorrect.method=rma, normalize.method | quantiles.robust, pmcorrect.method=pmonly, summary.method=liwong) was used to normalize
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Jeppe,Skytte,Spicker
| | Sample_contact_email | skytte@cbs.dtu.dk
| | Sample_contact_department | CBS
| | Sample_contact_institute | Danish University of Technology
| | Sample_contact_address | Building 208
| | Sample_contact_city | Lundtofte
| | Sample_contact_zip/postal_code | XXXX
| | Sample_contact_country | Denmark
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM127nnn/GSM127072/suppl/GSM127072.CEL.gz
| | Sample_relation | Reanalyzed by: GSE31289
| | Sample_series_id | GSE5509
| | Sample_data_row_count | 31099
| | |
|
GSM127073 | GPL1355 |
|
Rat liver, treated with NMF, 1000 mg/kg in saline i.p., extrated 48 hours after treatment, biological rep5
|
Rat liver, left lateral lobe
|
Male Sprague-Dawley (Crl:CD(SD)IGS Br
Age: between 5 and 6 weeks old
|
Gene expression data from rat liver 48 hours after treatment with compound.
|
| Sample_geo_accession | GSM127073
| | Sample_status | Public on Aug 12 2006
| | Sample_submission_date | Aug 11 2006
| | Sample_last_update_date | Aug 09 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_biomaterial_provider_ch1 | Scantox, Lille Skensved, Denmark
| | Sample_treatment_protocol_ch1 | The animals were sacrificed 48 hours after treatment and organs were frozen for later analysis. Tissue samples of the left lateral lobe of the liver were snap frozen in liquid nitrogen, transferred to dry ice and stored at approximately -80?C
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Frozen liver samples were homogenized in 2 ml TRIzol® reagent (Invitrogen ; Life Technologies, Scotland) using an Ultra Turrax T25 basic homogenizer (IKA Labortechnik; IKA-Werke, Staufen, Germany). Chloroform (400 ?l) was added and homogenized samples were shaken vigorously by hand for 15 seconds. Phase separation was achieved by centrifugation for 15 min at 10,000 × g at 4°C. Total RNA from the aqueous phase was purified using the RNeasy 96 Qiagen vacuum system following the “Clean-up” procedure.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 microg total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 microg of cRNA were hybridized for 16 hr at 45C on GeneChip Rat 230 version 2 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned on GeneChip® Scanner 3000 7G 4C
| | Sample_data_processing = The data were analyzed with RMA. R was used with the affy package. Expresso with the following settings (bgcorrect.method=rma, normalize.method | quantiles.robust, pmcorrect.method=pmonly, summary.method=liwong) was used to normalize
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Jeppe,Skytte,Spicker
| | Sample_contact_email | skytte@cbs.dtu.dk
| | Sample_contact_department | CBS
| | Sample_contact_institute | Danish University of Technology
| | Sample_contact_address | Building 208
| | Sample_contact_city | Lundtofte
| | Sample_contact_zip/postal_code | XXXX
| | Sample_contact_country | Denmark
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM127nnn/GSM127073/suppl/GSM127073.CEL.gz
| | Sample_relation | Reanalyzed by: GSE31289
| | Sample_series_id | GSE5509
| | Sample_data_row_count | 31099
| | |
|
GSM127074 | GPL1355 |
|
treated with Roziglitazone, 1000 mg/kg in Methylcellulose soln per orally, extracted 48h after treatment, biol. rep1
|
Rat liver, left lateral lobe
|
Male Sprague-Dawley (Crl:CD(SD)IGS Br
Age: between 5 and 6 weeks old
|
Gene expression data from rat liver 48 hours after treatment with compound.
|
| Sample_geo_accession | GSM127074
| | Sample_status | Public on Aug 12 2006
| | Sample_submission_date | Aug 11 2006
| | Sample_last_update_date | Aug 09 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_biomaterial_provider_ch1 | Scantox, Lille Skensved, Denmark
| | Sample_treatment_protocol_ch1 | The animals were sacrificed 48 hours after treatment and organs were frozen for later analysis. Tissue samples of the left lateral lobe of the liver were snap frozen in liquid nitrogen, transferred to dry ice and stored at approximately -80?C
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Frozen liver samples were homogenized in 2 ml TRIzol® reagent (Invitrogen ; Life Technologies, Scotland) using an Ultra Turrax T25 basic homogenizer (IKA Labortechnik; IKA-Werke, Staufen, Germany). Chloroform (400 ?l) was added and homogenized samples were shaken vigorously by hand for 15 seconds. Phase separation was achieved by centrifugation for 15 min at 10,000 × g at 4°C. Total RNA from the aqueous phase was purified using the RNeasy 96 Qiagen vacuum system following the “Clean-up” procedure.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 microg total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 microg of cRNA were hybridized for 16 hr at 45C on GeneChip Rat 230 version 2 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned on GeneChip® Scanner 3000 7G 4C
| | Sample_data_processing = The data were analyzed with RMA. R was used with the affy package. Expresso with the following settings (bgcorrect.method=rma, normalize.method | quantiles.robust, pmcorrect.method=pmonly, summary.method=liwong) was used to normalize
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Jeppe,Skytte,Spicker
| | Sample_contact_email | skytte@cbs.dtu.dk
| | Sample_contact_department | CBS
| | Sample_contact_institute | Danish University of Technology
| | Sample_contact_address | Building 208
| | Sample_contact_city | Lundtofte
| | Sample_contact_zip/postal_code | XXXX
| | Sample_contact_country | Denmark
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM127nnn/GSM127074/suppl/GSM127074.CEL.gz
| | Sample_relation | Reanalyzed by: GSE31289
| | Sample_series_id | GSE5509
| | Sample_data_row_count | 31099
| | |
|
GSM127075 | GPL1355 |
|
treated with Roziglitazone, 1000 mg/kg in Methylcellulose soln per orally, extracted 48h after treatment, biol. rep2
|
Rat liver, left lateral lobe
|
Male Sprague-Dawley (Crl:CD(SD)IGS Br
Age: between 5 and 6 weeks old
|
Gene expression data from rat liver 48 hours after treatment with compound.
|
| Sample_geo_accession | GSM127075
| | Sample_status | Public on Aug 12 2006
| | Sample_submission_date | Aug 11 2006
| | Sample_last_update_date | Aug 09 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_biomaterial_provider_ch1 | Scantox, Lille Skensved, Denmark
| | Sample_treatment_protocol_ch1 | The animals were sacrificed 48 hours after treatment and organs were frozen for later analysis. Tissue samples of the left lateral lobe of the liver were snap frozen in liquid nitrogen, transferred to dry ice and stored at approximately -80?C
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Frozen liver samples were homogenized in 2 ml TRIzol® reagent (Invitrogen ; Life Technologies, Scotland) using an Ultra Turrax T25 basic homogenizer (IKA Labortechnik; IKA-Werke, Staufen, Germany). Chloroform (400 ?l) was added and homogenized samples were shaken vigorously by hand for 15 seconds. Phase separation was achieved by centrifugation for 15 min at 10,000 × g at 4°C. Total RNA from the aqueous phase was purified using the RNeasy 96 Qiagen vacuum system following the “Clean-up” procedure.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 microg total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 microg of cRNA were hybridized for 16 hr at 45C on GeneChip Rat 230 version 2 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned on GeneChip® Scanner 3000 7G 4C
| | Sample_data_processing = The data were analyzed with RMA. R was used with the affy package. Expresso with the following settings (bgcorrect.method=rma, normalize.method | quantiles.robust, pmcorrect.method=pmonly, summary.method=liwong) was used to normalize
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Jeppe,Skytte,Spicker
| | Sample_contact_email | skytte@cbs.dtu.dk
| | Sample_contact_department | CBS
| | Sample_contact_institute | Danish University of Technology
| | Sample_contact_address | Building 208
| | Sample_contact_city | Lundtofte
| | Sample_contact_zip/postal_code | XXXX
| | Sample_contact_country | Denmark
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM127nnn/GSM127075/suppl/GSM127075.CEL.gz
| | Sample_relation | Reanalyzed by: GSE31289
| | Sample_series_id | GSE5509
| | Sample_data_row_count | 31099
| | |
|
GSM127076 | GPL1355 |
|
treated with Roziglitazone, 1000 mg/kg in Methylcellulose soln per orally, extracted 48h after treatment, biol. rep3
|
Rat liver, left lateral lobe
|
Male Sprague-Dawley (Crl:CD(SD)IGS Br
Age: between 5 and 6 weeks old
|
Gene expression data from rat liver 48 hours after treatment with compound.
|
| Sample_geo_accession | GSM127076
| | Sample_status | Public on Aug 12 2006
| | Sample_submission_date | Aug 11 2006
| | Sample_last_update_date | Aug 09 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_biomaterial_provider_ch1 | Scantox, Lille Skensved, Denmark
| | Sample_treatment_protocol_ch1 | The animals were sacrificed 48 hours after treatment and organs were frozen for later analysis. Tissue samples of the left lateral lobe of the liver were snap frozen in liquid nitrogen, transferred to dry ice and stored at approximately -80?C
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Frozen liver samples were homogenized in 2 ml TRIzol® reagent (Invitrogen ; Life Technologies, Scotland) using an Ultra Turrax T25 basic homogenizer (IKA Labortechnik; IKA-Werke, Staufen, Germany). Chloroform (400 ?l) was added and homogenized samples were shaken vigorously by hand for 15 seconds. Phase separation was achieved by centrifugation for 15 min at 10,000 × g at 4°C. Total RNA from the aqueous phase was purified using the RNeasy 96 Qiagen vacuum system following the “Clean-up” procedure.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 microg total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 microg of cRNA were hybridized for 16 hr at 45C on GeneChip Rat 230 version 2 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned on GeneChip® Scanner 3000 7G 4C
| | Sample_data_processing = The data were analyzed with RMA. R was used with the affy package. Expresso with the following settings (bgcorrect.method=rma, normalize.method | quantiles.robust, pmcorrect.method=pmonly, summary.method=liwong) was used to normalize
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Jeppe,Skytte,Spicker
| | Sample_contact_email | skytte@cbs.dtu.dk
| | Sample_contact_department | CBS
| | Sample_contact_institute | Danish University of Technology
| | Sample_contact_address | Building 208
| | Sample_contact_city | Lundtofte
| | Sample_contact_zip/postal_code | XXXX
| | Sample_contact_country | Denmark
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM127nnn/GSM127076/suppl/GSM127076.CEL.gz
| | Sample_relation | Reanalyzed by: GSE31289
| | Sample_series_id | GSE5509
| | Sample_data_row_count | 31099
| | |
|
GSM127077 | GPL1355 |
|
treated with Roziglitazone, 1000 mg/kg in Methylcellulose soln per orally, extracted 48h after treatment, biol. rep4
|
Rat liver, left lateral lobe
|
Male Sprague-Dawley (Crl:CD(SD)IGS Br
Age: between 5 and 6 weeks old
|
Gene expression data from rat liver 48 hours after treatment with compound.
|
| Sample_geo_accession | GSM127077
| | Sample_status | Public on Aug 12 2006
| | Sample_submission_date | Aug 11 2006
| | Sample_last_update_date | Aug 09 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_biomaterial_provider_ch1 | Scantox, Lille Skensved, Denmark
| | Sample_treatment_protocol_ch1 | The animals were sacrificed 48 hours after treatment and organs were frozen for later analysis. Tissue samples of the left lateral lobe of the liver were snap frozen in liquid nitrogen, transferred to dry ice and stored at approximately -80?C
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Frozen liver samples were homogenized in 2 ml TRIzol® reagent (Invitrogen ; Life Technologies, Scotland) using an Ultra Turrax T25 basic homogenizer (IKA Labortechnik; IKA-Werke, Staufen, Germany). Chloroform (400 ?l) was added and homogenized samples were shaken vigorously by hand for 15 seconds. Phase separation was achieved by centrifugation for 15 min at 10,000 × g at 4°C. Total RNA from the aqueous phase was purified using the RNeasy 96 Qiagen vacuum system following the “Clean-up” procedure.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 microg total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 microg of cRNA were hybridized for 16 hr at 45C on GeneChip Rat 230 version 2 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned on GeneChip® Scanner 3000 7G 4C
| | Sample_data_processing = The data were analyzed with RMA. R was used with the affy package. Expresso with the following settings (bgcorrect.method=rma, normalize.method | quantiles.robust, pmcorrect.method=pmonly, summary.method=liwong) was used to normalize
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Jeppe,Skytte,Spicker
| | Sample_contact_email | skytte@cbs.dtu.dk
| | Sample_contact_department | CBS
| | Sample_contact_institute | Danish University of Technology
| | Sample_contact_address | Building 208
| | Sample_contact_city | Lundtofte
| | Sample_contact_zip/postal_code | XXXX
| | Sample_contact_country | Denmark
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM127nnn/GSM127077/suppl/GSM127077.CEL.gz
| | Sample_relation | Reanalyzed by: GSE31289
| | Sample_series_id | GSE5509
| | Sample_data_row_count | 31099
| | |
|
GSM127078 | GPL1355 |
|
treated with Roziglitazone, 1000 mg/kg in Methylcellulose soln per orally, extracted 48h after treatment, biol. rep5
|
Rat liver, left lateral lobe
|
Male Sprague-Dawley (Crl:CD(SD)IGS Br
Age: between 5 and 6 weeks old
|
Gene expression data from rat liver 48 hours after treatment with compound.
|
| Sample_geo_accession | GSM127078
| | Sample_status | Public on Aug 12 2006
| | Sample_submission_date | Aug 11 2006
| | Sample_last_update_date | Aug 09 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_biomaterial_provider_ch1 | Scantox, Lille Skensved, Denmark
| | Sample_treatment_protocol_ch1 | The animals were sacrificed 48 hours after treatment and organs were frozen for later analysis. Tissue samples of the left lateral lobe of the liver were snap frozen in liquid nitrogen, transferred to dry ice and stored at approximately -80?C
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Frozen liver samples were homogenized in 2 ml TRIzol® reagent (Invitrogen ; Life Technologies, Scotland) using an Ultra Turrax T25 basic homogenizer (IKA Labortechnik; IKA-Werke, Staufen, Germany). Chloroform (400 ?l) was added and homogenized samples were shaken vigorously by hand for 15 seconds. Phase separation was achieved by centrifugation for 15 min at 10,000 × g at 4°C. Total RNA from the aqueous phase was purified using the RNeasy 96 Qiagen vacuum system following the “Clean-up” procedure.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 microg total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 microg of cRNA were hybridized for 16 hr at 45C on GeneChip Rat 230 version 2 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned on GeneChip® Scanner 3000 7G 4C
| | Sample_data_processing = The data were analyzed with RMA. R was used with the affy package. Expresso with the following settings (bgcorrect.method=rma, normalize.method | quantiles.robust, pmcorrect.method=pmonly, summary.method=liwong) was used to normalize
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Jeppe,Skytte,Spicker
| | Sample_contact_email | skytte@cbs.dtu.dk
| | Sample_contact_department | CBS
| | Sample_contact_institute | Danish University of Technology
| | Sample_contact_address | Building 208
| | Sample_contact_city | Lundtofte
| | Sample_contact_zip/postal_code | XXXX
| | Sample_contact_country | Denmark
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM127nnn/GSM127078/suppl/GSM127078.CEL.gz
| | Sample_relation | Reanalyzed by: GSE31289
| | Sample_series_id | GSE5509
| | Sample_data_row_count | 31099
| | |
|
GSM127079 | GPL1355 |
|
Rat liver, untreated (control), extrated 48 hours after treatment (no treatment in this case), biological rep1
|
Rat liver, left lateral lobe
|
Male Sprague-Dawley (Crl:CD(SD)IGS Br
Age: between 5 and 6 weeks old
|
Gene expression data from rat liver 48 hours after treatment with compound.
|
| Sample_geo_accession | GSM127079
| | Sample_status | Public on Aug 12 2006
| | Sample_submission_date | Aug 11 2006
| | Sample_last_update_date | Aug 09 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_biomaterial_provider_ch1 | Scantox, Lille Skensved, Denmark
| | Sample_treatment_protocol_ch1 | The animals were sacrificed 48 hours after treatment and organs were frozen for later analysis. Tissue samples of the left lateral lobe of the liver were snap frozen in liquid nitrogen, transferred to dry ice and stored at approximately -80?C
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Frozen liver samples were homogenized in 2 ml TRIzol® reagent (Invitrogen ; Life Technologies, Scotland) using an Ultra Turrax T25 basic homogenizer (IKA Labortechnik; IKA-Werke, Staufen, Germany). Chloroform (400 ?l) was added and homogenized samples were shaken vigorously by hand for 15 seconds. Phase separation was achieved by centrifugation for 15 min at 10,000 × g at 4°C. Total RNA from the aqueous phase was purified using the RNeasy 96 Qiagen vacuum system following the “Clean-up” procedure.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 microg total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 microg of cRNA were hybridized for 16 hr at 45C on GeneChip Rat 230 version 2 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned on GeneChip® Scanner 3000 7G 4C
| | Sample_data_processing = The data were analyzed with RMA. R was used with the affy package. Expresso with the following settings (bgcorrect.method=rma, normalize.method | quantiles.robust, pmcorrect.method=pmonly, summary.method=liwong) was used to normalize
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Jeppe,Skytte,Spicker
| | Sample_contact_email | skytte@cbs.dtu.dk
| | Sample_contact_department | CBS
| | Sample_contact_institute | Danish University of Technology
| | Sample_contact_address | Building 208
| | Sample_contact_city | Lundtofte
| | Sample_contact_zip/postal_code | XXXX
| | Sample_contact_country | Denmark
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM127nnn/GSM127079/suppl/GSM127079.CEL.gz
| | Sample_relation | Reanalyzed by: GSE31289
| | Sample_series_id | GSE5509
| | Sample_data_row_count | 31099
| | |
|
GSM127080 | GPL1355 |
|
Rat liver, untreated (control), extrated 48 hours after treatment (no treatment in this case), biological rep2
|
Rat liver, left lateral lobe
|
Male Sprague-Dawley (Crl:CD(SD)IGS Br
Age: between 5 and 6 weeks old
|
Gene expression data from rat liver 48 hours after treatment with compound.
|
| Sample_geo_accession | GSM127080
| | Sample_status | Public on Aug 12 2006
| | Sample_submission_date | Aug 11 2006
| | Sample_last_update_date | Aug 09 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_biomaterial_provider_ch1 | Scantox, Lille Skensved, Denmark
| | Sample_treatment_protocol_ch1 | The animals were sacrificed 48 hours after treatment and organs were frozen for later analysis. Tissue samples of the left lateral lobe of the liver were snap frozen in liquid nitrogen, transferred to dry ice and stored at approximately -80?C
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Frozen liver samples were homogenized in 2 ml TRIzol® reagent (Invitrogen ; Life Technologies, Scotland) using an Ultra Turrax T25 basic homogenizer (IKA Labortechnik; IKA-Werke, Staufen, Germany). Chloroform (400 ?l) was added and homogenized samples were shaken vigorously by hand for 15 seconds. Phase separation was achieved by centrifugation for 15 min at 10,000 × g at 4°C. Total RNA from the aqueous phase was purified using the RNeasy 96 Qiagen vacuum system following the “Clean-up” procedure.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 microg total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 microg of cRNA were hybridized for 16 hr at 45C on GeneChip Rat 230 version 2 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned on GeneChip® Scanner 3000 7G 4C
| | Sample_data_processing = The data were analyzed with RMA. R was used with the affy package. Expresso with the following settings (bgcorrect.method=rma, normalize.method | quantiles.robust, pmcorrect.method=pmonly, summary.method=liwong) was used to normalize
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Jeppe,Skytte,Spicker
| | Sample_contact_email | skytte@cbs.dtu.dk
| | Sample_contact_department | CBS
| | Sample_contact_institute | Danish University of Technology
| | Sample_contact_address | Building 208
| | Sample_contact_city | Lundtofte
| | Sample_contact_zip/postal_code | XXXX
| | Sample_contact_country | Denmark
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM127nnn/GSM127080/suppl/GSM127080.CEL.gz
| | Sample_relation | Reanalyzed by: GSE31289
| | Sample_series_id | GSE5509
| | Sample_data_row_count | 31099
| | |
|
GSM127081 | GPL1355 |
|
Rat liver, untreated (control), extrated 48 hours after treatment (no treatment in this case), biological rep3
|
Rat liver, left lateral lobe
|
Male Sprague-Dawley (Crl:CD(SD)IGS Br
Age: between 5 and 6 weeks old
|
Gene expression data from rat liver 48 hours after treatment with compound.
|
| Sample_geo_accession | GSM127081
| | Sample_status | Public on Aug 12 2006
| | Sample_submission_date | Aug 11 2006
| | Sample_last_update_date | Aug 09 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_biomaterial_provider_ch1 | Scantox, Lille Skensved, Denmark
| | Sample_treatment_protocol_ch1 | The animals were sacrificed 48 hours after treatment and organs were frozen for later analysis. Tissue samples of the left lateral lobe of the liver were snap frozen in liquid nitrogen, transferred to dry ice and stored at approximately -80?C
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Frozen liver samples were homogenized in 2 ml TRIzol® reagent (Invitrogen ; Life Technologies, Scotland) using an Ultra Turrax T25 basic homogenizer (IKA Labortechnik; IKA-Werke, Staufen, Germany). Chloroform (400 ?l) was added and homogenized samples were shaken vigorously by hand for 15 seconds. Phase separation was achieved by centrifugation for 15 min at 10,000 × g at 4°C. Total RNA from the aqueous phase was purified using the RNeasy 96 Qiagen vacuum system following the “Clean-up” procedure.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 microg total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 microg of cRNA were hybridized for 16 hr at 45C on GeneChip Rat 230 version 2 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned on GeneChip® Scanner 3000 7G 4C
| | Sample_data_processing = The data were analyzed with RMA. R was used with the affy package. Expresso with the following settings (bgcorrect.method=rma, normalize.method | quantiles.robust, pmcorrect.method=pmonly, summary.method=liwong) was used to normalize
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Jeppe,Skytte,Spicker
| | Sample_contact_email | skytte@cbs.dtu.dk
| | Sample_contact_department | CBS
| | Sample_contact_institute | Danish University of Technology
| | Sample_contact_address | Building 208
| | Sample_contact_city | Lundtofte
| | Sample_contact_zip/postal_code | XXXX
| | Sample_contact_country | Denmark
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM127nnn/GSM127081/suppl/GSM127081.CEL.gz
| | Sample_relation | Reanalyzed by: GSE31289
| | Sample_series_id | GSE5509
| | Sample_data_row_count | 31099
| | |
|
GSM127082 | GPL1355 |
|
Rat liver, untreated (control), extrated 48 hours after treatment (no treatment in this case), biological rep4
|
Rat liver, left lateral lobe
|
Male Sprague-Dawley (Crl:CD(SD)IGS Br
Age: between 5 and 6 weeks old
|
Gene expression data from rat liver 48 hours after treatment with compound.
|
| Sample_geo_accession | GSM127082
| | Sample_status | Public on Aug 12 2006
| | Sample_submission_date | Aug 11 2006
| | Sample_last_update_date | Aug 09 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_biomaterial_provider_ch1 | Scantox, Lille Skensved, Denmark
| | Sample_treatment_protocol_ch1 | The animals were sacrificed 48 hours after treatment and organs were frozen for later analysis. Tissue samples of the left lateral lobe of the liver were snap frozen in liquid nitrogen, transferred to dry ice and stored at approximately -80?C
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Frozen liver samples were homogenized in 2 ml TRIzol® reagent (Invitrogen ; Life Technologies, Scotland) using an Ultra Turrax T25 basic homogenizer (IKA Labortechnik; IKA-Werke, Staufen, Germany). Chloroform (400 ?l) was added and homogenized samples were shaken vigorously by hand for 15 seconds. Phase separation was achieved by centrifugation for 15 min at 10,000 × g at 4°C. Total RNA from the aqueous phase was purified using the RNeasy 96 Qiagen vacuum system following the “Clean-up” procedure.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 microg total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 microg of cRNA were hybridized for 16 hr at 45C on GeneChip Rat 230 version 2 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned on GeneChip® Scanner 3000 7G 4C
| | Sample_data_processing = The data were analyzed with RMA. R was used with the affy package. Expresso with the following settings (bgcorrect.method=rma, normalize.method | quantiles.robust, pmcorrect.method=pmonly, summary.method=liwong) was used to normalize
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Jeppe,Skytte,Spicker
| | Sample_contact_email | skytte@cbs.dtu.dk
| | Sample_contact_department | CBS
| | Sample_contact_institute | Danish University of Technology
| | Sample_contact_address | Building 208
| | Sample_contact_city | Lundtofte
| | Sample_contact_zip/postal_code | XXXX
| | Sample_contact_country | Denmark
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM127nnn/GSM127082/suppl/GSM127082.CEL.gz
| | Sample_relation | Reanalyzed by: GSE31289
| | Sample_series_id | GSE5509
| | Sample_data_row_count | 31099
| | |
|
GSM127083 | GPL1355 |
|
Rat liver, untreated (control), extrated 48 hours after treatment (no treatment in this case), biological rep5
|
Rat liver, left lateral lobe
|
Male Sprague-Dawley (Crl:CD(SD)IGS Br
Age: between 5 and 6 weeks old
|
Gene expression data from rat liver 48 hours after treatment with compound.
|
| Sample_geo_accession | GSM127083
| | Sample_status | Public on Aug 12 2006
| | Sample_submission_date | Aug 11 2006
| | Sample_last_update_date | Aug 09 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_biomaterial_provider_ch1 | Scantox, Lille Skensved, Denmark
| | Sample_treatment_protocol_ch1 | The animals were sacrificed 48 hours after treatment and organs were frozen for later analysis. Tissue samples of the left lateral lobe of the liver were snap frozen in liquid nitrogen, transferred to dry ice and stored at approximately -80?C
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Frozen liver samples were homogenized in 2 ml TRIzol® reagent (Invitrogen ; Life Technologies, Scotland) using an Ultra Turrax T25 basic homogenizer (IKA Labortechnik; IKA-Werke, Staufen, Germany). Chloroform (400 ?l) was added and homogenized samples were shaken vigorously by hand for 15 seconds. Phase separation was achieved by centrifugation for 15 min at 10,000 × g at 4°C. Total RNA from the aqueous phase was purified using the RNeasy 96 Qiagen vacuum system following the “Clean-up” procedure.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 microg total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 microg of cRNA were hybridized for 16 hr at 45C on GeneChip Rat 230 version 2 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned on GeneChip® Scanner 3000 7G 4C
| | Sample_data_processing = The data were analyzed with RMA. R was used with the affy package. Expresso with the following settings (bgcorrect.method=rma, normalize.method | quantiles.robust, pmcorrect.method=pmonly, summary.method=liwong) was used to normalize
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Jeppe,Skytte,Spicker
| | Sample_contact_email | skytte@cbs.dtu.dk
| | Sample_contact_department | CBS
| | Sample_contact_institute | Danish University of Technology
| | Sample_contact_address | Building 208
| | Sample_contact_city | Lundtofte
| | Sample_contact_zip/postal_code | XXXX
| | Sample_contact_country | Denmark
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM127nnn/GSM127083/suppl/GSM127083.CEL.gz
| | Sample_relation | Reanalyzed by: GSE31289
| | Sample_series_id | GSE5509
| | Sample_data_row_count | 31099
| | |
|
GSM127084 | GPL1355 |
|
Rat liver, untreated (control), extrated 48 hours after treatment (no treatment in this case), biological rep6
|
Rat liver, left lateral lobe
|
Male Sprague-Dawley (Crl:CD(SD)IGS Br
Age: between 5 and 6 weeks old
|
Gene expression data from rat liver 48 hours after treatment with compound.
|
| Sample_geo_accession | GSM127084
| | Sample_status | Public on Aug 12 2006
| | Sample_submission_date | Aug 11 2006
| | Sample_last_update_date | Aug 09 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_biomaterial_provider_ch1 | Scantox, Lille Skensved, Denmark
| | Sample_treatment_protocol_ch1 | The animals were sacrificed 48 hours after treatment and organs were frozen for later analysis. Tissue samples of the left lateral lobe of the liver were snap frozen in liquid nitrogen, transferred to dry ice and stored at approximately -80?C
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Frozen liver samples were homogenized in 2 ml TRIzol® reagent (Invitrogen ; Life Technologies, Scotland) using an Ultra Turrax T25 basic homogenizer (IKA Labortechnik; IKA-Werke, Staufen, Germany). Chloroform (400 ?l) was added and homogenized samples were shaken vigorously by hand for 15 seconds. Phase separation was achieved by centrifugation for 15 min at 10,000 × g at 4°C. Total RNA from the aqueous phase was purified using the RNeasy 96 Qiagen vacuum system following the “Clean-up” procedure.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 microg total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 microg of cRNA were hybridized for 16 hr at 45C on GeneChip Rat 230 version 2 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned on GeneChip® Scanner 3000 7G 4C
| | Sample_data_processing = The data were analyzed with RMA. R was used with the affy package. Expresso with the following settings (bgcorrect.method=rma, normalize.method | quantiles.robust, pmcorrect.method=pmonly, summary.method=liwong) was used to normalize
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Jeppe,Skytte,Spicker
| | Sample_contact_email | skytte@cbs.dtu.dk
| | Sample_contact_department | CBS
| | Sample_contact_institute | Danish University of Technology
| | Sample_contact_address | Building 208
| | Sample_contact_city | Lundtofte
| | Sample_contact_zip/postal_code | XXXX
| | Sample_contact_country | Denmark
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM127nnn/GSM127084/suppl/GSM127084.CEL.gz
| | Sample_relation | Reanalyzed by: GSE31289
| | Sample_series_id | GSE5509
| | Sample_data_row_count | 31099
| | |
|
GSM127085 | GPL1355 |
|
Rat liver, untreated (control), extrated 48 hours after treatment (no treatment in this case), biological rep7
|
Rat liver, left lateral lobe
|
Male Sprague-Dawley (Crl:CD(SD)IGS Br
Age: between 5 and 6 weeks old
|
Gene expression data from rat liver 48 hours after treatment with compound.
|
| Sample_geo_accession | GSM127085
| | Sample_status | Public on Aug 12 2006
| | Sample_submission_date | Aug 11 2006
| | Sample_last_update_date | Aug 09 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_biomaterial_provider_ch1 | Scantox, Lille Skensved, Denmark
| | Sample_treatment_protocol_ch1 | The animals were sacrificed 48 hours after treatment and organs were frozen for later analysis. Tissue samples of the left lateral lobe of the liver were snap frozen in liquid nitrogen, transferred to dry ice and stored at approximately -80?C
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Frozen liver samples were homogenized in 2 ml TRIzol® reagent (Invitrogen ; Life Technologies, Scotland) using an Ultra Turrax T25 basic homogenizer (IKA Labortechnik; IKA-Werke, Staufen, Germany). Chloroform (400 ?l) was added and homogenized samples were shaken vigorously by hand for 15 seconds. Phase separation was achieved by centrifugation for 15 min at 10,000 × g at 4°C. Total RNA from the aqueous phase was purified using the RNeasy 96 Qiagen vacuum system following the “Clean-up” procedure.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 microg total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 microg of cRNA were hybridized for 16 hr at 45C on GeneChip Rat 230 version 2 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned on GeneChip® Scanner 3000 7G 4C
| | Sample_data_processing = The data were analyzed with RMA. R was used with the affy package. Expresso with the following settings (bgcorrect.method=rma, normalize.method | quantiles.robust, pmcorrect.method=pmonly, summary.method=liwong) was used to normalize
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Jeppe,Skytte,Spicker
| | Sample_contact_email | skytte@cbs.dtu.dk
| | Sample_contact_department | CBS
| | Sample_contact_institute | Danish University of Technology
| | Sample_contact_address | Building 208
| | Sample_contact_city | Lundtofte
| | Sample_contact_zip/postal_code | XXXX
| | Sample_contact_country | Denmark
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM127nnn/GSM127085/suppl/GSM127085.CEL.gz
| | Sample_relation | Reanalyzed by: GSE31289
| | Sample_series_id | GSE5509
| | Sample_data_row_count | 31099
| | |
|
GSM127086 | GPL1355 |
|
Rat liver, untreated (control), extrated 48 hours after treatment (no treatment in this case), biological rep8
|
Rat liver, left lateral lobe
|
Male Sprague-Dawley (Crl:CD(SD)IGS Br
Age: between 5 and 6 weeks old
|
Gene expression data from rat liver 48 hours after treatment with compound.
|
| Sample_geo_accession | GSM127086
| | Sample_status | Public on Aug 12 2006
| | Sample_submission_date | Aug 11 2006
| | Sample_last_update_date | Aug 09 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_biomaterial_provider_ch1 | Scantox, Lille Skensved, Denmark
| | Sample_treatment_protocol_ch1 | The animals were sacrificed 48 hours after treatment and organs were frozen for later analysis. Tissue samples of the left lateral lobe of the liver were snap frozen in liquid nitrogen, transferred to dry ice and stored at approximately -80?C
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Frozen liver samples were homogenized in 2 ml TRIzol® reagent (Invitrogen ; Life Technologies, Scotland) using an Ultra Turrax T25 basic homogenizer (IKA Labortechnik; IKA-Werke, Staufen, Germany). Chloroform (400 ?l) was added and homogenized samples were shaken vigorously by hand for 15 seconds. Phase separation was achieved by centrifugation for 15 min at 10,000 × g at 4°C. Total RNA from the aqueous phase was purified using the RNeasy 96 Qiagen vacuum system following the “Clean-up” procedure.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 microg total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 microg of cRNA were hybridized for 16 hr at 45C on GeneChip Rat 230 version 2 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned on GeneChip® Scanner 3000 7G 4C
| | Sample_data_processing = The data were analyzed with RMA. R was used with the affy package. Expresso with the following settings (bgcorrect.method=rma, normalize.method | quantiles.robust, pmcorrect.method=pmonly, summary.method=liwong) was used to normalize
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Jeppe,Skytte,Spicker
| | Sample_contact_email | skytte@cbs.dtu.dk
| | Sample_contact_department | CBS
| | Sample_contact_institute | Danish University of Technology
| | Sample_contact_address | Building 208
| | Sample_contact_city | Lundtofte
| | Sample_contact_zip/postal_code | XXXX
| | Sample_contact_country | Denmark
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM127nnn/GSM127086/suppl/GSM127086.CEL.gz
| | Sample_relation | Reanalyzed by: GSE31289
| | Sample_series_id | GSE5509
| | Sample_data_row_count | 31099
| | |
|
GSM127087 | GPL1355 |
|
Rat liver, untreated (control), extrated 48 hours after treatment (no treatment in this case), biological rep9
|
Rat liver, left lateral lobe
|
Male Sprague-Dawley (Crl:CD(SD)IGS Br
Age: between 5 and 6 weeks old
|
Gene expression data from rat liver 48 hours after treatment with compound.
|
| Sample_geo_accession | GSM127087
| | Sample_status | Public on Aug 12 2006
| | Sample_submission_date | Aug 11 2006
| | Sample_last_update_date | Aug 09 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_biomaterial_provider_ch1 | Scantox, Lille Skensved, Denmark
| | Sample_treatment_protocol_ch1 | The animals were sacrificed 48 hours after treatment and organs were frozen for later analysis. Tissue samples of the left lateral lobe of the liver were snap frozen in liquid nitrogen, transferred to dry ice and stored at approximately -80?C
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Frozen liver samples were homogenized in 2 ml TRIzol® reagent (Invitrogen ; Life Technologies, Scotland) using an Ultra Turrax T25 basic homogenizer (IKA Labortechnik; IKA-Werke, Staufen, Germany). Chloroform (400 ?l) was added and homogenized samples were shaken vigorously by hand for 15 seconds. Phase separation was achieved by centrifugation for 15 min at 10,000 × g at 4°C. Total RNA from the aqueous phase was purified using the RNeasy 96 Qiagen vacuum system following the “Clean-up” procedure.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 6 microg total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 microg of cRNA were hybridized for 16 hr at 45C on GeneChip Rat 230 version 2 Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned on GeneChip® Scanner 3000 7G 4C
| | Sample_data_processing = The data were analyzed with RMA. R was used with the affy package. Expresso with the following settings (bgcorrect.method=rma, normalize.method | quantiles.robust, pmcorrect.method=pmonly, summary.method=liwong) was used to normalize
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Jeppe,Skytte,Spicker
| | Sample_contact_email | skytte@cbs.dtu.dk
| | Sample_contact_department | CBS
| | Sample_contact_institute | Danish University of Technology
| | Sample_contact_address | Building 208
| | Sample_contact_city | Lundtofte
| | Sample_contact_zip/postal_code | XXXX
| | Sample_contact_country | Denmark
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM127nnn/GSM127087/suppl/GSM127087.CEL.gz
| | Sample_relation | Reanalyzed by: GSE31289
| | Sample_series_id | GSE5509
| | Sample_data_row_count | 31099
| | |
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