Search results for the GEO ID: GSE8252  |
(Click on the check boxes provided under "Select for analysis", to initiate grouping) |
(Once the selection is made, click on "Add groups" in "Make groups for comparison", to make a group. Scroll down) |
|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM205147 | GPL1355 |
|
SD Rat Control 6 hour rep1
|
control liver, 6 hours
|
Strain: Sprague Dawley, Gender: male, Weight:210-230g, Tissue: liver
|
Control animals at six hours
|
| Sample_geo_accession | GSM205147
| | Sample_status | Public on Jun 23 2007
| | Sample_submission_date | Jun 22 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Rats were orally dosed with TA (100 mg/kg) by gavage in a total volume of 1 mL dissolved in an equal molar amount of sodium bicarbonate. Control animals were orally dosed with 1 mL of sodium bicarbonate. Eight animals were divided into two groups: Group 1 consisted of two animals that received a single dose of TA, and the two control animals received only sodium bicarbonate. Group 1 was sacrificed 6 h after drug/vehicle administration. Group 2 also comprised of two animals, and they were given two doses of TA (given at t=0 and t=16 h) and sacrificed at 24 h. Control rats in group 2 received two oral doses of sodium bicarbonate. Animals were sacrificed by CO2 asphyxiation and liver RNA was stabilized by immediate tissue submersion in RNAlater RNA Stabilization Reagent (Qiagen).
| | Sample_growth_protocol_ch1 | Male Sprague Dawley rats (Charles River, Montreal, QC) weighing 210-230 g were housed in plastic cages (2 per cage) with wooden chip bedding in a 12:12 h light:dark cycle at 22 °C. Rats were given unrestricted access to standard rat chow (Agribrands, Purina Canada, Strathroy, ON) and tap water, and allowed to acclimatize for one week prior to the start of experimentation.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Immediately following RNA stabilization in RNAlater, livers were kept at –20 °C, and at -80 °C for long-term storage. Small samples (10-30 mg) of liver were homogenized using a rotor-stator homogenizer (IKA Ultra-Turrax T25 S1, Janke & Kunkel, Staufen, Germany), and total RNA was extracted as per the manufacturer’s instructions. RNA concentration and purity were determined via UV spectrophotometry, and the quality of RNA was further assessed by capillary electrophoresis using the Agilent Bioanalyzer
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | The microarray facility at the University of Toronto at The Centre for Applied Genomics, Hospital for Sick Children (Toronto, ON) processed the gene chips as per the manufacturer’s instructions.
| | Sample_hyb_protocol | The microarray facility at the University of Toronto at The Centre for Applied Genomics, Hospital for Sick Children (Toronto, ON) processed the gene chips as per the manufacturer’s instructions.
| | Sample_scan_protocol | The microarray facility at the University of Toronto at The Centre for Applied Genomics, Hospital for Sick Children (Toronto, ON) processed the gene chips as per the manufacturer’s instructions.
| | Sample_data_processing | Array data was loaded into R (v2.0.1) using the Affy package (v1.5.8) of the BioConductor open-source project. Data were investigated for spatial and distributional homogeneity, then pre-processed with a sequence-specific version of the RMA algorithm termed GCRMA, as implemented in BioConductor (v1.1.3).
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Paul,C,Boutros
| | Sample_contact_email | Paul.Boutros@utoronto.ca
| | Sample_contact_institute | Ontario Institute for Cancer Research
| | Sample_contact_address | 101 College Street, Suite 800
| | Sample_contact_city | Toronto
| | Sample_contact_state | Ontario
| | Sample_contact_zip/postal_code | M5G 0A3
| | Sample_contact_country | Canada
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM205nnn/GSM205147/suppl/GSM205147.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM205nnn/GSM205147/suppl/GSM205147.CHP.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM205nnn/GSM205147/suppl/GSM205147.DAT.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM205nnn/GSM205147/suppl/GSM205147.EXP.gz
| | Sample_series_id | GSE8252
| | Sample_data_row_count | 31099
| | |
|
GSM205148 | GPL1355 |
|
SD Rat Tienilic 6 hour rep1
|
Tienilic acid treated liver, 6 hours
|
Strain: Sprague Dawley, Gender: male, Weight:210-230g, Tissue: liver
|
Treated animal #1 at six hours
|
| Sample_geo_accession | GSM205148
| | Sample_status | Public on Jun 23 2007
| | Sample_submission_date | Jun 22 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Rats were orally dosed with TA (100 mg/kg) by gavage in a total volume of 1 mL dissolved in an equal molar amount of sodium bicarbonate. Control animals were orally dosed with 1 mL of sodium bicarbonate. Eight animals were divided into two groups: Group 1 consisted of two animals that received a single dose of TA, and the two control animals received only sodium bicarbonate. Group 1 was sacrificed 6 h after drug/vehicle administration. Group 2 also comprised of two animals, and they were given two doses of TA (given at t=0 and t=16 h) and sacrificed at 24 h. Control rats in group 2 received two oral doses of sodium bicarbonate. Animals were sacrificed by CO2 asphyxiation and liver RNA was stabilized by immediate tissue submersion in RNAlater RNA Stabilization Reagent (Qiagen).
| | Sample_growth_protocol_ch1 | Male Sprague Dawley rats (Charles River, Montreal, QC) weighing 210-230 g were housed in plastic cages (2 per cage) with wooden chip bedding in a 12:12 h light:dark cycle at 22 °C. Rats were given unrestricted access to standard rat chow (Agribrands, Purina Canada, Strathroy, ON) and tap water, and allowed to acclimatize for one week prior to the start of experimentation.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Immediately following RNA stabilization in RNAlater, livers were kept at –20 °C, and at -80 °C for long-term storage. Small samples (10-30 mg) of liver were homogenized using a rotor-stator homogenizer (IKA Ultra-Turrax T25 S1, Janke & Kunkel, Staufen, Germany), and total RNA was extracted as per the manufacturer’s instructions. RNA concentration and purity were determined via UV spectrophotometry, and the quality of RNA was further assessed by capillary electrophoresis using the Agilent Bioanalyzer
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | The microarray facility at the University of Toronto at The Centre for Applied Genomics, Hospital for Sick Children (Toronto, ON) processed the gene chips as per the manufacturer’s instructions.
| | Sample_hyb_protocol | The microarray facility at the University of Toronto at The Centre for Applied Genomics, Hospital for Sick Children (Toronto, ON) processed the gene chips as per the manufacturer’s instructions.
| | Sample_scan_protocol | The microarray facility at the University of Toronto at The Centre for Applied Genomics, Hospital for Sick Children (Toronto, ON) processed the gene chips as per the manufacturer’s instructions.
| | Sample_data_processing | Array data was loaded into R (v2.0.1) using the Affy package (v1.5.8) of the BioConductor open-source project. Data were investigated for spatial and distributional homogeneity, then pre-processed with a sequence-specific version of the RMA algorithm termed GCRMA, as implemented in BioConductor (v1.1.3).
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Paul,C,Boutros
| | Sample_contact_email | Paul.Boutros@utoronto.ca
| | Sample_contact_institute | Ontario Institute for Cancer Research
| | Sample_contact_address | 101 College Street, Suite 800
| | Sample_contact_city | Toronto
| | Sample_contact_state | Ontario
| | Sample_contact_zip/postal_code | M5G 0A3
| | Sample_contact_country | Canada
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM205nnn/GSM205148/suppl/GSM205148.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM205nnn/GSM205148/suppl/GSM205148.CHP.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM205nnn/GSM205148/suppl/GSM205148.DAT.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM205nnn/GSM205148/suppl/GSM205148.EXP.gz
| | Sample_series_id | GSE8252
| | Sample_data_row_count | 31099
| | |
|
GSM205149 | GPL1355 |
|
SD Rat Tienilic 6 hour rep2
|
Tienilic acid treated liver, 6 hours
|
Strain: Sprague Dawley, Gender: male, Weight:210-230g, Tissue: liver
|
Treated animal #2 at six hours
|
| Sample_geo_accession | GSM205149
| | Sample_status | Public on Jun 23 2007
| | Sample_submission_date | Jun 22 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Rats were orally dosed with TA (100 mg/kg) by gavage in a total volume of 1 mL dissolved in an equal molar amount of sodium bicarbonate. Control animals were orally dosed with 1 mL of sodium bicarbonate. Eight animals were divided into two groups: Group 1 consisted of two animals that received a single dose of TA, and the two control animals received only sodium bicarbonate. Group 1 was sacrificed 6 h after drug/vehicle administration. Group 2 also comprised of two animals, and they were given two doses of TA (given at t=0 and t=16 h) and sacrificed at 24 h. Control rats in group 2 received two oral doses of sodium bicarbonate. Animals were sacrificed by CO2 asphyxiation and liver RNA was stabilized by immediate tissue submersion in RNAlater RNA Stabilization Reagent (Qiagen).
| | Sample_growth_protocol_ch1 | Male Sprague Dawley rats (Charles River, Montreal, QC) weighing 210-230 g were housed in plastic cages (2 per cage) with wooden chip bedding in a 12:12 h light:dark cycle at 22 °C. Rats were given unrestricted access to standard rat chow (Agribrands, Purina Canada, Strathroy, ON) and tap water, and allowed to acclimatize for one week prior to the start of experimentation.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Immediately following RNA stabilization in RNAlater, livers were kept at –20 °C, and at -80 °C for long-term storage. Small samples (10-30 mg) of liver were homogenized using a rotor-stator homogenizer (IKA Ultra-Turrax T25 S1, Janke & Kunkel, Staufen, Germany), and total RNA was extracted as per the manufacturer’s instructions. RNA concentration and purity were determined via UV spectrophotometry, and the quality of RNA was further assessed by capillary electrophoresis using the Agilent Bioanalyzer
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | The microarray facility at the University of Toronto at The Centre for Applied Genomics, Hospital for Sick Children (Toronto, ON) processed the gene chips as per the manufacturer’s instructions.
| | Sample_hyb_protocol | The microarray facility at the University of Toronto at The Centre for Applied Genomics, Hospital for Sick Children (Toronto, ON) processed the gene chips as per the manufacturer’s instructions.
| | Sample_scan_protocol | The microarray facility at the University of Toronto at The Centre for Applied Genomics, Hospital for Sick Children (Toronto, ON) processed the gene chips as per the manufacturer’s instructions.
| | Sample_data_processing | Array data was loaded into R (v2.0.1) using the Affy package (v1.5.8) of the BioConductor open-source project. Data were investigated for spatial and distributional homogeneity, then pre-processed with a sequence-specific version of the RMA algorithm termed GCRMA, as implemented in BioConductor (v1.1.3).
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Paul,C,Boutros
| | Sample_contact_email | Paul.Boutros@utoronto.ca
| | Sample_contact_institute | Ontario Institute for Cancer Research
| | Sample_contact_address | 101 College Street, Suite 800
| | Sample_contact_city | Toronto
| | Sample_contact_state | Ontario
| | Sample_contact_zip/postal_code | M5G 0A3
| | Sample_contact_country | Canada
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM205nnn/GSM205149/suppl/GSM205149.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM205nnn/GSM205149/suppl/GSM205149.CHP.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM205nnn/GSM205149/suppl/GSM205149.DAT.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM205nnn/GSM205149/suppl/GSM205149.EXP.gz
| | Sample_series_id | GSE8252
| | Sample_data_row_count | 31099
| | |
|
GSM205150 | GPL1355 |
|
SD Rat Control 24 hour rep1
|
control liver, 24 hours
|
Strain: Sprague Dawley, Gender: male, Weight:210-230g, Tissue: liver
|
Control animals at 24 hours
|
| Sample_geo_accession | GSM205150
| | Sample_status | Public on Jun 23 2007
| | Sample_submission_date | Jun 22 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Rats were orally dosed with TA (100 mg/kg) by gavage in a total volume of 1 mL dissolved in an equal molar amount of sodium bicarbonate. Control animals were orally dosed with 1 mL of sodium bicarbonate. Eight animals were divided into two groups: Group 1 consisted of two animals that received a single dose of TA, and the two control animals received only sodium bicarbonate. Group 1 was sacrificed 6 h after drug/vehicle administration. Group 2 also comprised of two animals, and they were given two doses of TA (given at t=0 and t=16 h) and sacrificed at 24 h. Control rats in group 2 received two oral doses of sodium bicarbonate. Animals were sacrificed by CO2 asphyxiation and liver RNA was stabilized by immediate tissue submersion in RNAlater RNA Stabilization Reagent (Qiagen).
| | Sample_growth_protocol_ch1 | Male Sprague Dawley rats (Charles River, Montreal, QC) weighing 210-230 g were housed in plastic cages (2 per cage) with wooden chip bedding in a 12:12 h light:dark cycle at 22 °C. Rats were given unrestricted access to standard rat chow (Agribrands, Purina Canada, Strathroy, ON) and tap water, and allowed to acclimatize for one week prior to the start of experimentation.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Immediately following RNA stabilization in RNAlater, livers were kept at –20 °C, and at -80 °C for long-term storage. Small samples (10-30 mg) of liver were homogenized using a rotor-stator homogenizer (IKA Ultra-Turrax T25 S1, Janke & Kunkel, Staufen, Germany), and total RNA was extracted as per the manufacturer’s instructions. RNA concentration and purity were determined via UV spectrophotometry, and the quality of RNA was further assessed by capillary electrophoresis using the Agilent Bioanalyzer
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | The microarray facility at the University of Toronto at The Centre for Applied Genomics, Hospital for Sick Children (Toronto, ON) processed the gene chips as per the manufacturer’s instructions.
| | Sample_hyb_protocol | The microarray facility at the University of Toronto at The Centre for Applied Genomics, Hospital for Sick Children (Toronto, ON) processed the gene chips as per the manufacturer’s instructions.
| | Sample_scan_protocol | The microarray facility at the University of Toronto at The Centre for Applied Genomics, Hospital for Sick Children (Toronto, ON) processed the gene chips as per the manufacturer’s instructions.
| | Sample_data_processing | Array data was loaded into R (v2.0.1) using the Affy package (v1.5.8) of the BioConductor open-source project. Data were investigated for spatial and distributional homogeneity, then pre-processed with a sequence-specific version of the RMA algorithm termed GCRMA, as implemented in BioConductor (v1.1.3).
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Paul,C,Boutros
| | Sample_contact_email | Paul.Boutros@utoronto.ca
| | Sample_contact_institute | Ontario Institute for Cancer Research
| | Sample_contact_address | 101 College Street, Suite 800
| | Sample_contact_city | Toronto
| | Sample_contact_state | Ontario
| | Sample_contact_zip/postal_code | M5G 0A3
| | Sample_contact_country | Canada
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM205nnn/GSM205150/suppl/GSM205150.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM205nnn/GSM205150/suppl/GSM205150.CHP.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM205nnn/GSM205150/suppl/GSM205150.DAT.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM205nnn/GSM205150/suppl/GSM205150.EXP.gz
| | Sample_series_id | GSE8252
| | Sample_data_row_count | 31099
| | |
|
GSM205151 | GPL1355 |
|
SD Rat Tienilic 24 hour rep1
|
Tienilic acid treated liver, 24 hours
|
Strain: Sprague Dawley, Gender: male, Weight:210-230g, Tissue: liver
|
Treated animal #1 at 24 hours
|
| Sample_geo_accession | GSM205151
| | Sample_status | Public on Jun 23 2007
| | Sample_submission_date | Jun 22 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Rats were orally dosed with TA (100 mg/kg) by gavage in a total volume of 1 mL dissolved in an equal molar amount of sodium bicarbonate. Control animals were orally dosed with 1 mL of sodium bicarbonate. Eight animals were divided into two groups: Group 1 consisted of two animals that received a single dose of TA, and the two control animals received only sodium bicarbonate. Group 1 was sacrificed 6 h after drug/vehicle administration. Group 2 also comprised of two animals, and they were given two doses of TA (given at t=0 and t=16 h) and sacrificed at 24 h. Control rats in group 2 received two oral doses of sodium bicarbonate. Animals were sacrificed by CO2 asphyxiation and liver RNA was stabilized by immediate tissue submersion in RNAlater RNA Stabilization Reagent (Qiagen).
| | Sample_growth_protocol_ch1 | Male Sprague Dawley rats (Charles River, Montreal, QC) weighing 210-230 g were housed in plastic cages (2 per cage) with wooden chip bedding in a 12:12 h light:dark cycle at 22 °C. Rats were given unrestricted access to standard rat chow (Agribrands, Purina Canada, Strathroy, ON) and tap water, and allowed to acclimatize for one week prior to the start of experimentation.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Immediately following RNA stabilization in RNAlater, livers were kept at –20 °C, and at -80 °C for long-term storage. Small samples (10-30 mg) of liver were homogenized using a rotor-stator homogenizer (IKA Ultra-Turrax T25 S1, Janke & Kunkel, Staufen, Germany), and total RNA was extracted as per the manufacturer’s instructions. RNA concentration and purity were determined via UV spectrophotometry, and the quality of RNA was further assessed by capillary electrophoresis using the Agilent Bioanalyzer
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | The microarray facility at the University of Toronto at The Centre for Applied Genomics, Hospital for Sick Children (Toronto, ON) processed the gene chips as per the manufacturer’s instructions.
| | Sample_hyb_protocol | The microarray facility at the University of Toronto at The Centre for Applied Genomics, Hospital for Sick Children (Toronto, ON) processed the gene chips as per the manufacturer’s instructions.
| | Sample_scan_protocol | The microarray facility at the University of Toronto at The Centre for Applied Genomics, Hospital for Sick Children (Toronto, ON) processed the gene chips as per the manufacturer’s instructions.
| | Sample_data_processing | Array data was loaded into R (v2.0.1) using the Affy package (v1.5.8) of the BioConductor open-source project. Data were investigated for spatial and distributional homogeneity, then pre-processed with a sequence-specific version of the RMA algorithm termed GCRMA, as implemented in BioConductor (v1.1.3).
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Paul,C,Boutros
| | Sample_contact_email | Paul.Boutros@utoronto.ca
| | Sample_contact_institute | Ontario Institute for Cancer Research
| | Sample_contact_address | 101 College Street, Suite 800
| | Sample_contact_city | Toronto
| | Sample_contact_state | Ontario
| | Sample_contact_zip/postal_code | M5G 0A3
| | Sample_contact_country | Canada
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM205nnn/GSM205151/suppl/GSM205151.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM205nnn/GSM205151/suppl/GSM205151.CHP.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM205nnn/GSM205151/suppl/GSM205151.DAT.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM205nnn/GSM205151/suppl/GSM205151.EXP.gz
| | Sample_series_id | GSE8252
| | Sample_data_row_count | 31099
| | |
|
GSM205152 | GPL1355 |
|
SD Rat Tienilic 24 hour rep2
|
Tienilic acid treated liver, 24 hours
|
Strain: Sprague Dawley, Gender: male, Weight:210-230g, Tissue: liver
|
Treated animal #2 at 24 hours
|
| Sample_geo_accession | GSM205152
| | Sample_status | Public on Jun 23 2007
| | Sample_submission_date | Jun 22 2007
| | Sample_last_update_date | Aug 14 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Rats were orally dosed with TA (100 mg/kg) by gavage in a total volume of 1 mL dissolved in an equal molar amount of sodium bicarbonate. Control animals were orally dosed with 1 mL of sodium bicarbonate. Eight animals were divided into two groups: Group 1 consisted of two animals that received a single dose of TA, and the two control animals received only sodium bicarbonate. Group 1 was sacrificed 6 h after drug/vehicle administration. Group 2 also comprised of two animals, and they were given two doses of TA (given at t=0 and t=16 h) and sacrificed at 24 h. Control rats in group 2 received two oral doses of sodium bicarbonate. Animals were sacrificed by CO2 asphyxiation and liver RNA was stabilized by immediate tissue submersion in RNAlater RNA Stabilization Reagent (Qiagen).
| | Sample_growth_protocol_ch1 | Male Sprague Dawley rats (Charles River, Montreal, QC) weighing 210-230 g were housed in plastic cages (2 per cage) with wooden chip bedding in a 12:12 h light:dark cycle at 22 °C. Rats were given unrestricted access to standard rat chow (Agribrands, Purina Canada, Strathroy, ON) and tap water, and allowed to acclimatize for one week prior to the start of experimentation.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Immediately following RNA stabilization in RNAlater, livers were kept at –20 °C, and at -80 °C for long-term storage. Small samples (10-30 mg) of liver were homogenized using a rotor-stator homogenizer (IKA Ultra-Turrax T25 S1, Janke & Kunkel, Staufen, Germany), and total RNA was extracted as per the manufacturer’s instructions. RNA concentration and purity were determined via UV spectrophotometry, and the quality of RNA was further assessed by capillary electrophoresis using the Agilent Bioanalyzer
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | The microarray facility at the University of Toronto at The Centre for Applied Genomics, Hospital for Sick Children (Toronto, ON) processed the gene chips as per the manufacturer’s instructions.
| | Sample_hyb_protocol | The microarray facility at the University of Toronto at The Centre for Applied Genomics, Hospital for Sick Children (Toronto, ON) processed the gene chips as per the manufacturer’s instructions.
| | Sample_scan_protocol | The microarray facility at the University of Toronto at The Centre for Applied Genomics, Hospital for Sick Children (Toronto, ON) processed the gene chips as per the manufacturer’s instructions.
| | Sample_data_processing | Array data was loaded into R (v2.0.1) using the Affy package (v1.5.8) of the BioConductor open-source project. Data were investigated for spatial and distributional homogeneity, then pre-processed with a sequence-specific version of the RMA algorithm termed GCRMA, as implemented in BioConductor (v1.1.3).
| | Sample_platform_id | GPL1355
| | Sample_contact_name | Paul,C,Boutros
| | Sample_contact_email | Paul.Boutros@utoronto.ca
| | Sample_contact_institute | Ontario Institute for Cancer Research
| | Sample_contact_address | 101 College Street, Suite 800
| | Sample_contact_city | Toronto
| | Sample_contact_state | Ontario
| | Sample_contact_zip/postal_code | M5G 0A3
| | Sample_contact_country | Canada
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM205nnn/GSM205152/suppl/GSM205152.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM205nnn/GSM205152/suppl/GSM205152.CHP.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM205nnn/GSM205152/suppl/GSM205152.DAT.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM205nnn/GSM205152/suppl/GSM205152.EXP.gz
| | Sample_series_id | GSE8252
| | Sample_data_row_count | 31099
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