Search results for the GEO ID: GSE24187  |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM595029 | GPL570 |
|
Atorvastatin 24h donor 089 [Affy]
|
Cells treated with atorvastatin for 24h
|
tissue: Liver
cell type: hepatocyte
agent: Atorvastatin
time: 24h
donor: d089
|
Gene expression data from human liver cells treated with atorvastatin for 24h, donor 089.
|
| Sample_geo_accession | GSM595029
| | Sample_status | Public on Sep 05 2011
| | Sample_submission_date | Sep 17 2010
| | Sample_last_update_date | Sep 05 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | After overnight culture, the medium was replaced by serum-free medium. Forty-eight hours after serum deprivation, cells were cultured in the presence or absence of inducers for 12, 24 or 48 hours. Hepatocytes were treated with rifampicin (5 µM), atorvastatin (10 µM) or rosuvastatin (10 µM).
| | Sample_growth_protocol_ch1 | Human livers from donors 089, 114, 129, 269, 270 and 271 were obtained from kidney transplant donors or from lobectomy segments resected from adult patients. Liver cells were isolated by the method of Bayliss and Skett (1996). Hepatocytes having viability better than 90% as determined by trypan blue exclusion, were used in the experiments. The cells were plated at a density of 1.7x105 cells/cm2 in plastic dishes precoated with collagen in medium described by Ferrini et al. (1998).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated from human hepatocytes using TRIzol reagent (Invitrogen, Carlsbad, CA) according to the manufacturer’s instructions. The RNA was precipitated using ethanol.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 1 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 20 ug of cRNA were hybridized for 16 hr at 45C on GHuman Genome U133 Plus 2.0 GeneChip Array (Affymetrix). GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix Scanner GCS 3000 7G .
| | Sample_data_processing | Data were normalized using GCRMA algorithm from R/Bioconductor package.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Peter,,Juvan
| | Sample_contact_phone | +386 1 543 7595
| | Sample_contact_laboratory | Center for Functional Genomics and Bio-Chips
| | Sample_contact_department | Institute of Biochemistry
| | Sample_contact_institute | Faculty of Medicine, University of Ljubljana
| | Sample_contact_address | Zaloska 4
| | Sample_contact_city | Ljubljana
| | Sample_contact_zip/postal_code | SI-1000
| | Sample_contact_country | Slovenia
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM595nnn/GSM595029/suppl/GSM595029.CEL.gz
| | Sample_series_id | GSE24187
| | Sample_series_id | GSE24188
| | Sample_data_row_count | 54675
| | |
|
GSM595030 | GPL570 |
|
Atorvastatin 24h donor 114 [Affy]
|
Cells treated with atorvastatin for 24h
|
tissue: Liver
cell type: hepatocyte
agent: Atorvastatin
time: 24h
donor: d114
|
Gene expression data from human liver cells treated with atorvastatin for 24h, donor 114.
|
| Sample_geo_accession | GSM595030
| | Sample_status | Public on Sep 05 2011
| | Sample_submission_date | Sep 17 2010
| | Sample_last_update_date | Sep 05 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | After overnight culture, the medium was replaced by serum-free medium. Forty-eight hours after serum deprivation, cells were cultured in the presence or absence of inducers for 12, 24 or 48 hours. Hepatocytes were treated with rifampicin (5 µM), atorvastatin (10 µM) or rosuvastatin (10 µM).
| | Sample_growth_protocol_ch1 | Human livers from donors 089, 114, 129, 269, 270 and 271 were obtained from kidney transplant donors or from lobectomy segments resected from adult patients. Liver cells were isolated by the method of Bayliss and Skett (1996). Hepatocytes having viability better than 90% as determined by trypan blue exclusion, were used in the experiments. The cells were plated at a density of 1.7x105 cells/cm2 in plastic dishes precoated with collagen in medium described by Ferrini et al. (1998).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated from human hepatocytes using TRIzol reagent (Invitrogen, Carlsbad, CA) according to the manufacturer’s instructions. The RNA was precipitated using ethanol.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 1 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 20 ug of cRNA were hybridized for 16 hr at 45C on GHuman Genome U133 Plus 2.0 GeneChip Array (Affymetrix). GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix Scanner GCS 3000 7G .
| | Sample_data_processing | Data were normalized using GCRMA algorithm from R/Bioconductor package.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Peter,,Juvan
| | Sample_contact_phone | +386 1 543 7595
| | Sample_contact_laboratory | Center for Functional Genomics and Bio-Chips
| | Sample_contact_department | Institute of Biochemistry
| | Sample_contact_institute | Faculty of Medicine, University of Ljubljana
| | Sample_contact_address | Zaloska 4
| | Sample_contact_city | Ljubljana
| | Sample_contact_zip/postal_code | SI-1000
| | Sample_contact_country | Slovenia
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM595nnn/GSM595030/suppl/GSM595030.CEL.gz
| | Sample_series_id | GSE24187
| | Sample_series_id | GSE24188
| | Sample_data_row_count | 54675
| | |
|
GSM595031 | GPL570 |
|
Atorvastatin 24h donor 129 [Affy]
|
Cells treated with atorvastatin for 24h
|
tissue: Liver
cell type: hepatocyte
agent: Atorvastatin
time: 24h
donor: d129
|
Gene expression data from human liver cells treated with atorvastatin for 24h, donor 129.
|
| Sample_geo_accession | GSM595031
| | Sample_status | Public on Sep 05 2011
| | Sample_submission_date | Sep 17 2010
| | Sample_last_update_date | Sep 05 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | After overnight culture, the medium was replaced by serum-free medium. Forty-eight hours after serum deprivation, cells were cultured in the presence or absence of inducers for 12, 24 or 48 hours. Hepatocytes were treated with rifampicin (5 µM), atorvastatin (10 µM) or rosuvastatin (10 µM).
| | Sample_growth_protocol_ch1 | Human livers from donors 089, 114, 129, 269, 270 and 271 were obtained from kidney transplant donors or from lobectomy segments resected from adult patients. Liver cells were isolated by the method of Bayliss and Skett (1996). Hepatocytes having viability better than 90% as determined by trypan blue exclusion, were used in the experiments. The cells were plated at a density of 1.7x105 cells/cm2 in plastic dishes precoated with collagen in medium described by Ferrini et al. (1998).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated from human hepatocytes using TRIzol reagent (Invitrogen, Carlsbad, CA) according to the manufacturer’s instructions. The RNA was precipitated using ethanol.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 1 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 20 ug of cRNA were hybridized for 16 hr at 45C on GHuman Genome U133 Plus 2.0 GeneChip Array (Affymetrix). GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix Scanner GCS 3000 7G .
| | Sample_data_processing | Data were normalized using GCRMA algorithm from R/Bioconductor package.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Peter,,Juvan
| | Sample_contact_phone | +386 1 543 7595
| | Sample_contact_laboratory | Center for Functional Genomics and Bio-Chips
| | Sample_contact_department | Institute of Biochemistry
| | Sample_contact_institute | Faculty of Medicine, University of Ljubljana
| | Sample_contact_address | Zaloska 4
| | Sample_contact_city | Ljubljana
| | Sample_contact_zip/postal_code | SI-1000
| | Sample_contact_country | Slovenia
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM595nnn/GSM595031/suppl/GSM595031.CEL.gz
| | Sample_series_id | GSE24187
| | Sample_series_id | GSE24188
| | Sample_data_row_count | 54675
| | |
|
GSM595032 | GPL570 |
|
Atorvastatin 24h donor 269 [Affy]
|
Cells treated with atorvastatin for 24h
|
tissue: Liver
cell type: hepatocyte
agent: Atorvastatin
time: 24h
donor: d269
|
Gene expression data from human liver cells treated with atorvastatin for 24h, donor 269.
|
| Sample_geo_accession | GSM595032
| | Sample_status | Public on Sep 05 2011
| | Sample_submission_date | Sep 17 2010
| | Sample_last_update_date | Sep 05 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | After overnight culture, the medium was replaced by serum-free medium. Forty-eight hours after serum deprivation, cells were cultured in the presence or absence of inducers for 12, 24 or 48 hours. Hepatocytes were treated with rifampicin (5 µM), atorvastatin (10 µM) or rosuvastatin (10 µM).
| | Sample_growth_protocol_ch1 | Human livers from donors 089, 114, 129, 269, 270 and 271 were obtained from kidney transplant donors or from lobectomy segments resected from adult patients. Liver cells were isolated by the method of Bayliss and Skett (1996). Hepatocytes having viability better than 90% as determined by trypan blue exclusion, were used in the experiments. The cells were plated at a density of 1.7x105 cells/cm2 in plastic dishes precoated with collagen in medium described by Ferrini et al. (1998).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated from human hepatocytes using TRIzol reagent (Invitrogen, Carlsbad, CA) according to the manufacturer’s instructions. The RNA was precipitated using ethanol.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 1 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 20 ug of cRNA were hybridized for 16 hr at 45C on GHuman Genome U133 Plus 2.0 GeneChip Array (Affymetrix). GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix Scanner GCS 3000 7G .
| | Sample_data_processing | Data were normalized using GCRMA algorithm from R/Bioconductor package.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Peter,,Juvan
| | Sample_contact_phone | +386 1 543 7595
| | Sample_contact_laboratory | Center for Functional Genomics and Bio-Chips
| | Sample_contact_department | Institute of Biochemistry
| | Sample_contact_institute | Faculty of Medicine, University of Ljubljana
| | Sample_contact_address | Zaloska 4
| | Sample_contact_city | Ljubljana
| | Sample_contact_zip/postal_code | SI-1000
| | Sample_contact_country | Slovenia
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM595nnn/GSM595032/suppl/GSM595032.CEL.gz
| | Sample_series_id | GSE24187
| | Sample_series_id | GSE24188
| | Sample_data_row_count | 54675
| | |
|
GSM595033 | GPL570 |
|
Atorvastatin 24h donor 270 [Affy]
|
Cells treated with atorvastatin for 24h
|
tissue: Liver
cell type: hepatocyte
agent: Atorvastatin
time: 24h
donor: d270
|
Gene expression data from human liver cells treated with atorvastatin for 24h, donor 270.
|
| Sample_geo_accession | GSM595033
| | Sample_status | Public on Sep 05 2011
| | Sample_submission_date | Sep 17 2010
| | Sample_last_update_date | Sep 05 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | After overnight culture, the medium was replaced by serum-free medium. Forty-eight hours after serum deprivation, cells were cultured in the presence or absence of inducers for 12, 24 or 48 hours. Hepatocytes were treated with rifampicin (5 µM), atorvastatin (10 µM) or rosuvastatin (10 µM).
| | Sample_growth_protocol_ch1 | Human livers from donors 089, 114, 129, 269, 270 and 271 were obtained from kidney transplant donors or from lobectomy segments resected from adult patients. Liver cells were isolated by the method of Bayliss and Skett (1996). Hepatocytes having viability better than 90% as determined by trypan blue exclusion, were used in the experiments. The cells were plated at a density of 1.7x105 cells/cm2 in plastic dishes precoated with collagen in medium described by Ferrini et al. (1998).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated from human hepatocytes using TRIzol reagent (Invitrogen, Carlsbad, CA) according to the manufacturer’s instructions. The RNA was precipitated using ethanol.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 1 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 20 ug of cRNA were hybridized for 16 hr at 45C on GHuman Genome U133 Plus 2.0 GeneChip Array (Affymetrix). GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix Scanner GCS 3000 7G .
| | Sample_data_processing | Data were normalized using GCRMA algorithm from R/Bioconductor package.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Peter,,Juvan
| | Sample_contact_phone | +386 1 543 7595
| | Sample_contact_laboratory | Center for Functional Genomics and Bio-Chips
| | Sample_contact_department | Institute of Biochemistry
| | Sample_contact_institute | Faculty of Medicine, University of Ljubljana
| | Sample_contact_address | Zaloska 4
| | Sample_contact_city | Ljubljana
| | Sample_contact_zip/postal_code | SI-1000
| | Sample_contact_country | Slovenia
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM595nnn/GSM595033/suppl/GSM595033.CEL.gz
| | Sample_series_id | GSE24187
| | Sample_series_id | GSE24188
| | Sample_data_row_count | 54675
| | |
|
GSM595034 | GPL570 |
|
Atorvastatin 24h donor 271 [Affy]
|
Cells treated with atorvastatin for 24h
|
tissue: Liver
cell type: hepatocyte
agent: Atorvastatin
time: 24h
donor: d271
|
Gene expression data from human liver cells treated with atorvastatin for 24h, donor 271.
|
| Sample_geo_accession | GSM595034
| | Sample_status | Public on Sep 05 2011
| | Sample_submission_date | Sep 17 2010
| | Sample_last_update_date | Sep 05 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | After overnight culture, the medium was replaced by serum-free medium. Forty-eight hours after serum deprivation, cells were cultured in the presence or absence of inducers for 12, 24 or 48 hours. Hepatocytes were treated with rifampicin (5 µM), atorvastatin (10 µM) or rosuvastatin (10 µM).
| | Sample_growth_protocol_ch1 | Human livers from donors 089, 114, 129, 269, 270 and 271 were obtained from kidney transplant donors or from lobectomy segments resected from adult patients. Liver cells were isolated by the method of Bayliss and Skett (1996). Hepatocytes having viability better than 90% as determined by trypan blue exclusion, were used in the experiments. The cells were plated at a density of 1.7x105 cells/cm2 in plastic dishes precoated with collagen in medium described by Ferrini et al. (1998).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated from human hepatocytes using TRIzol reagent (Invitrogen, Carlsbad, CA) according to the manufacturer’s instructions. The RNA was precipitated using ethanol.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 1 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 20 ug of cRNA were hybridized for 16 hr at 45C on GHuman Genome U133 Plus 2.0 GeneChip Array (Affymetrix). GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix Scanner GCS 3000 7G .
| | Sample_data_processing | Data were normalized using GCRMA algorithm from R/Bioconductor package.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Peter,,Juvan
| | Sample_contact_phone | +386 1 543 7595
| | Sample_contact_laboratory | Center for Functional Genomics and Bio-Chips
| | Sample_contact_department | Institute of Biochemistry
| | Sample_contact_institute | Faculty of Medicine, University of Ljubljana
| | Sample_contact_address | Zaloska 4
| | Sample_contact_city | Ljubljana
| | Sample_contact_zip/postal_code | SI-1000
| | Sample_contact_country | Slovenia
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM595nnn/GSM595034/suppl/GSM595034.CEL.gz
| | Sample_series_id | GSE24187
| | Sample_series_id | GSE24188
| | Sample_data_row_count | 54675
| | |
|
GSM595035 | GPL570 |
|
Atorvastatin 48h donor 089 [Affy]
|
Cells treated with atorvastatin for 48h
|
tissue: Liver
cell type: hepatocyte
agent: Atorvastatin
time: 48h
donor: d089
|
Gene expression data from human liver cells treated with atorvastatin for 48h, donor 089.
|
| Sample_geo_accession | GSM595035
| | Sample_status | Public on Sep 05 2011
| | Sample_submission_date | Sep 17 2010
| | Sample_last_update_date | Sep 05 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | After overnight culture, the medium was replaced by serum-free medium. Forty-eight hours after serum deprivation, cells were cultured in the presence or absence of inducers for 12, 24 or 48 hours. Hepatocytes were treated with rifampicin (5 µM), atorvastatin (10 µM) or rosuvastatin (10 µM).
| | Sample_growth_protocol_ch1 | Human livers from donors 089, 114, 129, 269, 270 and 271 were obtained from kidney transplant donors or from lobectomy segments resected from adult patients. Liver cells were isolated by the method of Bayliss and Skett (1996). Hepatocytes having viability better than 90% as determined by trypan blue exclusion, were used in the experiments. The cells were plated at a density of 1.7x105 cells/cm2 in plastic dishes precoated with collagen in medium described by Ferrini et al. (1998).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated from human hepatocytes using TRIzol reagent (Invitrogen, Carlsbad, CA) according to the manufacturer’s instructions. The RNA was precipitated using ethanol.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 1 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 20 ug of cRNA were hybridized for 16 hr at 45C on GHuman Genome U133 Plus 2.0 GeneChip Array (Affymetrix). GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix Scanner GCS 3000 7G .
| | Sample_data_processing | Data were normalized using GCRMA algorithm from R/Bioconductor package.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Peter,,Juvan
| | Sample_contact_phone | +386 1 543 7595
| | Sample_contact_laboratory | Center for Functional Genomics and Bio-Chips
| | Sample_contact_department | Institute of Biochemistry
| | Sample_contact_institute | Faculty of Medicine, University of Ljubljana
| | Sample_contact_address | Zaloska 4
| | Sample_contact_city | Ljubljana
| | Sample_contact_zip/postal_code | SI-1000
| | Sample_contact_country | Slovenia
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM595nnn/GSM595035/suppl/GSM595035.CEL.gz
| | Sample_series_id | GSE24187
| | Sample_series_id | GSE24188
| | Sample_data_row_count | 54675
| | |
|
GSM595036 | GPL570 |
|
Atorvastatin 48h donor 114 [Affy]
|
Cells treated with atorvastatin for 48h
|
tissue: Liver
cell type: hepatocyte
agent: Atorvastatin
time: 48h
donor: d114
|
Gene expression data from human liver cells treated with atorvastatin for 48h, donor 114.
|
| Sample_geo_accession | GSM595036
| | Sample_status | Public on Sep 05 2011
| | Sample_submission_date | Sep 17 2010
| | Sample_last_update_date | Sep 05 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | After overnight culture, the medium was replaced by serum-free medium. Forty-eight hours after serum deprivation, cells were cultured in the presence or absence of inducers for 12, 24 or 48 hours. Hepatocytes were treated with rifampicin (5 µM), atorvastatin (10 µM) or rosuvastatin (10 µM).
| | Sample_growth_protocol_ch1 | Human livers from donors 089, 114, 129, 269, 270 and 271 were obtained from kidney transplant donors or from lobectomy segments resected from adult patients. Liver cells were isolated by the method of Bayliss and Skett (1996). Hepatocytes having viability better than 90% as determined by trypan blue exclusion, were used in the experiments. The cells were plated at a density of 1.7x105 cells/cm2 in plastic dishes precoated with collagen in medium described by Ferrini et al. (1998).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated from human hepatocytes using TRIzol reagent (Invitrogen, Carlsbad, CA) according to the manufacturer’s instructions. The RNA was precipitated using ethanol.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 1 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 20 ug of cRNA were hybridized for 16 hr at 45C on GHuman Genome U133 Plus 2.0 GeneChip Array (Affymetrix). GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix Scanner GCS 3000 7G .
| | Sample_data_processing | Data were normalized using GCRMA algorithm from R/Bioconductor package.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Peter,,Juvan
| | Sample_contact_phone | +386 1 543 7595
| | Sample_contact_laboratory | Center for Functional Genomics and Bio-Chips
| | Sample_contact_department | Institute of Biochemistry
| | Sample_contact_institute | Faculty of Medicine, University of Ljubljana
| | Sample_contact_address | Zaloska 4
| | Sample_contact_city | Ljubljana
| | Sample_contact_zip/postal_code | SI-1000
| | Sample_contact_country | Slovenia
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM595nnn/GSM595036/suppl/GSM595036.CEL.gz
| | Sample_series_id | GSE24187
| | Sample_series_id | GSE24188
| | Sample_data_row_count | 54675
| | |
|
GSM595037 | GPL570 |
|
Atorvastatin 48h donor 129 [Affy]
|
Cells treated with atorvastatin for 48h
|
tissue: Liver
cell type: hepatocyte
agent: Atorvastatin
time: 48h
donor: d129
|
Gene expression data from human liver cells treated with atorvastatin for 48h, donor 129.
|
| Sample_geo_accession | GSM595037
| | Sample_status | Public on Sep 05 2011
| | Sample_submission_date | Sep 17 2010
| | Sample_last_update_date | Sep 05 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | After overnight culture, the medium was replaced by serum-free medium. Forty-eight hours after serum deprivation, cells were cultured in the presence or absence of inducers for 12, 24 or 48 hours. Hepatocytes were treated with rifampicin (5 µM), atorvastatin (10 µM) or rosuvastatin (10 µM).
| | Sample_growth_protocol_ch1 | Human livers from donors 089, 114, 129, 269, 270 and 271 were obtained from kidney transplant donors or from lobectomy segments resected from adult patients. Liver cells were isolated by the method of Bayliss and Skett (1996). Hepatocytes having viability better than 90% as determined by trypan blue exclusion, were used in the experiments. The cells were plated at a density of 1.7x105 cells/cm2 in plastic dishes precoated with collagen in medium described by Ferrini et al. (1998).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated from human hepatocytes using TRIzol reagent (Invitrogen, Carlsbad, CA) according to the manufacturer’s instructions. The RNA was precipitated using ethanol.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 1 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 20 ug of cRNA were hybridized for 16 hr at 45C on GHuman Genome U133 Plus 2.0 GeneChip Array (Affymetrix). GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix Scanner GCS 3000 7G .
| | Sample_data_processing | Data were normalized using GCRMA algorithm from R/Bioconductor package.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Peter,,Juvan
| | Sample_contact_phone | +386 1 543 7595
| | Sample_contact_laboratory | Center for Functional Genomics and Bio-Chips
| | Sample_contact_department | Institute of Biochemistry
| | Sample_contact_institute | Faculty of Medicine, University of Ljubljana
| | Sample_contact_address | Zaloska 4
| | Sample_contact_city | Ljubljana
| | Sample_contact_zip/postal_code | SI-1000
| | Sample_contact_country | Slovenia
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM595nnn/GSM595037/suppl/GSM595037.CEL.gz
| | Sample_series_id | GSE24187
| | Sample_series_id | GSE24188
| | Sample_data_row_count | 54675
| | |
|
GSM595038 | GPL570 |
|
Atorvastatin 48h donor 269 [Affy]
|
Cells treated with atorvastatin for 48h
|
tissue: Liver
cell type: hepatocyte
agent: Atorvastatin
time: 48h
donor: d269
|
Gene expression data from human liver cells treated with atorvastatin for 48h, donor 269.
|
| Sample_geo_accession | GSM595038
| | Sample_status | Public on Sep 05 2011
| | Sample_submission_date | Sep 17 2010
| | Sample_last_update_date | Sep 05 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | After overnight culture, the medium was replaced by serum-free medium. Forty-eight hours after serum deprivation, cells were cultured in the presence or absence of inducers for 12, 24 or 48 hours. Hepatocytes were treated with rifampicin (5 µM), atorvastatin (10 µM) or rosuvastatin (10 µM).
| | Sample_growth_protocol_ch1 | Human livers from donors 089, 114, 129, 269, 270 and 271 were obtained from kidney transplant donors or from lobectomy segments resected from adult patients. Liver cells were isolated by the method of Bayliss and Skett (1996). Hepatocytes having viability better than 90% as determined by trypan blue exclusion, were used in the experiments. The cells were plated at a density of 1.7x105 cells/cm2 in plastic dishes precoated with collagen in medium described by Ferrini et al. (1998).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated from human hepatocytes using TRIzol reagent (Invitrogen, Carlsbad, CA) according to the manufacturer’s instructions. The RNA was precipitated using ethanol.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 1 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 20 ug of cRNA were hybridized for 16 hr at 45C on GHuman Genome U133 Plus 2.0 GeneChip Array (Affymetrix). GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix Scanner GCS 3000 7G .
| | Sample_data_processing | Data were normalized using GCRMA algorithm from R/Bioconductor package.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Peter,,Juvan
| | Sample_contact_phone | +386 1 543 7595
| | Sample_contact_laboratory | Center for Functional Genomics and Bio-Chips
| | Sample_contact_department | Institute of Biochemistry
| | Sample_contact_institute | Faculty of Medicine, University of Ljubljana
| | Sample_contact_address | Zaloska 4
| | Sample_contact_city | Ljubljana
| | Sample_contact_zip/postal_code | SI-1000
| | Sample_contact_country | Slovenia
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM595nnn/GSM595038/suppl/GSM595038.CEL.gz
| | Sample_series_id | GSE24187
| | Sample_series_id | GSE24188
| | Sample_data_row_count | 54675
| | |
|
GSM595039 | GPL570 |
|
Atorvastatin 48h donor 270 [Affy]
|
Cells treated with atorvastatin for 48h
|
tissue: Liver
cell type: hepatocyte
agent: Atorvastatin
time: 48h
donor: d270
|
Gene expression data from human liver cells treated with atorvastatin for 48h, donor 270.
|
| Sample_geo_accession | GSM595039
| | Sample_status | Public on Sep 05 2011
| | Sample_submission_date | Sep 17 2010
| | Sample_last_update_date | Sep 05 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | After overnight culture, the medium was replaced by serum-free medium. Forty-eight hours after serum deprivation, cells were cultured in the presence or absence of inducers for 12, 24 or 48 hours. Hepatocytes were treated with rifampicin (5 µM), atorvastatin (10 µM) or rosuvastatin (10 µM).
| | Sample_growth_protocol_ch1 | Human livers from donors 089, 114, 129, 269, 270 and 271 were obtained from kidney transplant donors or from lobectomy segments resected from adult patients. Liver cells were isolated by the method of Bayliss and Skett (1996). Hepatocytes having viability better than 90% as determined by trypan blue exclusion, were used in the experiments. The cells were plated at a density of 1.7x105 cells/cm2 in plastic dishes precoated with collagen in medium described by Ferrini et al. (1998).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated from human hepatocytes using TRIzol reagent (Invitrogen, Carlsbad, CA) according to the manufacturer’s instructions. The RNA was precipitated using ethanol.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 1 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 20 ug of cRNA were hybridized for 16 hr at 45C on GHuman Genome U133 Plus 2.0 GeneChip Array (Affymetrix). GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix Scanner GCS 3000 7G .
| | Sample_data_processing | Data were normalized using GCRMA algorithm from R/Bioconductor package.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Peter,,Juvan
| | Sample_contact_phone | +386 1 543 7595
| | Sample_contact_laboratory | Center for Functional Genomics and Bio-Chips
| | Sample_contact_department | Institute of Biochemistry
| | Sample_contact_institute | Faculty of Medicine, University of Ljubljana
| | Sample_contact_address | Zaloska 4
| | Sample_contact_city | Ljubljana
| | Sample_contact_zip/postal_code | SI-1000
| | Sample_contact_country | Slovenia
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM595nnn/GSM595039/suppl/GSM595039.CEL.gz
| | Sample_series_id | GSE24187
| | Sample_series_id | GSE24188
| | Sample_data_row_count | 54675
| | |
|
GSM595040 | GPL570 |
|
Atorvastatin 48h donor 271 [Affy]
|
Cells treated with atorvastatin for 48h
|
tissue: Liver
cell type: hepatocyte
agent: Atorvastatin
time: 48h
donor: d271
|
Gene expression data from human liver cells treated with atorvastatin for 48h, donor 271.
|
| Sample_geo_accession | GSM595040
| | Sample_status | Public on Sep 05 2011
| | Sample_submission_date | Sep 17 2010
| | Sample_last_update_date | Sep 05 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | After overnight culture, the medium was replaced by serum-free medium. Forty-eight hours after serum deprivation, cells were cultured in the presence or absence of inducers for 12, 24 or 48 hours. Hepatocytes were treated with rifampicin (5 µM), atorvastatin (10 µM) or rosuvastatin (10 µM).
| | Sample_growth_protocol_ch1 | Human livers from donors 089, 114, 129, 269, 270 and 271 were obtained from kidney transplant donors or from lobectomy segments resected from adult patients. Liver cells were isolated by the method of Bayliss and Skett (1996). Hepatocytes having viability better than 90% as determined by trypan blue exclusion, were used in the experiments. The cells were plated at a density of 1.7x105 cells/cm2 in plastic dishes precoated with collagen in medium described by Ferrini et al. (1998).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated from human hepatocytes using TRIzol reagent (Invitrogen, Carlsbad, CA) according to the manufacturer’s instructions. The RNA was precipitated using ethanol.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 1 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 20 ug of cRNA were hybridized for 16 hr at 45C on GHuman Genome U133 Plus 2.0 GeneChip Array (Affymetrix). GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix Scanner GCS 3000 7G .
| | Sample_data_processing | Data were normalized using GCRMA algorithm from R/Bioconductor package.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Peter,,Juvan
| | Sample_contact_phone | +386 1 543 7595
| | Sample_contact_laboratory | Center for Functional Genomics and Bio-Chips
| | Sample_contact_department | Institute of Biochemistry
| | Sample_contact_institute | Faculty of Medicine, University of Ljubljana
| | Sample_contact_address | Zaloska 4
| | Sample_contact_city | Ljubljana
| | Sample_contact_zip/postal_code | SI-1000
| | Sample_contact_country | Slovenia
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM595nnn/GSM595040/suppl/GSM595040.CEL.gz
| | Sample_series_id | GSE24187
| | Sample_series_id | GSE24188
| | Sample_data_row_count | 54675
| | |
|
GSM595041 | GPL570 |
|
Rifampicin 24h donor 089 [Affy]
|
Cells treated with rifampicin for 24h
|
tissue: Liver
cell type: hepatocyte
agent: Rifampicin
time: 24h
donor: d089
|
Gene expression data from human liver cells treated with rifampicin for 24h, donor 089.
|
| Sample_geo_accession | GSM595041
| | Sample_status | Public on Sep 05 2011
| | Sample_submission_date | Sep 17 2010
| | Sample_last_update_date | Sep 05 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | After overnight culture, the medium was replaced by serum-free medium. Forty-eight hours after serum deprivation, cells were cultured in the presence or absence of inducers for 12, 24 or 48 hours. Hepatocytes were treated with rifampicin (5 µM), atorvastatin (10 µM) or rosuvastatin (10 µM).
| | Sample_growth_protocol_ch1 | Human livers from donors 089, 114, 129, 269, 270 and 271 were obtained from kidney transplant donors or from lobectomy segments resected from adult patients. Liver cells were isolated by the method of Bayliss and Skett (1996). Hepatocytes having viability better than 90% as determined by trypan blue exclusion, were used in the experiments. The cells were plated at a density of 1.7x105 cells/cm2 in plastic dishes precoated with collagen in medium described by Ferrini et al. (1998).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated from human hepatocytes using TRIzol reagent (Invitrogen, Carlsbad, CA) according to the manufacturer’s instructions. The RNA was precipitated using ethanol.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 1 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 20 ug of cRNA were hybridized for 16 hr at 45C on GHuman Genome U133 Plus 2.0 GeneChip Array (Affymetrix). GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix Scanner GCS 3000 7G .
| | Sample_data_processing | Data were normalized using GCRMA algorithm from R/Bioconductor package.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Peter,,Juvan
| | Sample_contact_phone | +386 1 543 7595
| | Sample_contact_laboratory | Center for Functional Genomics and Bio-Chips
| | Sample_contact_department | Institute of Biochemistry
| | Sample_contact_institute | Faculty of Medicine, University of Ljubljana
| | Sample_contact_address | Zaloska 4
| | Sample_contact_city | Ljubljana
| | Sample_contact_zip/postal_code | SI-1000
| | Sample_contact_country | Slovenia
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM595nnn/GSM595041/suppl/GSM595041.CEL.gz
| | Sample_series_id | GSE24187
| | Sample_series_id | GSE24188
| | Sample_data_row_count | 54675
| | |
|
GSM595042 | GPL570 |
|
Rifampicin 24h donor 114 [Affy]
|
Cells treated with rifampicin for 24h
|
tissue: Liver
cell type: hepatocyte
agent: Rifampicin
time: 24h
donor: d114
|
Gene expression data from human liver cells treated with rifampicin for 24h, donor 114.
|
| Sample_geo_accession | GSM595042
| | Sample_status | Public on Sep 05 2011
| | Sample_submission_date | Sep 17 2010
| | Sample_last_update_date | Sep 05 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | After overnight culture, the medium was replaced by serum-free medium. Forty-eight hours after serum deprivation, cells were cultured in the presence or absence of inducers for 12, 24 or 48 hours. Hepatocytes were treated with rifampicin (5 µM), atorvastatin (10 µM) or rosuvastatin (10 µM).
| | Sample_growth_protocol_ch1 | Human livers from donors 089, 114, 129, 269, 270 and 271 were obtained from kidney transplant donors or from lobectomy segments resected from adult patients. Liver cells were isolated by the method of Bayliss and Skett (1996). Hepatocytes having viability better than 90% as determined by trypan blue exclusion, were used in the experiments. The cells were plated at a density of 1.7x105 cells/cm2 in plastic dishes precoated with collagen in medium described by Ferrini et al. (1998).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated from human hepatocytes using TRIzol reagent (Invitrogen, Carlsbad, CA) according to the manufacturer’s instructions. The RNA was precipitated using ethanol.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 1 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 20 ug of cRNA were hybridized for 16 hr at 45C on GHuman Genome U133 Plus 2.0 GeneChip Array (Affymetrix). GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix Scanner GCS 3000 7G .
| | Sample_data_processing | Data were normalized using GCRMA algorithm from R/Bioconductor package.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Peter,,Juvan
| | Sample_contact_phone | +386 1 543 7595
| | Sample_contact_laboratory | Center for Functional Genomics and Bio-Chips
| | Sample_contact_department | Institute of Biochemistry
| | Sample_contact_institute | Faculty of Medicine, University of Ljubljana
| | Sample_contact_address | Zaloska 4
| | Sample_contact_city | Ljubljana
| | Sample_contact_zip/postal_code | SI-1000
| | Sample_contact_country | Slovenia
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM595nnn/GSM595042/suppl/GSM595042.CEL.gz
| | Sample_series_id | GSE24187
| | Sample_series_id | GSE24188
| | Sample_data_row_count | 54675
| | |
|
GSM595043 | GPL570 |
|
Rifampicin 24h donor 129 [Affy]
|
Cells treated with rifampicin for 24h
|
tissue: Liver
cell type: hepatocyte
agent: Rifampicin
time: 24h
donor: d129
|
Gene expression data from human liver cells treated with rifampicin for 24h, donor 129.
|
| Sample_geo_accession | GSM595043
| | Sample_status | Public on Sep 05 2011
| | Sample_submission_date | Sep 17 2010
| | Sample_last_update_date | Sep 05 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | After overnight culture, the medium was replaced by serum-free medium. Forty-eight hours after serum deprivation, cells were cultured in the presence or absence of inducers for 12, 24 or 48 hours. Hepatocytes were treated with rifampicin (5 µM), atorvastatin (10 µM) or rosuvastatin (10 µM).
| | Sample_growth_protocol_ch1 | Human livers from donors 089, 114, 129, 269, 270 and 271 were obtained from kidney transplant donors or from lobectomy segments resected from adult patients. Liver cells were isolated by the method of Bayliss and Skett (1996). Hepatocytes having viability better than 90% as determined by trypan blue exclusion, were used in the experiments. The cells were plated at a density of 1.7x105 cells/cm2 in plastic dishes precoated with collagen in medium described by Ferrini et al. (1998).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated from human hepatocytes using TRIzol reagent (Invitrogen, Carlsbad, CA) according to the manufacturer’s instructions. The RNA was precipitated using ethanol.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 1 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 20 ug of cRNA were hybridized for 16 hr at 45C on GHuman Genome U133 Plus 2.0 GeneChip Array (Affymetrix). GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix Scanner GCS 3000 7G .
| | Sample_data_processing | Data were normalized using GCRMA algorithm from R/Bioconductor package.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Peter,,Juvan
| | Sample_contact_phone | +386 1 543 7595
| | Sample_contact_laboratory | Center for Functional Genomics and Bio-Chips
| | Sample_contact_department | Institute of Biochemistry
| | Sample_contact_institute | Faculty of Medicine, University of Ljubljana
| | Sample_contact_address | Zaloska 4
| | Sample_contact_city | Ljubljana
| | Sample_contact_zip/postal_code | SI-1000
| | Sample_contact_country | Slovenia
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM595nnn/GSM595043/suppl/GSM595043.CEL.gz
| | Sample_series_id | GSE24187
| | Sample_series_id | GSE24188
| | Sample_data_row_count | 54675
| | |
|
GSM595044 | GPL570 |
|
Rifampicin 24h donor 269 [Affy]
|
Cells treated with rifampicin for 24h
|
tissue: Liver
cell type: hepatocyte
agent: Rifampicin
time: 24h
donor: d269
|
Gene expression data from human liver cells treated with rifampicin for 24h, donor 269.
|
| Sample_geo_accession | GSM595044
| | Sample_status | Public on Sep 05 2011
| | Sample_submission_date | Sep 17 2010
| | Sample_last_update_date | Sep 05 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | After overnight culture, the medium was replaced by serum-free medium. Forty-eight hours after serum deprivation, cells were cultured in the presence or absence of inducers for 12, 24 or 48 hours. Hepatocytes were treated with rifampicin (5 µM), atorvastatin (10 µM) or rosuvastatin (10 µM).
| | Sample_growth_protocol_ch1 | Human livers from donors 089, 114, 129, 269, 270 and 271 were obtained from kidney transplant donors or from lobectomy segments resected from adult patients. Liver cells were isolated by the method of Bayliss and Skett (1996). Hepatocytes having viability better than 90% as determined by trypan blue exclusion, were used in the experiments. The cells were plated at a density of 1.7x105 cells/cm2 in plastic dishes precoated with collagen in medium described by Ferrini et al. (1998).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated from human hepatocytes using TRIzol reagent (Invitrogen, Carlsbad, CA) according to the manufacturer’s instructions. The RNA was precipitated using ethanol.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 1 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 20 ug of cRNA were hybridized for 16 hr at 45C on GHuman Genome U133 Plus 2.0 GeneChip Array (Affymetrix). GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix Scanner GCS 3000 7G .
| | Sample_data_processing | Data were normalized using GCRMA algorithm from R/Bioconductor package.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Peter,,Juvan
| | Sample_contact_phone | +386 1 543 7595
| | Sample_contact_laboratory | Center for Functional Genomics and Bio-Chips
| | Sample_contact_department | Institute of Biochemistry
| | Sample_contact_institute | Faculty of Medicine, University of Ljubljana
| | Sample_contact_address | Zaloska 4
| | Sample_contact_city | Ljubljana
| | Sample_contact_zip/postal_code | SI-1000
| | Sample_contact_country | Slovenia
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM595nnn/GSM595044/suppl/GSM595044.CEL.gz
| | Sample_series_id | GSE24187
| | Sample_series_id | GSE24188
| | Sample_data_row_count | 54675
| | |
|
GSM595045 | GPL570 |
|
Rifampicin 24h donor 270 [Affy]
|
Cells treated with rifampicin for 24h
|
tissue: Liver
cell type: hepatocyte
agent: Rifampicin
time: 24h
donor: d270
|
Gene expression data from human liver cells treated with rifampicin for 24h, donor 270.
|
| Sample_geo_accession | GSM595045
| | Sample_status | Public on Sep 05 2011
| | Sample_submission_date | Sep 17 2010
| | Sample_last_update_date | Sep 05 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | After overnight culture, the medium was replaced by serum-free medium. Forty-eight hours after serum deprivation, cells were cultured in the presence or absence of inducers for 12, 24 or 48 hours. Hepatocytes were treated with rifampicin (5 µM), atorvastatin (10 µM) or rosuvastatin (10 µM).
| | Sample_growth_protocol_ch1 | Human livers from donors 089, 114, 129, 269, 270 and 271 were obtained from kidney transplant donors or from lobectomy segments resected from adult patients. Liver cells were isolated by the method of Bayliss and Skett (1996). Hepatocytes having viability better than 90% as determined by trypan blue exclusion, were used in the experiments. The cells were plated at a density of 1.7x105 cells/cm2 in plastic dishes precoated with collagen in medium described by Ferrini et al. (1998).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated from human hepatocytes using TRIzol reagent (Invitrogen, Carlsbad, CA) according to the manufacturer’s instructions. The RNA was precipitated using ethanol.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 1 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 20 ug of cRNA were hybridized for 16 hr at 45C on GHuman Genome U133 Plus 2.0 GeneChip Array (Affymetrix). GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix Scanner GCS 3000 7G .
| | Sample_data_processing | Data were normalized using GCRMA algorithm from R/Bioconductor package.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Peter,,Juvan
| | Sample_contact_phone | +386 1 543 7595
| | Sample_contact_laboratory | Center for Functional Genomics and Bio-Chips
| | Sample_contact_department | Institute of Biochemistry
| | Sample_contact_institute | Faculty of Medicine, University of Ljubljana
| | Sample_contact_address | Zaloska 4
| | Sample_contact_city | Ljubljana
| | Sample_contact_zip/postal_code | SI-1000
| | Sample_contact_country | Slovenia
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM595nnn/GSM595045/suppl/GSM595045.CEL.gz
| | Sample_series_id | GSE24187
| | Sample_series_id | GSE24188
| | Sample_data_row_count | 54675
| | |
|
GSM595046 | GPL570 |
|
Rifampicin 24h donor 271 [Affy]
|
Cells treated with rifampicin for 24h
|
tissue: Liver
cell type: hepatocyte
agent: Rifampicin
time: 24h
donor: d271
|
Gene expression data from human liver cells treated with rifampicin for 24h, donor 271.
|
| Sample_geo_accession | GSM595046
| | Sample_status | Public on Sep 05 2011
| | Sample_submission_date | Sep 17 2010
| | Sample_last_update_date | Sep 05 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | After overnight culture, the medium was replaced by serum-free medium. Forty-eight hours after serum deprivation, cells were cultured in the presence or absence of inducers for 12, 24 or 48 hours. Hepatocytes were treated with rifampicin (5 µM), atorvastatin (10 µM) or rosuvastatin (10 µM).
| | Sample_growth_protocol_ch1 | Human livers from donors 089, 114, 129, 269, 270 and 271 were obtained from kidney transplant donors or from lobectomy segments resected from adult patients. Liver cells were isolated by the method of Bayliss and Skett (1996). Hepatocytes having viability better than 90% as determined by trypan blue exclusion, were used in the experiments. The cells were plated at a density of 1.7x105 cells/cm2 in plastic dishes precoated with collagen in medium described by Ferrini et al. (1998).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated from human hepatocytes using TRIzol reagent (Invitrogen, Carlsbad, CA) according to the manufacturer’s instructions. The RNA was precipitated using ethanol.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 1 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 20 ug of cRNA were hybridized for 16 hr at 45C on GHuman Genome U133 Plus 2.0 GeneChip Array (Affymetrix). GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix Scanner GCS 3000 7G .
| | Sample_data_processing | Data were normalized using GCRMA algorithm from R/Bioconductor package.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Peter,,Juvan
| | Sample_contact_phone | +386 1 543 7595
| | Sample_contact_laboratory | Center for Functional Genomics and Bio-Chips
| | Sample_contact_department | Institute of Biochemistry
| | Sample_contact_institute | Faculty of Medicine, University of Ljubljana
| | Sample_contact_address | Zaloska 4
| | Sample_contact_city | Ljubljana
| | Sample_contact_zip/postal_code | SI-1000
| | Sample_contact_country | Slovenia
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM595nnn/GSM595046/suppl/GSM595046.CEL.gz
| | Sample_series_id | GSE24187
| | Sample_series_id | GSE24188
| | Sample_data_row_count | 54675
| | |
|
GSM595047 | GPL570 |
|
Rifampicin 48h donor 089 [Affy]
|
Cells treated with rifampicin for 48h
|
tissue: Liver
cell type: hepatocyte
agent: Rifampicin
time: 48h
donor: d089
|
Gene expression data from human liver cells treated with rifampicin for 48h, donor 089.
|
| Sample_geo_accession | GSM595047
| | Sample_status | Public on Sep 05 2011
| | Sample_submission_date | Sep 17 2010
| | Sample_last_update_date | Sep 05 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | After overnight culture, the medium was replaced by serum-free medium. Forty-eight hours after serum deprivation, cells were cultured in the presence or absence of inducers for 12, 24 or 48 hours. Hepatocytes were treated with rifampicin (5 µM), atorvastatin (10 µM) or rosuvastatin (10 µM).
| | Sample_growth_protocol_ch1 | Human livers from donors 089, 114, 129, 269, 270 and 271 were obtained from kidney transplant donors or from lobectomy segments resected from adult patients. Liver cells were isolated by the method of Bayliss and Skett (1996). Hepatocytes having viability better than 90% as determined by trypan blue exclusion, were used in the experiments. The cells were plated at a density of 1.7x105 cells/cm2 in plastic dishes precoated with collagen in medium described by Ferrini et al. (1998).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated from human hepatocytes using TRIzol reagent (Invitrogen, Carlsbad, CA) according to the manufacturer’s instructions. The RNA was precipitated using ethanol.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 1 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 20 ug of cRNA were hybridized for 16 hr at 45C on GHuman Genome U133 Plus 2.0 GeneChip Array (Affymetrix). GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix Scanner GCS 3000 7G .
| | Sample_data_processing | Data were normalized using GCRMA algorithm from R/Bioconductor package.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Peter,,Juvan
| | Sample_contact_phone | +386 1 543 7595
| | Sample_contact_laboratory | Center for Functional Genomics and Bio-Chips
| | Sample_contact_department | Institute of Biochemistry
| | Sample_contact_institute | Faculty of Medicine, University of Ljubljana
| | Sample_contact_address | Zaloska 4
| | Sample_contact_city | Ljubljana
| | Sample_contact_zip/postal_code | SI-1000
| | Sample_contact_country | Slovenia
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM595nnn/GSM595047/suppl/GSM595047.CEL.gz
| | Sample_series_id | GSE24187
| | Sample_series_id | GSE24188
| | Sample_data_row_count | 54675
| | |
|
GSM595049 | GPL570 |
|
Rifampicin 48h donor 129 [Affy]
|
Cells treated with rifampicin for 48h
|
tissue: Liver
cell type: hepatocyte
agent: Rifampicin
time: 48h
donor: d129
|
Gene expression data from human liver cells treated with rifampicin for 48h, donor 129.
|
| Sample_geo_accession | GSM595049
| | Sample_status | Public on Sep 05 2011
| | Sample_submission_date | Sep 17 2010
| | Sample_last_update_date | Sep 05 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | After overnight culture, the medium was replaced by serum-free medium. Forty-eight hours after serum deprivation, cells were cultured in the presence or absence of inducers for 12, 24 or 48 hours. Hepatocytes were treated with rifampicin (5 µM), atorvastatin (10 µM) or rosuvastatin (10 µM).
| | Sample_growth_protocol_ch1 | Human livers from donors 089, 114, 129, 269, 270 and 271 were obtained from kidney transplant donors or from lobectomy segments resected from adult patients. Liver cells were isolated by the method of Bayliss and Skett (1996). Hepatocytes having viability better than 90% as determined by trypan blue exclusion, were used in the experiments. The cells were plated at a density of 1.7x105 cells/cm2 in plastic dishes precoated with collagen in medium described by Ferrini et al. (1998).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated from human hepatocytes using TRIzol reagent (Invitrogen, Carlsbad, CA) according to the manufacturer’s instructions. The RNA was precipitated using ethanol.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 1 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 20 ug of cRNA were hybridized for 16 hr at 45C on GHuman Genome U133 Plus 2.0 GeneChip Array (Affymetrix). GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix Scanner GCS 3000 7G .
| | Sample_data_processing | Data were normalized using GCRMA algorithm from R/Bioconductor package.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Peter,,Juvan
| | Sample_contact_phone | +386 1 543 7595
| | Sample_contact_laboratory | Center for Functional Genomics and Bio-Chips
| | Sample_contact_department | Institute of Biochemistry
| | Sample_contact_institute | Faculty of Medicine, University of Ljubljana
| | Sample_contact_address | Zaloska 4
| | Sample_contact_city | Ljubljana
| | Sample_contact_zip/postal_code | SI-1000
| | Sample_contact_country | Slovenia
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM595nnn/GSM595049/suppl/GSM595049.CEL.gz
| | Sample_series_id | GSE24187
| | Sample_series_id | GSE24188
| | Sample_data_row_count | 54675
| | |
|
GSM595050 | GPL570 |
|
Rifampicin 48h donor 269 [Affy]
|
Cells treated with rifampicin for 48h
|
tissue: Liver
cell type: hepatocyte
agent: Rifampicin
time: 48h
donor: d269
|
Gene expression data from human liver cells treated with rifampicin for 48h, donor 269.
|
| Sample_geo_accession | GSM595050
| | Sample_status | Public on Sep 05 2011
| | Sample_submission_date | Sep 17 2010
| | Sample_last_update_date | Sep 05 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | After overnight culture, the medium was replaced by serum-free medium. Forty-eight hours after serum deprivation, cells were cultured in the presence or absence of inducers for 12, 24 or 48 hours. Hepatocytes were treated with rifampicin (5 µM), atorvastatin (10 µM) or rosuvastatin (10 µM).
| | Sample_growth_protocol_ch1 | Human livers from donors 089, 114, 129, 269, 270 and 271 were obtained from kidney transplant donors or from lobectomy segments resected from adult patients. Liver cells were isolated by the method of Bayliss and Skett (1996). Hepatocytes having viability better than 90% as determined by trypan blue exclusion, were used in the experiments. The cells were plated at a density of 1.7x105 cells/cm2 in plastic dishes precoated with collagen in medium described by Ferrini et al. (1998).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated from human hepatocytes using TRIzol reagent (Invitrogen, Carlsbad, CA) according to the manufacturer’s instructions. The RNA was precipitated using ethanol.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 1 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 20 ug of cRNA were hybridized for 16 hr at 45C on GHuman Genome U133 Plus 2.0 GeneChip Array (Affymetrix). GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix Scanner GCS 3000 7G .
| | Sample_data_processing | Data were normalized using GCRMA algorithm from R/Bioconductor package.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Peter,,Juvan
| | Sample_contact_phone | +386 1 543 7595
| | Sample_contact_laboratory | Center for Functional Genomics and Bio-Chips
| | Sample_contact_department | Institute of Biochemistry
| | Sample_contact_institute | Faculty of Medicine, University of Ljubljana
| | Sample_contact_address | Zaloska 4
| | Sample_contact_city | Ljubljana
| | Sample_contact_zip/postal_code | SI-1000
| | Sample_contact_country | Slovenia
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM595nnn/GSM595050/suppl/GSM595050.CEL.gz
| | Sample_series_id | GSE24187
| | Sample_series_id | GSE24188
| | Sample_data_row_count | 54675
| | |
|
GSM595051 | GPL570 |
|
Rifampicin 48h donor 270 [Affy]
|
Cells treated with rifampicin for 48h
|
tissue: Liver
cell type: hepatocyte
agent: Rifampicin
time: 48h
donor: d270
|
Gene expression data from human liver cells treated with rifampicin for 48h, donor 270.
|
| Sample_geo_accession | GSM595051
| | Sample_status | Public on Sep 05 2011
| | Sample_submission_date | Sep 17 2010
| | Sample_last_update_date | Sep 05 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | After overnight culture, the medium was replaced by serum-free medium. Forty-eight hours after serum deprivation, cells were cultured in the presence or absence of inducers for 12, 24 or 48 hours. Hepatocytes were treated with rifampicin (5 µM), atorvastatin (10 µM) or rosuvastatin (10 µM).
| | Sample_growth_protocol_ch1 | Human livers from donors 089, 114, 129, 269, 270 and 271 were obtained from kidney transplant donors or from lobectomy segments resected from adult patients. Liver cells were isolated by the method of Bayliss and Skett (1996). Hepatocytes having viability better than 90% as determined by trypan blue exclusion, were used in the experiments. The cells were plated at a density of 1.7x105 cells/cm2 in plastic dishes precoated with collagen in medium described by Ferrini et al. (1998).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated from human hepatocytes using TRIzol reagent (Invitrogen, Carlsbad, CA) according to the manufacturer’s instructions. The RNA was precipitated using ethanol.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 1 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 20 ug of cRNA were hybridized for 16 hr at 45C on GHuman Genome U133 Plus 2.0 GeneChip Array (Affymetrix). GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix Scanner GCS 3000 7G .
| | Sample_data_processing | Data were normalized using GCRMA algorithm from R/Bioconductor package.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Peter,,Juvan
| | Sample_contact_phone | +386 1 543 7595
| | Sample_contact_laboratory | Center for Functional Genomics and Bio-Chips
| | Sample_contact_department | Institute of Biochemistry
| | Sample_contact_institute | Faculty of Medicine, University of Ljubljana
| | Sample_contact_address | Zaloska 4
| | Sample_contact_city | Ljubljana
| | Sample_contact_zip/postal_code | SI-1000
| | Sample_contact_country | Slovenia
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM595nnn/GSM595051/suppl/GSM595051.CEL.gz
| | Sample_series_id | GSE24187
| | Sample_series_id | GSE24188
| | Sample_data_row_count | 54675
| | |
|
GSM595052 | GPL570 |
|
Rifampicin 48h donor 271 [Affy]
|
Cells treated with rifampicin for 48h
|
tissue: Liver
cell type: hepatocyte
agent: Rifampicin
time: 48h
donor: d271
|
Gene expression data from human liver cells treated with rifampicin for 48h, donor 271.
|
| Sample_geo_accession | GSM595052
| | Sample_status | Public on Sep 05 2011
| | Sample_submission_date | Sep 17 2010
| | Sample_last_update_date | Sep 05 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | After overnight culture, the medium was replaced by serum-free medium. Forty-eight hours after serum deprivation, cells were cultured in the presence or absence of inducers for 12, 24 or 48 hours. Hepatocytes were treated with rifampicin (5 µM), atorvastatin (10 µM) or rosuvastatin (10 µM).
| | Sample_growth_protocol_ch1 | Human livers from donors 089, 114, 129, 269, 270 and 271 were obtained from kidney transplant donors or from lobectomy segments resected from adult patients. Liver cells were isolated by the method of Bayliss and Skett (1996). Hepatocytes having viability better than 90% as determined by trypan blue exclusion, were used in the experiments. The cells were plated at a density of 1.7x105 cells/cm2 in plastic dishes precoated with collagen in medium described by Ferrini et al. (1998).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated from human hepatocytes using TRIzol reagent (Invitrogen, Carlsbad, CA) according to the manufacturer’s instructions. The RNA was precipitated using ethanol.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 1 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 20 ug of cRNA were hybridized for 16 hr at 45C on GHuman Genome U133 Plus 2.0 GeneChip Array (Affymetrix). GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix Scanner GCS 3000 7G .
| | Sample_data_processing | Data were normalized using GCRMA algorithm from R/Bioconductor package.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Peter,,Juvan
| | Sample_contact_phone | +386 1 543 7595
| | Sample_contact_laboratory | Center for Functional Genomics and Bio-Chips
| | Sample_contact_department | Institute of Biochemistry
| | Sample_contact_institute | Faculty of Medicine, University of Ljubljana
| | Sample_contact_address | Zaloska 4
| | Sample_contact_city | Ljubljana
| | Sample_contact_zip/postal_code | SI-1000
| | Sample_contact_country | Slovenia
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM595nnn/GSM595052/suppl/GSM595052.CEL.gz
| | Sample_series_id | GSE24187
| | Sample_series_id | GSE24188
| | Sample_data_row_count | 54675
| | |
|
GSM595053 | GPL570 |
|
Rosuvastatin 24h donor 089 [Affy]
|
Cells treated with rosuvastatin for 24h
|
tissue: Liver
cell type: hepatocyte
agent: Rosuvastatin
time: 24h
donor: d089
|
Gene expression data from human liver cells treated with rosuvastatin for 24h, donor 089.
|
| Sample_geo_accession | GSM595053
| | Sample_status | Public on Sep 05 2011
| | Sample_submission_date | Sep 17 2010
| | Sample_last_update_date | Sep 05 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | After overnight culture, the medium was replaced by serum-free medium. Forty-eight hours after serum deprivation, cells were cultured in the presence or absence of inducers for 12, 24 or 48 hours. Hepatocytes were treated with rifampicin (5 µM), atorvastatin (10 µM) or rosuvastatin (10 µM).
| | Sample_growth_protocol_ch1 | Human livers from donors 089, 114, 129, 269, 270 and 271 were obtained from kidney transplant donors or from lobectomy segments resected from adult patients. Liver cells were isolated by the method of Bayliss and Skett (1996). Hepatocytes having viability better than 90% as determined by trypan blue exclusion, were used in the experiments. The cells were plated at a density of 1.7x105 cells/cm2 in plastic dishes precoated with collagen in medium described by Ferrini et al. (1998).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated from human hepatocytes using TRIzol reagent (Invitrogen, Carlsbad, CA) according to the manufacturer’s instructions. The RNA was precipitated using ethanol.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 1 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 20 ug of cRNA were hybridized for 16 hr at 45C on GHuman Genome U133 Plus 2.0 GeneChip Array (Affymetrix). GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix Scanner GCS 3000 7G .
| | Sample_data_processing | Data were normalized using GCRMA algorithm from R/Bioconductor package.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Peter,,Juvan
| | Sample_contact_phone | +386 1 543 7595
| | Sample_contact_laboratory | Center for Functional Genomics and Bio-Chips
| | Sample_contact_department | Institute of Biochemistry
| | Sample_contact_institute | Faculty of Medicine, University of Ljubljana
| | Sample_contact_address | Zaloska 4
| | Sample_contact_city | Ljubljana
| | Sample_contact_zip/postal_code | SI-1000
| | Sample_contact_country | Slovenia
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM595nnn/GSM595053/suppl/GSM595053.CEL.gz
| | Sample_series_id | GSE24187
| | Sample_series_id | GSE24188
| | Sample_data_row_count | 54675
| | |
|
GSM595054 | GPL570 |
|
Rosuvastatin 24h donor 114 [Affy]
|
Cells treated with rosuvastatin for 24h
|
tissue: Liver
cell type: hepatocyte
agent: Rosuvastatin
time: 24h
donor: d114
|
Gene expression data from human liver cells treated with rosuvastatin for 24h, donor 114.
|
| Sample_geo_accession | GSM595054
| | Sample_status | Public on Sep 05 2011
| | Sample_submission_date | Sep 17 2010
| | Sample_last_update_date | Sep 05 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | After overnight culture, the medium was replaced by serum-free medium. Forty-eight hours after serum deprivation, cells were cultured in the presence or absence of inducers for 12, 24 or 48 hours. Hepatocytes were treated with rifampicin (5 µM), atorvastatin (10 µM) or rosuvastatin (10 µM).
| | Sample_growth_protocol_ch1 | Human livers from donors 089, 114, 129, 269, 270 and 271 were obtained from kidney transplant donors or from lobectomy segments resected from adult patients. Liver cells were isolated by the method of Bayliss and Skett (1996). Hepatocytes having viability better than 90% as determined by trypan blue exclusion, were used in the experiments. The cells were plated at a density of 1.7x105 cells/cm2 in plastic dishes precoated with collagen in medium described by Ferrini et al. (1998).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated from human hepatocytes using TRIzol reagent (Invitrogen, Carlsbad, CA) according to the manufacturer’s instructions. The RNA was precipitated using ethanol.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 1 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 20 ug of cRNA were hybridized for 16 hr at 45C on GHuman Genome U133 Plus 2.0 GeneChip Array (Affymetrix). GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix Scanner GCS 3000 7G .
| | Sample_data_processing | Data were normalized using GCRMA algorithm from R/Bioconductor package.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Peter,,Juvan
| | Sample_contact_phone | +386 1 543 7595
| | Sample_contact_laboratory | Center for Functional Genomics and Bio-Chips
| | Sample_contact_department | Institute of Biochemistry
| | Sample_contact_institute | Faculty of Medicine, University of Ljubljana
| | Sample_contact_address | Zaloska 4
| | Sample_contact_city | Ljubljana
| | Sample_contact_zip/postal_code | SI-1000
| | Sample_contact_country | Slovenia
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM595nnn/GSM595054/suppl/GSM595054.CEL.gz
| | Sample_series_id | GSE24187
| | Sample_series_id | GSE24188
| | Sample_data_row_count | 54675
| | |
|
GSM595055 | GPL570 |
|
Rosuvastatin 24h donor 129 [Affy]
|
Cells treated with rosuvastatin for 24h
|
tissue: Liver
cell type: hepatocyte
agent: Rosuvastatin
time: 24h
donor: d129
|
Gene expression data from human liver cells treated with rosuvastatin for 24h, donor 129.
|
| Sample_geo_accession | GSM595055
| | Sample_status | Public on Sep 05 2011
| | Sample_submission_date | Sep 17 2010
| | Sample_last_update_date | Sep 05 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | After overnight culture, the medium was replaced by serum-free medium. Forty-eight hours after serum deprivation, cells were cultured in the presence or absence of inducers for 12, 24 or 48 hours. Hepatocytes were treated with rifampicin (5 µM), atorvastatin (10 µM) or rosuvastatin (10 µM).
| | Sample_growth_protocol_ch1 | Human livers from donors 089, 114, 129, 269, 270 and 271 were obtained from kidney transplant donors or from lobectomy segments resected from adult patients. Liver cells were isolated by the method of Bayliss and Skett (1996). Hepatocytes having viability better than 90% as determined by trypan blue exclusion, were used in the experiments. The cells were plated at a density of 1.7x105 cells/cm2 in plastic dishes precoated with collagen in medium described by Ferrini et al. (1998).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated from human hepatocytes using TRIzol reagent (Invitrogen, Carlsbad, CA) according to the manufacturer’s instructions. The RNA was precipitated using ethanol.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 1 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 20 ug of cRNA were hybridized for 16 hr at 45C on GHuman Genome U133 Plus 2.0 GeneChip Array (Affymetrix). GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix Scanner GCS 3000 7G .
| | Sample_data_processing | Data were normalized using GCRMA algorithm from R/Bioconductor package.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Peter,,Juvan
| | Sample_contact_phone | +386 1 543 7595
| | Sample_contact_laboratory | Center for Functional Genomics and Bio-Chips
| | Sample_contact_department | Institute of Biochemistry
| | Sample_contact_institute | Faculty of Medicine, University of Ljubljana
| | Sample_contact_address | Zaloska 4
| | Sample_contact_city | Ljubljana
| | Sample_contact_zip/postal_code | SI-1000
| | Sample_contact_country | Slovenia
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM595nnn/GSM595055/suppl/GSM595055.CEL.gz
| | Sample_series_id | GSE24187
| | Sample_series_id | GSE24188
| | Sample_data_row_count | 54675
| | |
|
GSM595056 | GPL570 |
|
Rosuvastatin 24h donor 269 [Affy]
|
Cells treated with rosuvastatin for 24h
|
tissue: Liver
cell type: hepatocyte
agent: Rosuvastatin
time: 24h
donor: d269
|
Gene expression data from human liver cells treated with rosuvastatin for 24h, donor 269.
|
| Sample_geo_accession | GSM595056
| | Sample_status | Public on Sep 05 2011
| | Sample_submission_date | Sep 17 2010
| | Sample_last_update_date | Sep 05 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | After overnight culture, the medium was replaced by serum-free medium. Forty-eight hours after serum deprivation, cells were cultured in the presence or absence of inducers for 12, 24 or 48 hours. Hepatocytes were treated with rifampicin (5 µM), atorvastatin (10 µM) or rosuvastatin (10 µM).
| | Sample_growth_protocol_ch1 | Human livers from donors 089, 114, 129, 269, 270 and 271 were obtained from kidney transplant donors or from lobectomy segments resected from adult patients. Liver cells were isolated by the method of Bayliss and Skett (1996). Hepatocytes having viability better than 90% as determined by trypan blue exclusion, were used in the experiments. The cells were plated at a density of 1.7x105 cells/cm2 in plastic dishes precoated with collagen in medium described by Ferrini et al. (1998).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated from human hepatocytes using TRIzol reagent (Invitrogen, Carlsbad, CA) according to the manufacturer’s instructions. The RNA was precipitated using ethanol.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 1 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 20 ug of cRNA were hybridized for 16 hr at 45C on GHuman Genome U133 Plus 2.0 GeneChip Array (Affymetrix). GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix Scanner GCS 3000 7G .
| | Sample_data_processing | Data were normalized using GCRMA algorithm from R/Bioconductor package.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Peter,,Juvan
| | Sample_contact_phone | +386 1 543 7595
| | Sample_contact_laboratory | Center for Functional Genomics and Bio-Chips
| | Sample_contact_department | Institute of Biochemistry
| | Sample_contact_institute | Faculty of Medicine, University of Ljubljana
| | Sample_contact_address | Zaloska 4
| | Sample_contact_city | Ljubljana
| | Sample_contact_zip/postal_code | SI-1000
| | Sample_contact_country | Slovenia
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM595nnn/GSM595056/suppl/GSM595056.CEL.gz
| | Sample_series_id | GSE24187
| | Sample_series_id | GSE24188
| | Sample_data_row_count | 54675
| | |
|
GSM595057 | GPL570 |
|
Rosuvastatin 24h donor 270 [Affy]
|
Cells treated with rosuvastatin for 24h
|
tissue: Liver
cell type: hepatocyte
agent: Rosuvastatin
time: 24h
donor: d270
|
Gene expression data from human liver cells treated with rosuvastatin for 24h, donor 270.
|
| Sample_geo_accession | GSM595057
| | Sample_status | Public on Sep 05 2011
| | Sample_submission_date | Sep 17 2010
| | Sample_last_update_date | Sep 05 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | After overnight culture, the medium was replaced by serum-free medium. Forty-eight hours after serum deprivation, cells were cultured in the presence or absence of inducers for 12, 24 or 48 hours. Hepatocytes were treated with rifampicin (5 µM), atorvastatin (10 µM) or rosuvastatin (10 µM).
| | Sample_growth_protocol_ch1 | Human livers from donors 089, 114, 129, 269, 270 and 271 were obtained from kidney transplant donors or from lobectomy segments resected from adult patients. Liver cells were isolated by the method of Bayliss and Skett (1996). Hepatocytes having viability better than 90% as determined by trypan blue exclusion, were used in the experiments. The cells were plated at a density of 1.7x105 cells/cm2 in plastic dishes precoated with collagen in medium described by Ferrini et al. (1998).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated from human hepatocytes using TRIzol reagent (Invitrogen, Carlsbad, CA) according to the manufacturer’s instructions. The RNA was precipitated using ethanol.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 1 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 20 ug of cRNA were hybridized for 16 hr at 45C on GHuman Genome U133 Plus 2.0 GeneChip Array (Affymetrix). GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix Scanner GCS 3000 7G .
| | Sample_data_processing | Data were normalized using GCRMA algorithm from R/Bioconductor package.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Peter,,Juvan
| | Sample_contact_phone | +386 1 543 7595
| | Sample_contact_laboratory | Center for Functional Genomics and Bio-Chips
| | Sample_contact_department | Institute of Biochemistry
| | Sample_contact_institute | Faculty of Medicine, University of Ljubljana
| | Sample_contact_address | Zaloska 4
| | Sample_contact_city | Ljubljana
| | Sample_contact_zip/postal_code | SI-1000
| | Sample_contact_country | Slovenia
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM595nnn/GSM595057/suppl/GSM595057.CEL.gz
| | Sample_series_id | GSE24187
| | Sample_series_id | GSE24188
| | Sample_data_row_count | 54675
| | |
|
GSM595058 | GPL570 |
|
Rosuvastatin 24h donor 271 [Affy]
|
Cells treated with rosuvastatin for 24h
|
tissue: Liver
cell type: hepatocyte
agent: Rosuvastatin
time: 24h
donor: d271
|
Gene expression data from human liver cells treated with rosuvastatin for 24h, donor 271.
|
| Sample_geo_accession | GSM595058
| | Sample_status | Public on Sep 05 2011
| | Sample_submission_date | Sep 17 2010
| | Sample_last_update_date | Sep 05 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | After overnight culture, the medium was replaced by serum-free medium. Forty-eight hours after serum deprivation, cells were cultured in the presence or absence of inducers for 12, 24 or 48 hours. Hepatocytes were treated with rifampicin (5 µM), atorvastatin (10 µM) or rosuvastatin (10 µM).
| | Sample_growth_protocol_ch1 | Human livers from donors 089, 114, 129, 269, 270 and 271 were obtained from kidney transplant donors or from lobectomy segments resected from adult patients. Liver cells were isolated by the method of Bayliss and Skett (1996). Hepatocytes having viability better than 90% as determined by trypan blue exclusion, were used in the experiments. The cells were plated at a density of 1.7x105 cells/cm2 in plastic dishes precoated with collagen in medium described by Ferrini et al. (1998).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated from human hepatocytes using TRIzol reagent (Invitrogen, Carlsbad, CA) according to the manufacturer’s instructions. The RNA was precipitated using ethanol.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 1 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 20 ug of cRNA were hybridized for 16 hr at 45C on GHuman Genome U133 Plus 2.0 GeneChip Array (Affymetrix). GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix Scanner GCS 3000 7G .
| | Sample_data_processing | Data were normalized using GCRMA algorithm from R/Bioconductor package.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Peter,,Juvan
| | Sample_contact_phone | +386 1 543 7595
| | Sample_contact_laboratory | Center for Functional Genomics and Bio-Chips
| | Sample_contact_department | Institute of Biochemistry
| | Sample_contact_institute | Faculty of Medicine, University of Ljubljana
| | Sample_contact_address | Zaloska 4
| | Sample_contact_city | Ljubljana
| | Sample_contact_zip/postal_code | SI-1000
| | Sample_contact_country | Slovenia
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM595nnn/GSM595058/suppl/GSM595058.CEL.gz
| | Sample_series_id | GSE24187
| | Sample_series_id | GSE24188
| | Sample_data_row_count | 54675
| | |
|
GSM595059 | GPL570 |
|
Rosuvastatin 48h donor 114 [Affy]
|
Cells treated with rosuvastatin for 48h
|
tissue: Liver
cell type: hepatocyte
agent: Rosuvastatin
time: 48h
donor: d114
|
Gene expression data from human liver cells treated with rosuvastatin for 48h, donor 114.
|
| Sample_geo_accession | GSM595059
| | Sample_status | Public on Sep 05 2011
| | Sample_submission_date | Sep 17 2010
| | Sample_last_update_date | Sep 05 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | After overnight culture, the medium was replaced by serum-free medium. Forty-eight hours after serum deprivation, cells were cultured in the presence or absence of inducers for 12, 24 or 48 hours. Hepatocytes were treated with rifampicin (5 µM), atorvastatin (10 µM) or rosuvastatin (10 µM).
| | Sample_growth_protocol_ch1 | Human livers from donors 089, 114, 129, 269, 270 and 271 were obtained from kidney transplant donors or from lobectomy segments resected from adult patients. Liver cells were isolated by the method of Bayliss and Skett (1996). Hepatocytes having viability better than 90% as determined by trypan blue exclusion, were used in the experiments. The cells were plated at a density of 1.7x105 cells/cm2 in plastic dishes precoated with collagen in medium described by Ferrini et al. (1998).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated from human hepatocytes using TRIzol reagent (Invitrogen, Carlsbad, CA) according to the manufacturer’s instructions. The RNA was precipitated using ethanol.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 1 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 20 ug of cRNA were hybridized for 16 hr at 45C on GHuman Genome U133 Plus 2.0 GeneChip Array (Affymetrix). GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix Scanner GCS 3000 7G .
| | Sample_data_processing | Data were normalized using GCRMA algorithm from R/Bioconductor package.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Peter,,Juvan
| | Sample_contact_phone | +386 1 543 7595
| | Sample_contact_laboratory | Center for Functional Genomics and Bio-Chips
| | Sample_contact_department | Institute of Biochemistry
| | Sample_contact_institute | Faculty of Medicine, University of Ljubljana
| | Sample_contact_address | Zaloska 4
| | Sample_contact_city | Ljubljana
| | Sample_contact_zip/postal_code | SI-1000
| | Sample_contact_country | Slovenia
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM595nnn/GSM595059/suppl/GSM595059.CEL.gz
| | Sample_series_id | GSE24187
| | Sample_series_id | GSE24188
| | Sample_data_row_count | 54675
| | |
|
GSM595060 | GPL570 |
|
Rosuvastatin 48h donor 269 [Affy]
|
Cells treated with rosuvastatin for 48h
|
tissue: Liver
cell type: hepatocyte
agent: Rosuvastatin
time: 48h
donor: d269
|
Gene expression data from human liver cells treated with rosuvastatin for 48h, donor 269.
|
| Sample_geo_accession | GSM595060
| | Sample_status | Public on Sep 05 2011
| | Sample_submission_date | Sep 17 2010
| | Sample_last_update_date | Sep 05 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | After overnight culture, the medium was replaced by serum-free medium. Forty-eight hours after serum deprivation, cells were cultured in the presence or absence of inducers for 12, 24 or 48 hours. Hepatocytes were treated with rifampicin (5 µM), atorvastatin (10 µM) or rosuvastatin (10 µM).
| | Sample_growth_protocol_ch1 | Human livers from donors 089, 114, 129, 269, 270 and 271 were obtained from kidney transplant donors or from lobectomy segments resected from adult patients. Liver cells were isolated by the method of Bayliss and Skett (1996). Hepatocytes having viability better than 90% as determined by trypan blue exclusion, were used in the experiments. The cells were plated at a density of 1.7x105 cells/cm2 in plastic dishes precoated with collagen in medium described by Ferrini et al. (1998).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated from human hepatocytes using TRIzol reagent (Invitrogen, Carlsbad, CA) according to the manufacturer’s instructions. The RNA was precipitated using ethanol.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 1 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 20 ug of cRNA were hybridized for 16 hr at 45C on GHuman Genome U133 Plus 2.0 GeneChip Array (Affymetrix). GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix Scanner GCS 3000 7G .
| | Sample_data_processing | Data were normalized using GCRMA algorithm from R/Bioconductor package.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Peter,,Juvan
| | Sample_contact_phone | +386 1 543 7595
| | Sample_contact_laboratory | Center for Functional Genomics and Bio-Chips
| | Sample_contact_department | Institute of Biochemistry
| | Sample_contact_institute | Faculty of Medicine, University of Ljubljana
| | Sample_contact_address | Zaloska 4
| | Sample_contact_city | Ljubljana
| | Sample_contact_zip/postal_code | SI-1000
| | Sample_contact_country | Slovenia
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM595nnn/GSM595060/suppl/GSM595060.CEL.gz
| | Sample_series_id | GSE24187
| | Sample_series_id | GSE24188
| | Sample_data_row_count | 54675
| | |
|
GSM595061 | GPL570 |
|
Rosuvastatin 48h donor 270 [Affy]
|
Cells treated with rosuvastatin for 48h
|
tissue: Liver
cell type: hepatocyte
agent: Rosuvastatin
time: 48h
donor: d270
|
Gene expression data from human liver cells treated with rosuvastatin for 48h, donor 270.
|
| Sample_geo_accession | GSM595061
| | Sample_status | Public on Sep 05 2011
| | Sample_submission_date | Sep 17 2010
| | Sample_last_update_date | Sep 05 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | After overnight culture, the medium was replaced by serum-free medium. Forty-eight hours after serum deprivation, cells were cultured in the presence or absence of inducers for 12, 24 or 48 hours. Hepatocytes were treated with rifampicin (5 µM), atorvastatin (10 µM) or rosuvastatin (10 µM).
| | Sample_growth_protocol_ch1 | Human livers from donors 089, 114, 129, 269, 270 and 271 were obtained from kidney transplant donors or from lobectomy segments resected from adult patients. Liver cells were isolated by the method of Bayliss and Skett (1996). Hepatocytes having viability better than 90% as determined by trypan blue exclusion, were used in the experiments. The cells were plated at a density of 1.7x105 cells/cm2 in plastic dishes precoated with collagen in medium described by Ferrini et al. (1998).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated from human hepatocytes using TRIzol reagent (Invitrogen, Carlsbad, CA) according to the manufacturer’s instructions. The RNA was precipitated using ethanol.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 1 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 20 ug of cRNA were hybridized for 16 hr at 45C on GHuman Genome U133 Plus 2.0 GeneChip Array (Affymetrix). GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix Scanner GCS 3000 7G .
| | Sample_data_processing | Data were normalized using GCRMA algorithm from R/Bioconductor package.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Peter,,Juvan
| | Sample_contact_phone | +386 1 543 7595
| | Sample_contact_laboratory | Center for Functional Genomics and Bio-Chips
| | Sample_contact_department | Institute of Biochemistry
| | Sample_contact_institute | Faculty of Medicine, University of Ljubljana
| | Sample_contact_address | Zaloska 4
| | Sample_contact_city | Ljubljana
| | Sample_contact_zip/postal_code | SI-1000
| | Sample_contact_country | Slovenia
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM595nnn/GSM595061/suppl/GSM595061.CEL.gz
| | Sample_series_id | GSE24187
| | Sample_series_id | GSE24188
| | Sample_data_row_count | 54675
| | |
|
GSM595062 | GPL570 |
|
Rosuvastatin 48h donor 271 [Affy]
|
Cells treated with rosuvastatin for 48h
|
tissue: Liver
cell type: hepatocyte
agent: Rosuvastatin
time: 48h
donor: d271
|
Gene expression data from human liver cells treated with rosuvastatin for 48h, donor 271.
|
| Sample_geo_accession | GSM595062
| | Sample_status | Public on Sep 05 2011
| | Sample_submission_date | Sep 17 2010
| | Sample_last_update_date | Sep 05 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | After overnight culture, the medium was replaced by serum-free medium. Forty-eight hours after serum deprivation, cells were cultured in the presence or absence of inducers for 12, 24 or 48 hours. Hepatocytes were treated with rifampicin (5 µM), atorvastatin (10 µM) or rosuvastatin (10 µM).
| | Sample_growth_protocol_ch1 | Human livers from donors 089, 114, 129, 269, 270 and 271 were obtained from kidney transplant donors or from lobectomy segments resected from adult patients. Liver cells were isolated by the method of Bayliss and Skett (1996). Hepatocytes having viability better than 90% as determined by trypan blue exclusion, were used in the experiments. The cells were plated at a density of 1.7x105 cells/cm2 in plastic dishes precoated with collagen in medium described by Ferrini et al. (1998).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated from human hepatocytes using TRIzol reagent (Invitrogen, Carlsbad, CA) according to the manufacturer’s instructions. The RNA was precipitated using ethanol.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 1 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 20 ug of cRNA were hybridized for 16 hr at 45C on GHuman Genome U133 Plus 2.0 GeneChip Array (Affymetrix). GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix Scanner GCS 3000 7G .
| | Sample_data_processing | Data were normalized using GCRMA algorithm from R/Bioconductor package.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Peter,,Juvan
| | Sample_contact_phone | +386 1 543 7595
| | Sample_contact_laboratory | Center for Functional Genomics and Bio-Chips
| | Sample_contact_department | Institute of Biochemistry
| | Sample_contact_institute | Faculty of Medicine, University of Ljubljana
| | Sample_contact_address | Zaloska 4
| | Sample_contact_city | Ljubljana
| | Sample_contact_zip/postal_code | SI-1000
| | Sample_contact_country | Slovenia
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM595nnn/GSM595062/suppl/GSM595062.CEL.gz
| | Sample_series_id | GSE24187
| | Sample_series_id | GSE24188
| | Sample_data_row_count | 54675
| | |
|
GSM595063 | GPL570 |
|
Untreated donor 089 [Affy]
|
Untreated cells
|
tissue: Liver
cell type: hepatocyte
agent: Untreated
time: 0h
donor: d089
|
Gene expression data from untreated human liver cells, donor 089.
|
| Sample_geo_accession | GSM595063
| | Sample_status | Public on Sep 05 2011
| | Sample_submission_date | Sep 17 2010
| | Sample_last_update_date | Sep 05 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | After overnight culture, the medium was replaced by serum-free medium. Forty-eight hours after serum deprivation, cells were cultured in the presence or absence of inducers for 12, 24 or 48 hours. Hepatocytes were treated with rifampicin (5 µM), atorvastatin (10 µM) or rosuvastatin (10 µM).
| | Sample_growth_protocol_ch1 | Human livers from donors 089, 114, 129, 269, 270 and 271 were obtained from kidney transplant donors or from lobectomy segments resected from adult patients. Liver cells were isolated by the method of Bayliss and Skett (1996). Hepatocytes having viability better than 90% as determined by trypan blue exclusion, were used in the experiments. The cells were plated at a density of 1.7x105 cells/cm2 in plastic dishes precoated with collagen in medium described by Ferrini et al. (1998).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated from human hepatocytes using TRIzol reagent (Invitrogen, Carlsbad, CA) according to the manufacturer’s instructions. The RNA was precipitated using ethanol.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 1 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 20 ug of cRNA were hybridized for 16 hr at 45C on GHuman Genome U133 Plus 2.0 GeneChip Array (Affymetrix). GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix Scanner GCS 3000 7G .
| | Sample_data_processing | Data were normalized using GCRMA algorithm from R/Bioconductor package.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Peter,,Juvan
| | Sample_contact_phone | +386 1 543 7595
| | Sample_contact_laboratory | Center for Functional Genomics and Bio-Chips
| | Sample_contact_department | Institute of Biochemistry
| | Sample_contact_institute | Faculty of Medicine, University of Ljubljana
| | Sample_contact_address | Zaloska 4
| | Sample_contact_city | Ljubljana
| | Sample_contact_zip/postal_code | SI-1000
| | Sample_contact_country | Slovenia
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM595nnn/GSM595063/suppl/GSM595063.CEL.gz
| | Sample_series_id | GSE24187
| | Sample_series_id | GSE24188
| | Sample_data_row_count | 54675
| | |
|
GSM595064 | GPL570 |
|
Untreated donor 114 [Affy]
|
Untreated cells
|
tissue: Liver
cell type: hepatocyte
agent: Untreated
time: 0h
donor: d114
|
Gene expression data from untreated human liver cells, donor 114.
|
| Sample_geo_accession | GSM595064
| | Sample_status | Public on Sep 05 2011
| | Sample_submission_date | Sep 17 2010
| | Sample_last_update_date | Sep 05 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | After overnight culture, the medium was replaced by serum-free medium. Forty-eight hours after serum deprivation, cells were cultured in the presence or absence of inducers for 12, 24 or 48 hours. Hepatocytes were treated with rifampicin (5 µM), atorvastatin (10 µM) or rosuvastatin (10 µM).
| | Sample_growth_protocol_ch1 | Human livers from donors 089, 114, 129, 269, 270 and 271 were obtained from kidney transplant donors or from lobectomy segments resected from adult patients. Liver cells were isolated by the method of Bayliss and Skett (1996). Hepatocytes having viability better than 90% as determined by trypan blue exclusion, were used in the experiments. The cells were plated at a density of 1.7x105 cells/cm2 in plastic dishes precoated with collagen in medium described by Ferrini et al. (1998).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated from human hepatocytes using TRIzol reagent (Invitrogen, Carlsbad, CA) according to the manufacturer’s instructions. The RNA was precipitated using ethanol.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 1 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 20 ug of cRNA were hybridized for 16 hr at 45C on GHuman Genome U133 Plus 2.0 GeneChip Array (Affymetrix). GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix Scanner GCS 3000 7G .
| | Sample_data_processing | Data were normalized using GCRMA algorithm from R/Bioconductor package.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Peter,,Juvan
| | Sample_contact_phone | +386 1 543 7595
| | Sample_contact_laboratory | Center for Functional Genomics and Bio-Chips
| | Sample_contact_department | Institute of Biochemistry
| | Sample_contact_institute | Faculty of Medicine, University of Ljubljana
| | Sample_contact_address | Zaloska 4
| | Sample_contact_city | Ljubljana
| | Sample_contact_zip/postal_code | SI-1000
| | Sample_contact_country | Slovenia
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM595nnn/GSM595064/suppl/GSM595064.CEL.gz
| | Sample_series_id | GSE24187
| | Sample_series_id | GSE24188
| | Sample_data_row_count | 54675
| | |
|
GSM595065 | GPL570 |
|
Untreated donor 129 [Affy]
|
Untreated cells
|
tissue: Liver
cell type: hepatocyte
agent: Untreated
time: 0h
donor: d129
|
Gene expression data from untreated human liver cells, donor 129.
|
| Sample_geo_accession | GSM595065
| | Sample_status | Public on Sep 05 2011
| | Sample_submission_date | Sep 17 2010
| | Sample_last_update_date | Sep 05 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | After overnight culture, the medium was replaced by serum-free medium. Forty-eight hours after serum deprivation, cells were cultured in the presence or absence of inducers for 12, 24 or 48 hours. Hepatocytes were treated with rifampicin (5 µM), atorvastatin (10 µM) or rosuvastatin (10 µM).
| | Sample_growth_protocol_ch1 | Human livers from donors 089, 114, 129, 269, 270 and 271 were obtained from kidney transplant donors or from lobectomy segments resected from adult patients. Liver cells were isolated by the method of Bayliss and Skett (1996). Hepatocytes having viability better than 90% as determined by trypan blue exclusion, were used in the experiments. The cells were plated at a density of 1.7x105 cells/cm2 in plastic dishes precoated with collagen in medium described by Ferrini et al. (1998).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated from human hepatocytes using TRIzol reagent (Invitrogen, Carlsbad, CA) according to the manufacturer’s instructions. The RNA was precipitated using ethanol.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 1 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 20 ug of cRNA were hybridized for 16 hr at 45C on GHuman Genome U133 Plus 2.0 GeneChip Array (Affymetrix). GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix Scanner GCS 3000 7G .
| | Sample_data_processing | Data were normalized using GCRMA algorithm from R/Bioconductor package.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Peter,,Juvan
| | Sample_contact_phone | +386 1 543 7595
| | Sample_contact_laboratory | Center for Functional Genomics and Bio-Chips
| | Sample_contact_department | Institute of Biochemistry
| | Sample_contact_institute | Faculty of Medicine, University of Ljubljana
| | Sample_contact_address | Zaloska 4
| | Sample_contact_city | Ljubljana
| | Sample_contact_zip/postal_code | SI-1000
| | Sample_contact_country | Slovenia
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM595nnn/GSM595065/suppl/GSM595065.CEL.gz
| | Sample_series_id | GSE24187
| | Sample_series_id | GSE24188
| | Sample_data_row_count | 54675
| | |
|
GSM595066 | GPL570 |
|
Untreated donor 269 [Affy]
|
Untreated cells
|
tissue: Liver
cell type: hepatocyte
agent: Untreated
time: 0h
donor: d269
|
Gene expression data from untreated human liver cells, donor 269.
|
| Sample_geo_accession | GSM595066
| | Sample_status | Public on Sep 05 2011
| | Sample_submission_date | Sep 17 2010
| | Sample_last_update_date | Sep 05 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | After overnight culture, the medium was replaced by serum-free medium. Forty-eight hours after serum deprivation, cells were cultured in the presence or absence of inducers for 12, 24 or 48 hours. Hepatocytes were treated with rifampicin (5 µM), atorvastatin (10 µM) or rosuvastatin (10 µM).
| | Sample_growth_protocol_ch1 | Human livers from donors 089, 114, 129, 269, 270 and 271 were obtained from kidney transplant donors or from lobectomy segments resected from adult patients. Liver cells were isolated by the method of Bayliss and Skett (1996). Hepatocytes having viability better than 90% as determined by trypan blue exclusion, were used in the experiments. The cells were plated at a density of 1.7x105 cells/cm2 in plastic dishes precoated with collagen in medium described by Ferrini et al. (1998).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated from human hepatocytes using TRIzol reagent (Invitrogen, Carlsbad, CA) according to the manufacturer’s instructions. The RNA was precipitated using ethanol.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 1 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 20 ug of cRNA were hybridized for 16 hr at 45C on GHuman Genome U133 Plus 2.0 GeneChip Array (Affymetrix). GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix Scanner GCS 3000 7G .
| | Sample_data_processing | Data were normalized using GCRMA algorithm from R/Bioconductor package.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Peter,,Juvan
| | Sample_contact_phone | +386 1 543 7595
| | Sample_contact_laboratory | Center for Functional Genomics and Bio-Chips
| | Sample_contact_department | Institute of Biochemistry
| | Sample_contact_institute | Faculty of Medicine, University of Ljubljana
| | Sample_contact_address | Zaloska 4
| | Sample_contact_city | Ljubljana
| | Sample_contact_zip/postal_code | SI-1000
| | Sample_contact_country | Slovenia
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM595nnn/GSM595066/suppl/GSM595066.CEL.gz
| | Sample_series_id | GSE24187
| | Sample_series_id | GSE24188
| | Sample_data_row_count | 54675
| | |
|
GSM595067 | GPL570 |
|
Untreated donor 270 [Affy]
|
Untreated cells
|
tissue: Liver
cell type: hepatocyte
agent: Untreated
time: 0h
donor: d270
|
Gene expression data from untreated human liver cells, donor 270.
|
| Sample_geo_accession | GSM595067
| | Sample_status | Public on Sep 05 2011
| | Sample_submission_date | Sep 17 2010
| | Sample_last_update_date | Sep 05 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | After overnight culture, the medium was replaced by serum-free medium. Forty-eight hours after serum deprivation, cells were cultured in the presence or absence of inducers for 12, 24 or 48 hours. Hepatocytes were treated with rifampicin (5 µM), atorvastatin (10 µM) or rosuvastatin (10 µM).
| | Sample_growth_protocol_ch1 | Human livers from donors 089, 114, 129, 269, 270 and 271 were obtained from kidney transplant donors or from lobectomy segments resected from adult patients. Liver cells were isolated by the method of Bayliss and Skett (1996). Hepatocytes having viability better than 90% as determined by trypan blue exclusion, were used in the experiments. The cells were plated at a density of 1.7x105 cells/cm2 in plastic dishes precoated with collagen in medium described by Ferrini et al. (1998).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated from human hepatocytes using TRIzol reagent (Invitrogen, Carlsbad, CA) according to the manufacturer’s instructions. The RNA was precipitated using ethanol.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 1 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 20 ug of cRNA were hybridized for 16 hr at 45C on GHuman Genome U133 Plus 2.0 GeneChip Array (Affymetrix). GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix Scanner GCS 3000 7G .
| | Sample_data_processing | Data were normalized using GCRMA algorithm from R/Bioconductor package.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Peter,,Juvan
| | Sample_contact_phone | +386 1 543 7595
| | Sample_contact_laboratory | Center for Functional Genomics and Bio-Chips
| | Sample_contact_department | Institute of Biochemistry
| | Sample_contact_institute | Faculty of Medicine, University of Ljubljana
| | Sample_contact_address | Zaloska 4
| | Sample_contact_city | Ljubljana
| | Sample_contact_zip/postal_code | SI-1000
| | Sample_contact_country | Slovenia
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM595nnn/GSM595067/suppl/GSM595067.CEL.gz
| | Sample_series_id | GSE24187
| | Sample_series_id | GSE24188
| | Sample_data_row_count | 54675
| | |
|
GSM595068 | GPL570 |
|
Untreated donor 271 [Affy]
|
Untreated cells
|
tissue: Liver
cell type: hepatocyte
agent: Untreated
time: 0h
donor: d271
|
Gene expression data from untreated human liver cells, donor 271.
|
| Sample_geo_accession | GSM595068
| | Sample_status | Public on Sep 05 2011
| | Sample_submission_date | Sep 17 2010
| | Sample_last_update_date | Sep 05 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Homo sapiens
| | Sample_taxid_ch1 | 9606
| | Sample_treatment_protocol_ch1 | After overnight culture, the medium was replaced by serum-free medium. Forty-eight hours after serum deprivation, cells were cultured in the presence or absence of inducers for 12, 24 or 48 hours. Hepatocytes were treated with rifampicin (5 µM), atorvastatin (10 µM) or rosuvastatin (10 µM).
| | Sample_growth_protocol_ch1 | Human livers from donors 089, 114, 129, 269, 270 and 271 were obtained from kidney transplant donors or from lobectomy segments resected from adult patients. Liver cells were isolated by the method of Bayliss and Skett (1996). Hepatocytes having viability better than 90% as determined by trypan blue exclusion, were used in the experiments. The cells were plated at a density of 1.7x105 cells/cm2 in plastic dishes precoated with collagen in medium described by Ferrini et al. (1998).
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Total RNA was isolated from human hepatocytes using TRIzol reagent (Invitrogen, Carlsbad, CA) according to the manufacturer’s instructions. The RNA was precipitated using ethanol.
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 1 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 20 ug of cRNA were hybridized for 16 hr at 45C on GHuman Genome U133 Plus 2.0 GeneChip Array (Affymetrix). GeneChips were washed and stained in the Affymetrix Fluidics Station 400.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix Scanner GCS 3000 7G .
| | Sample_data_processing | Data were normalized using GCRMA algorithm from R/Bioconductor package.
| | Sample_platform_id | GPL570
| | Sample_contact_name | Peter,,Juvan
| | Sample_contact_phone | +386 1 543 7595
| | Sample_contact_laboratory | Center for Functional Genomics and Bio-Chips
| | Sample_contact_department | Institute of Biochemistry
| | Sample_contact_institute | Faculty of Medicine, University of Ljubljana
| | Sample_contact_address | Zaloska 4
| | Sample_contact_city | Ljubljana
| | Sample_contact_zip/postal_code | SI-1000
| | Sample_contact_country | Slovenia
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM595nnn/GSM595068/suppl/GSM595068.CEL.gz
| | Sample_series_id | GSE24187
| | Sample_series_id | GSE24188
| | Sample_data_row_count | 54675
| | |
|
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