Search results for the GEO ID: GSE17388  |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM434432 | GPL85 |
|
Liver Study1 24h Vehicle_Control dose 0 - rep 1
|
Male Wistar Rat Liver
|
gender: Male
tissue: Liver
strain: Wistar
treatment: Vehicle_Control
dose amount (mg_per_kg_per_day): 0
sampling time (hours): 24
|
Gene expression data from rat liver, vehicle control
|
| Sample_geo_accession | GSM434432
| | Sample_status | Public on Jul 29 2009
| | Sample_submission_date | Jul 28 2009
| | Sample_last_update_date | Jul 28 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Eight-week-old male Wistar rats were dosed orally (gavage) once daily with the indicated dose of either test compound or vehicle (citric acid buffer) and sacrificed by carbon dioxide asphyxiation 24 hrs after the last dosing. The livers of all animals were excised immediately and a tissue slice which consisted of ca. ¼ from the bottom of the left lateral lobe was placed in RNALater (Ambion, TX, USA) at 4°C for 24 hrs to allow penetration of the tissue and then stored at -20°C until further processing for gene expression analysis.
| | Sample_growth_protocol_ch1 | All animals received ethical care as specified by Swiss law and in accordance with the 'Guide for the care and use of laboratory animals' published by the NIH. The test facility is fully accredited by the Association for Assessment and Accreditation of Laboratory Animal Care International (AAALAC). The study was based on guidelines proposed by the ICH (International Conference on Harmonisation of Technical Requirements for Registration of Pharmaceuticals for Human Use) and the CPMP (Committee for Proprietary Medicinal Products of the EMEA [European Agency for the Evaluation of Medicinal Products]) and the OECD.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNeasy extraction of total RNA was performed according to the manufacturer's instructions (Qiagen).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2 ug total RNA (Expression Analysis Technical Manual, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat U34a Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000.
| | Sample_data_processing | MAS 5 data summarization was carrried out using the simpleaffy package in Bioconductor (call.exprs function). Values were calculated on a linear scale, afterwards a quantile normalization was applied across all arrays.
| | Sample_platform_id | GPL85
| | Sample_contact_name | Adrian,B,Roth
| | Sample_contact_laboratory | 90-518a
| | Sample_contact_department | NCS
| | Sample_contact_institute | Roche
| | Sample_contact_address | Grenzacherstr 124
| | Sample_contact_city | Basel
| | Sample_contact_zip/postal_code | 4070
| | Sample_contact_country | Switzerland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM434nnn/GSM434432/suppl/GSM434432.cel.gz
| | Sample_series_id | GSE17388
| | Sample_data_row_count | 8799
| | |
|
GSM434433 | GPL85 |
|
Liver Study1 24h Vehicle_Control dose 0 - rep 2
|
Male Wistar Rat Liver
|
gender: Male
tissue: Liver
strain: Wistar
treatment: Vehicle_Control
dose amount (mg_per_kg_per_day): 0
sampling time (hours): 24
|
Gene expression data from rat liver, vehicle control
|
| Sample_geo_accession | GSM434433
| | Sample_status | Public on Jul 29 2009
| | Sample_submission_date | Jul 28 2009
| | Sample_last_update_date | Jul 28 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Eight-week-old male Wistar rats were dosed orally (gavage) once daily with the indicated dose of either test compound or vehicle (citric acid buffer) and sacrificed by carbon dioxide asphyxiation 24 hrs after the last dosing. The livers of all animals were excised immediately and a tissue slice which consisted of ca. ¼ from the bottom of the left lateral lobe was placed in RNALater (Ambion, TX, USA) at 4°C for 24 hrs to allow penetration of the tissue and then stored at -20°C until further processing for gene expression analysis.
| | Sample_growth_protocol_ch1 | All animals received ethical care as specified by Swiss law and in accordance with the 'Guide for the care and use of laboratory animals' published by the NIH. The test facility is fully accredited by the Association for Assessment and Accreditation of Laboratory Animal Care International (AAALAC). The study was based on guidelines proposed by the ICH (International Conference on Harmonisation of Technical Requirements for Registration of Pharmaceuticals for Human Use) and the CPMP (Committee for Proprietary Medicinal Products of the EMEA [European Agency for the Evaluation of Medicinal Products]) and the OECD.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNeasy extraction of total RNA was performed according to the manufacturer's instructions (Qiagen).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2 ug total RNA (Expression Analysis Technical Manual, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat U34a Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000.
| | Sample_data_processing | MAS 5 data summarization was carrried out using the simpleaffy package in Bioconductor (call.exprs function). Values were calculated on a linear scale, afterwards a quantile normalization was applied across all arrays.
| | Sample_platform_id | GPL85
| | Sample_contact_name | Adrian,B,Roth
| | Sample_contact_laboratory | 90-518a
| | Sample_contact_department | NCS
| | Sample_contact_institute | Roche
| | Sample_contact_address | Grenzacherstr 124
| | Sample_contact_city | Basel
| | Sample_contact_zip/postal_code | 4070
| | Sample_contact_country | Switzerland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM434nnn/GSM434433/suppl/GSM434433.cel.gz
| | Sample_series_id | GSE17388
| | Sample_data_row_count | 8799
| | |
|
GSM434434 | GPL85 |
|
Liver Study1 24h Vehicle_Control dose 0 - rep 3
|
Male Wistar Rat Liver
|
gender: Male
tissue: Liver
strain: Wistar
treatment: Vehicle_Control
dose amount (mg_per_kg_per_day): 0
sampling time (hours): 24
|
Gene expression data from rat liver, vehicle control
|
| Sample_geo_accession | GSM434434
| | Sample_status | Public on Jul 29 2009
| | Sample_submission_date | Jul 28 2009
| | Sample_last_update_date | Jul 28 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Eight-week-old male Wistar rats were dosed orally (gavage) once daily with the indicated dose of either test compound or vehicle (citric acid buffer) and sacrificed by carbon dioxide asphyxiation 24 hrs after the last dosing. The livers of all animals were excised immediately and a tissue slice which consisted of ca. ¼ from the bottom of the left lateral lobe was placed in RNALater (Ambion, TX, USA) at 4°C for 24 hrs to allow penetration of the tissue and then stored at -20°C until further processing for gene expression analysis.
| | Sample_growth_protocol_ch1 | All animals received ethical care as specified by Swiss law and in accordance with the 'Guide for the care and use of laboratory animals' published by the NIH. The test facility is fully accredited by the Association for Assessment and Accreditation of Laboratory Animal Care International (AAALAC). The study was based on guidelines proposed by the ICH (International Conference on Harmonisation of Technical Requirements for Registration of Pharmaceuticals for Human Use) and the CPMP (Committee for Proprietary Medicinal Products of the EMEA [European Agency for the Evaluation of Medicinal Products]) and the OECD.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNeasy extraction of total RNA was performed according to the manufacturer's instructions (Qiagen).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2 ug total RNA (Expression Analysis Technical Manual, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat U34a Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000.
| | Sample_data_processing | MAS 5 data summarization was carrried out using the simpleaffy package in Bioconductor (call.exprs function). Values were calculated on a linear scale, afterwards a quantile normalization was applied across all arrays.
| | Sample_platform_id | GPL85
| | Sample_contact_name | Adrian,B,Roth
| | Sample_contact_laboratory | 90-518a
| | Sample_contact_department | NCS
| | Sample_contact_institute | Roche
| | Sample_contact_address | Grenzacherstr 124
| | Sample_contact_city | Basel
| | Sample_contact_zip/postal_code | 4070
| | Sample_contact_country | Switzerland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM434nnn/GSM434434/suppl/GSM434434.cel.gz
| | Sample_series_id | GSE17388
| | Sample_data_row_count | 8799
| | |
|
GSM434435 | GPL85 |
|
Liver Study1 24h R1 dose 10 - rep 1
|
Male Wistar Rat Liver
|
gender: Male
tissue: Liver
strain: Wistar
treatment: R1
dose amount (mg_per_kg_per_day): 10
sampling time (hours): 24
|
Gene expression data from rat liver, treated with development compound R1
|
| Sample_geo_accession | GSM434435
| | Sample_status | Public on Jul 29 2009
| | Sample_submission_date | Jul 28 2009
| | Sample_last_update_date | Jul 28 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Eight-week-old male Wistar rats were dosed orally (gavage) once daily with the indicated dose of either test compound or vehicle (citric acid buffer) and sacrificed by carbon dioxide asphyxiation 24 hrs after the last dosing. The livers of all animals were excised immediately and a tissue slice which consisted of ca. ¼ from the bottom of the left lateral lobe was placed in RNALater (Ambion, TX, USA) at 4°C for 24 hrs to allow penetration of the tissue and then stored at -20°C until further processing for gene expression analysis.
| | Sample_growth_protocol_ch1 | All animals received ethical care as specified by Swiss law and in accordance with the 'Guide for the care and use of laboratory animals' published by the NIH. The test facility is fully accredited by the Association for Assessment and Accreditation of Laboratory Animal Care International (AAALAC). The study was based on guidelines proposed by the ICH (International Conference on Harmonisation of Technical Requirements for Registration of Pharmaceuticals for Human Use) and the CPMP (Committee for Proprietary Medicinal Products of the EMEA [European Agency for the Evaluation of Medicinal Products]) and the OECD.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNeasy extraction of total RNA was performed according to the manufacturer's instructions (Qiagen).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2 ug total RNA (Expression Analysis Technical Manual, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat U34a Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000.
| | Sample_data_processing | MAS 5 data summarization was carrried out using the simpleaffy package in Bioconductor (call.exprs function). Values were calculated on a linear scale, afterwards a quantile normalization was applied across all arrays.
| | Sample_platform_id | GPL85
| | Sample_contact_name | Adrian,B,Roth
| | Sample_contact_laboratory | 90-518a
| | Sample_contact_department | NCS
| | Sample_contact_institute | Roche
| | Sample_contact_address | Grenzacherstr 124
| | Sample_contact_city | Basel
| | Sample_contact_zip/postal_code | 4070
| | Sample_contact_country | Switzerland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM434nnn/GSM434435/suppl/GSM434435.cel.gz
| | Sample_series_id | GSE17388
| | Sample_data_row_count | 8799
| | |
|
GSM434436 | GPL85 |
|
Liver Study1 24h R1 dose 10 - rep 2
|
Male Wistar Rat Liver
|
gender: Male
tissue: Liver
strain: Wistar
treatment: R1
dose amount (mg_per_kg_per_day): 10
sampling time (hours): 24
|
Gene expression data from rat liver, treated with development compound R1
|
| Sample_geo_accession | GSM434436
| | Sample_status | Public on Jul 29 2009
| | Sample_submission_date | Jul 28 2009
| | Sample_last_update_date | Jul 28 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Eight-week-old male Wistar rats were dosed orally (gavage) once daily with the indicated dose of either test compound or vehicle (citric acid buffer) and sacrificed by carbon dioxide asphyxiation 24 hrs after the last dosing. The livers of all animals were excised immediately and a tissue slice which consisted of ca. ¼ from the bottom of the left lateral lobe was placed in RNALater (Ambion, TX, USA) at 4°C for 24 hrs to allow penetration of the tissue and then stored at -20°C until further processing for gene expression analysis.
| | Sample_growth_protocol_ch1 | All animals received ethical care as specified by Swiss law and in accordance with the 'Guide for the care and use of laboratory animals' published by the NIH. The test facility is fully accredited by the Association for Assessment and Accreditation of Laboratory Animal Care International (AAALAC). The study was based on guidelines proposed by the ICH (International Conference on Harmonisation of Technical Requirements for Registration of Pharmaceuticals for Human Use) and the CPMP (Committee for Proprietary Medicinal Products of the EMEA [European Agency for the Evaluation of Medicinal Products]) and the OECD.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNeasy extraction of total RNA was performed according to the manufacturer's instructions (Qiagen).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2 ug total RNA (Expression Analysis Technical Manual, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat U34a Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000.
| | Sample_data_processing | MAS 5 data summarization was carrried out using the simpleaffy package in Bioconductor (call.exprs function). Values were calculated on a linear scale, afterwards a quantile normalization was applied across all arrays.
| | Sample_platform_id | GPL85
| | Sample_contact_name | Adrian,B,Roth
| | Sample_contact_laboratory | 90-518a
| | Sample_contact_department | NCS
| | Sample_contact_institute | Roche
| | Sample_contact_address | Grenzacherstr 124
| | Sample_contact_city | Basel
| | Sample_contact_zip/postal_code | 4070
| | Sample_contact_country | Switzerland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM434nnn/GSM434436/suppl/GSM434436.cel.gz
| | Sample_series_id | GSE17388
| | Sample_data_row_count | 8799
| | |
|
GSM434437 | GPL85 |
|
Liver Study1 24h R1 dose 10 - rep 3
|
Male Wistar Rat Liver
|
gender: Male
tissue: Liver
strain: Wistar
treatment: R1
dose amount (mg_per_kg_per_day): 10
sampling time (hours): 24
|
Gene expression data from rat liver, treated with development compound R1
|
| Sample_geo_accession | GSM434437
| | Sample_status | Public on Jul 29 2009
| | Sample_submission_date | Jul 28 2009
| | Sample_last_update_date | Jul 28 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Eight-week-old male Wistar rats were dosed orally (gavage) once daily with the indicated dose of either test compound or vehicle (citric acid buffer) and sacrificed by carbon dioxide asphyxiation 24 hrs after the last dosing. The livers of all animals were excised immediately and a tissue slice which consisted of ca. ¼ from the bottom of the left lateral lobe was placed in RNALater (Ambion, TX, USA) at 4°C for 24 hrs to allow penetration of the tissue and then stored at -20°C until further processing for gene expression analysis.
| | Sample_growth_protocol_ch1 | All animals received ethical care as specified by Swiss law and in accordance with the 'Guide for the care and use of laboratory animals' published by the NIH. The test facility is fully accredited by the Association for Assessment and Accreditation of Laboratory Animal Care International (AAALAC). The study was based on guidelines proposed by the ICH (International Conference on Harmonisation of Technical Requirements for Registration of Pharmaceuticals for Human Use) and the CPMP (Committee for Proprietary Medicinal Products of the EMEA [European Agency for the Evaluation of Medicinal Products]) and the OECD.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNeasy extraction of total RNA was performed according to the manufacturer's instructions (Qiagen).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2 ug total RNA (Expression Analysis Technical Manual, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat U34a Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000.
| | Sample_data_processing | MAS 5 data summarization was carrried out using the simpleaffy package in Bioconductor (call.exprs function). Values were calculated on a linear scale, afterwards a quantile normalization was applied across all arrays.
| | Sample_platform_id | GPL85
| | Sample_contact_name | Adrian,B,Roth
| | Sample_contact_laboratory | 90-518a
| | Sample_contact_department | NCS
| | Sample_contact_institute | Roche
| | Sample_contact_address | Grenzacherstr 124
| | Sample_contact_city | Basel
| | Sample_contact_zip/postal_code | 4070
| | Sample_contact_country | Switzerland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM434nnn/GSM434437/suppl/GSM434437.cel.gz
| | Sample_series_id | GSE17388
| | Sample_data_row_count | 8799
| | |
|
GSM434438 | GPL85 |
|
Liver Study1 24h R1 dose 10 - rep 4
|
Male Wistar Rat Liver
|
gender: Male
tissue: Liver
strain: Wistar
treatment: R1
dose amount (mg_per_kg_per_day): 10
sampling time (hours): 24
|
Gene expression data from rat liver, treated with development compound R1
|
| Sample_geo_accession | GSM434438
| | Sample_status | Public on Jul 29 2009
| | Sample_submission_date | Jul 28 2009
| | Sample_last_update_date | Jul 28 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Eight-week-old male Wistar rats were dosed orally (gavage) once daily with the indicated dose of either test compound or vehicle (citric acid buffer) and sacrificed by carbon dioxide asphyxiation 24 hrs after the last dosing. The livers of all animals were excised immediately and a tissue slice which consisted of ca. ¼ from the bottom of the left lateral lobe was placed in RNALater (Ambion, TX, USA) at 4°C for 24 hrs to allow penetration of the tissue and then stored at -20°C until further processing for gene expression analysis.
| | Sample_growth_protocol_ch1 | All animals received ethical care as specified by Swiss law and in accordance with the 'Guide for the care and use of laboratory animals' published by the NIH. The test facility is fully accredited by the Association for Assessment and Accreditation of Laboratory Animal Care International (AAALAC). The study was based on guidelines proposed by the ICH (International Conference on Harmonisation of Technical Requirements for Registration of Pharmaceuticals for Human Use) and the CPMP (Committee for Proprietary Medicinal Products of the EMEA [European Agency for the Evaluation of Medicinal Products]) and the OECD.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNeasy extraction of total RNA was performed according to the manufacturer's instructions (Qiagen).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2 ug total RNA (Expression Analysis Technical Manual, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat U34a Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000.
| | Sample_data_processing | MAS 5 data summarization was carrried out using the simpleaffy package in Bioconductor (call.exprs function). Values were calculated on a linear scale, afterwards a quantile normalization was applied across all arrays.
| | Sample_platform_id | GPL85
| | Sample_contact_name | Adrian,B,Roth
| | Sample_contact_laboratory | 90-518a
| | Sample_contact_department | NCS
| | Sample_contact_institute | Roche
| | Sample_contact_address | Grenzacherstr 124
| | Sample_contact_city | Basel
| | Sample_contact_zip/postal_code | 4070
| | Sample_contact_country | Switzerland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM434nnn/GSM434438/suppl/GSM434438.cel.gz
| | Sample_series_id | GSE17388
| | Sample_data_row_count | 8799
| | |
|
GSM434439 | GPL85 |
|
Liver Study1 24h R1 dose 30 - rep 1
|
Male Wistar Rat Liver
|
gender: Male
tissue: Liver
strain: Wistar
treatment: R1
dose amount (mg_per_kg_per_day): 30
sampling time (hours): 24
|
Gene expression data from rat liver, treated with development compound R1
|
| Sample_geo_accession | GSM434439
| | Sample_status | Public on Jul 29 2009
| | Sample_submission_date | Jul 28 2009
| | Sample_last_update_date | Jul 28 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Eight-week-old male Wistar rats were dosed orally (gavage) once daily with the indicated dose of either test compound or vehicle (citric acid buffer) and sacrificed by carbon dioxide asphyxiation 24 hrs after the last dosing. The livers of all animals were excised immediately and a tissue slice which consisted of ca. ¼ from the bottom of the left lateral lobe was placed in RNALater (Ambion, TX, USA) at 4°C for 24 hrs to allow penetration of the tissue and then stored at -20°C until further processing for gene expression analysis.
| | Sample_growth_protocol_ch1 | All animals received ethical care as specified by Swiss law and in accordance with the 'Guide for the care and use of laboratory animals' published by the NIH. The test facility is fully accredited by the Association for Assessment and Accreditation of Laboratory Animal Care International (AAALAC). The study was based on guidelines proposed by the ICH (International Conference on Harmonisation of Technical Requirements for Registration of Pharmaceuticals for Human Use) and the CPMP (Committee for Proprietary Medicinal Products of the EMEA [European Agency for the Evaluation of Medicinal Products]) and the OECD.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNeasy extraction of total RNA was performed according to the manufacturer's instructions (Qiagen).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2 ug total RNA (Expression Analysis Technical Manual, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat U34a Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000.
| | Sample_data_processing | MAS 5 data summarization was carrried out using the simpleaffy package in Bioconductor (call.exprs function). Values were calculated on a linear scale, afterwards a quantile normalization was applied across all arrays.
| | Sample_platform_id | GPL85
| | Sample_contact_name | Adrian,B,Roth
| | Sample_contact_laboratory | 90-518a
| | Sample_contact_department | NCS
| | Sample_contact_institute | Roche
| | Sample_contact_address | Grenzacherstr 124
| | Sample_contact_city | Basel
| | Sample_contact_zip/postal_code | 4070
| | Sample_contact_country | Switzerland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM434nnn/GSM434439/suppl/GSM434439.cel.gz
| | Sample_series_id | GSE17388
| | Sample_data_row_count | 8799
| | |
|
GSM434440 | GPL85 |
|
Liver Study1 24h R1 dose 30 - rep 2
|
Male Wistar Rat Liver
|
gender: Male
tissue: Liver
strain: Wistar
treatment: R1
dose amount (mg_per_kg_per_day): 30
sampling time (hours): 24
|
Gene expression data from rat liver, treated with development compound R1
|
| Sample_geo_accession | GSM434440
| | Sample_status | Public on Jul 29 2009
| | Sample_submission_date | Jul 28 2009
| | Sample_last_update_date | Jul 28 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Eight-week-old male Wistar rats were dosed orally (gavage) once daily with the indicated dose of either test compound or vehicle (citric acid buffer) and sacrificed by carbon dioxide asphyxiation 24 hrs after the last dosing. The livers of all animals were excised immediately and a tissue slice which consisted of ca. ¼ from the bottom of the left lateral lobe was placed in RNALater (Ambion, TX, USA) at 4°C for 24 hrs to allow penetration of the tissue and then stored at -20°C until further processing for gene expression analysis.
| | Sample_growth_protocol_ch1 | All animals received ethical care as specified by Swiss law and in accordance with the 'Guide for the care and use of laboratory animals' published by the NIH. The test facility is fully accredited by the Association for Assessment and Accreditation of Laboratory Animal Care International (AAALAC). The study was based on guidelines proposed by the ICH (International Conference on Harmonisation of Technical Requirements for Registration of Pharmaceuticals for Human Use) and the CPMP (Committee for Proprietary Medicinal Products of the EMEA [European Agency for the Evaluation of Medicinal Products]) and the OECD.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNeasy extraction of total RNA was performed according to the manufacturer's instructions (Qiagen).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2 ug total RNA (Expression Analysis Technical Manual, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat U34a Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000.
| | Sample_data_processing | MAS 5 data summarization was carrried out using the simpleaffy package in Bioconductor (call.exprs function). Values were calculated on a linear scale, afterwards a quantile normalization was applied across all arrays.
| | Sample_platform_id | GPL85
| | Sample_contact_name | Adrian,B,Roth
| | Sample_contact_laboratory | 90-518a
| | Sample_contact_department | NCS
| | Sample_contact_institute | Roche
| | Sample_contact_address | Grenzacherstr 124
| | Sample_contact_city | Basel
| | Sample_contact_zip/postal_code | 4070
| | Sample_contact_country | Switzerland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM434nnn/GSM434440/suppl/GSM434440.cel.gz
| | Sample_series_id | GSE17388
| | Sample_data_row_count | 8799
| | |
|
GSM434441 | GPL85 |
|
Liver Study1 24h R1 dose 30 - rep 3
|
Male Wistar Rat Liver
|
gender: Male
tissue: Liver
strain: Wistar
treatment: R1
dose amount (mg_per_kg_per_day): 30
sampling time (hours): 24
|
Gene expression data from rat liver, treated with development compound R1
|
| Sample_geo_accession | GSM434441
| | Sample_status | Public on Jul 29 2009
| | Sample_submission_date | Jul 28 2009
| | Sample_last_update_date | Jul 28 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Eight-week-old male Wistar rats were dosed orally (gavage) once daily with the indicated dose of either test compound or vehicle (citric acid buffer) and sacrificed by carbon dioxide asphyxiation 24 hrs after the last dosing. The livers of all animals were excised immediately and a tissue slice which consisted of ca. ¼ from the bottom of the left lateral lobe was placed in RNALater (Ambion, TX, USA) at 4°C for 24 hrs to allow penetration of the tissue and then stored at -20°C until further processing for gene expression analysis.
| | Sample_growth_protocol_ch1 | All animals received ethical care as specified by Swiss law and in accordance with the 'Guide for the care and use of laboratory animals' published by the NIH. The test facility is fully accredited by the Association for Assessment and Accreditation of Laboratory Animal Care International (AAALAC). The study was based on guidelines proposed by the ICH (International Conference on Harmonisation of Technical Requirements for Registration of Pharmaceuticals for Human Use) and the CPMP (Committee for Proprietary Medicinal Products of the EMEA [European Agency for the Evaluation of Medicinal Products]) and the OECD.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNeasy extraction of total RNA was performed according to the manufacturer's instructions (Qiagen).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2 ug total RNA (Expression Analysis Technical Manual, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat U34a Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000.
| | Sample_data_processing | MAS 5 data summarization was carrried out using the simpleaffy package in Bioconductor (call.exprs function). Values were calculated on a linear scale, afterwards a quantile normalization was applied across all arrays.
| | Sample_platform_id | GPL85
| | Sample_contact_name | Adrian,B,Roth
| | Sample_contact_laboratory | 90-518a
| | Sample_contact_department | NCS
| | Sample_contact_institute | Roche
| | Sample_contact_address | Grenzacherstr 124
| | Sample_contact_city | Basel
| | Sample_contact_zip/postal_code | 4070
| | Sample_contact_country | Switzerland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM434nnn/GSM434441/suppl/GSM434441.cel.gz
| | Sample_series_id | GSE17388
| | Sample_data_row_count | 8799
| | |
|
GSM434442 | GPL85 |
|
Liver Study1 24h R1 dose 100 - rep 1
|
Male Wistar Rat Liver
|
gender: Male
tissue: Liver
strain: Wistar
treatment: R1
dose amount (mg_per_kg_per_day): 100
sampling time (hours): 24
|
Gene expression data from rat liver, treated with development compound R1
|
| Sample_geo_accession | GSM434442
| | Sample_status | Public on Jul 29 2009
| | Sample_submission_date | Jul 28 2009
| | Sample_last_update_date | Jul 28 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Eight-week-old male Wistar rats were dosed orally (gavage) once daily with the indicated dose of either test compound or vehicle (citric acid buffer) and sacrificed by carbon dioxide asphyxiation 24 hrs after the last dosing. The livers of all animals were excised immediately and a tissue slice which consisted of ca. ¼ from the bottom of the left lateral lobe was placed in RNALater (Ambion, TX, USA) at 4°C for 24 hrs to allow penetration of the tissue and then stored at -20°C until further processing for gene expression analysis.
| | Sample_growth_protocol_ch1 | All animals received ethical care as specified by Swiss law and in accordance with the 'Guide for the care and use of laboratory animals' published by the NIH. The test facility is fully accredited by the Association for Assessment and Accreditation of Laboratory Animal Care International (AAALAC). The study was based on guidelines proposed by the ICH (International Conference on Harmonisation of Technical Requirements for Registration of Pharmaceuticals for Human Use) and the CPMP (Committee for Proprietary Medicinal Products of the EMEA [European Agency for the Evaluation of Medicinal Products]) and the OECD.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNeasy extraction of total RNA was performed according to the manufacturer's instructions (Qiagen).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2 ug total RNA (Expression Analysis Technical Manual, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat U34a Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000.
| | Sample_data_processing | MAS 5 data summarization was carrried out using the simpleaffy package in Bioconductor (call.exprs function). Values were calculated on a linear scale, afterwards a quantile normalization was applied across all arrays.
| | Sample_platform_id | GPL85
| | Sample_contact_name | Adrian,B,Roth
| | Sample_contact_laboratory | 90-518a
| | Sample_contact_department | NCS
| | Sample_contact_institute | Roche
| | Sample_contact_address | Grenzacherstr 124
| | Sample_contact_city | Basel
| | Sample_contact_zip/postal_code | 4070
| | Sample_contact_country | Switzerland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM434nnn/GSM434442/suppl/GSM434442.cel.gz
| | Sample_series_id | GSE17388
| | Sample_data_row_count | 8799
| | |
|
GSM434443 | GPL85 |
|
Liver Study1 24h R1 dose 100 - rep 2
|
Male Wistar Rat Liver
|
gender: Male
tissue: Liver
strain: Wistar
treatment: R1
dose amount (mg_per_kg_per_day): 100
sampling time (hours): 24
|
Gene expression data from rat liver, treated with development compound R1
|
| Sample_geo_accession | GSM434443
| | Sample_status | Public on Jul 29 2009
| | Sample_submission_date | Jul 28 2009
| | Sample_last_update_date | Jul 28 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Eight-week-old male Wistar rats were dosed orally (gavage) once daily with the indicated dose of either test compound or vehicle (citric acid buffer) and sacrificed by carbon dioxide asphyxiation 24 hrs after the last dosing. The livers of all animals were excised immediately and a tissue slice which consisted of ca. ¼ from the bottom of the left lateral lobe was placed in RNALater (Ambion, TX, USA) at 4°C for 24 hrs to allow penetration of the tissue and then stored at -20°C until further processing for gene expression analysis.
| | Sample_growth_protocol_ch1 | All animals received ethical care as specified by Swiss law and in accordance with the 'Guide for the care and use of laboratory animals' published by the NIH. The test facility is fully accredited by the Association for Assessment and Accreditation of Laboratory Animal Care International (AAALAC). The study was based on guidelines proposed by the ICH (International Conference on Harmonisation of Technical Requirements for Registration of Pharmaceuticals for Human Use) and the CPMP (Committee for Proprietary Medicinal Products of the EMEA [European Agency for the Evaluation of Medicinal Products]) and the OECD.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNeasy extraction of total RNA was performed according to the manufacturer's instructions (Qiagen).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2 ug total RNA (Expression Analysis Technical Manual, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat U34a Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000.
| | Sample_data_processing | MAS 5 data summarization was carrried out using the simpleaffy package in Bioconductor (call.exprs function). Values were calculated on a linear scale, afterwards a quantile normalization was applied across all arrays.
| | Sample_platform_id | GPL85
| | Sample_contact_name | Adrian,B,Roth
| | Sample_contact_laboratory | 90-518a
| | Sample_contact_department | NCS
| | Sample_contact_institute | Roche
| | Sample_contact_address | Grenzacherstr 124
| | Sample_contact_city | Basel
| | Sample_contact_zip/postal_code | 4070
| | Sample_contact_country | Switzerland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM434nnn/GSM434443/suppl/GSM434443.cel.gz
| | Sample_series_id | GSE17388
| | Sample_data_row_count | 8799
| | |
|
GSM434444 | GPL85 |
|
Liver Study1 24h R1 dose 100 - rep 3
|
Male Wistar Rat Liver
|
gender: Male
tissue: Liver
strain: Wistar
treatment: R1
dose amount (mg_per_kg_per_day): 100
sampling time (hours): 24
|
Gene expression data from rat liver, treated with development compound R1
|
| Sample_geo_accession | GSM434444
| | Sample_status | Public on Jul 29 2009
| | Sample_submission_date | Jul 28 2009
| | Sample_last_update_date | Jul 28 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Eight-week-old male Wistar rats were dosed orally (gavage) once daily with the indicated dose of either test compound or vehicle (citric acid buffer) and sacrificed by carbon dioxide asphyxiation 24 hrs after the last dosing. The livers of all animals were excised immediately and a tissue slice which consisted of ca. ¼ from the bottom of the left lateral lobe was placed in RNALater (Ambion, TX, USA) at 4°C for 24 hrs to allow penetration of the tissue and then stored at -20°C until further processing for gene expression analysis.
| | Sample_growth_protocol_ch1 | All animals received ethical care as specified by Swiss law and in accordance with the 'Guide for the care and use of laboratory animals' published by the NIH. The test facility is fully accredited by the Association for Assessment and Accreditation of Laboratory Animal Care International (AAALAC). The study was based on guidelines proposed by the ICH (International Conference on Harmonisation of Technical Requirements for Registration of Pharmaceuticals for Human Use) and the CPMP (Committee for Proprietary Medicinal Products of the EMEA [European Agency for the Evaluation of Medicinal Products]) and the OECD.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNeasy extraction of total RNA was performed according to the manufacturer's instructions (Qiagen).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2 ug total RNA (Expression Analysis Technical Manual, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat U34a Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000.
| | Sample_data_processing | MAS 5 data summarization was carrried out using the simpleaffy package in Bioconductor (call.exprs function). Values were calculated on a linear scale, afterwards a quantile normalization was applied across all arrays.
| | Sample_platform_id | GPL85
| | Sample_contact_name | Adrian,B,Roth
| | Sample_contact_laboratory | 90-518a
| | Sample_contact_department | NCS
| | Sample_contact_institute | Roche
| | Sample_contact_address | Grenzacherstr 124
| | Sample_contact_city | Basel
| | Sample_contact_zip/postal_code | 4070
| | Sample_contact_country | Switzerland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM434nnn/GSM434444/suppl/GSM434444.cel.gz
| | Sample_series_id | GSE17388
| | Sample_data_row_count | 8799
| | |
|
GSM434445 | GPL85 |
|
Liver Study2 336h Vehicle_Control dose 0 - rep 1
|
Male Wistar Rat Liver
|
gender: Male
tissue: Liver
strain: Wistar
treatment: Vehicle_Control
dose amount (mg_per_kg_per_day): 0
sampling time (hours): 336
|
Gene expression data from rat liver, vehicle control
|
| Sample_geo_accession | GSM434445
| | Sample_status | Public on Jul 29 2009
| | Sample_submission_date | Jul 28 2009
| | Sample_last_update_date | Jul 28 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Eight-week-old male Wistar rats were dosed orally (gavage) once daily with the indicated dose of either test compound or vehicle (citric acid buffer) and sacrificed by carbon dioxide asphyxiation 24 hrs after the last dosing. The livers of all animals were excised immediately and a tissue slice which consisted of ca. ¼ from the bottom of the left lateral lobe was placed in RNALater (Ambion, TX, USA) at 4°C for 24 hrs to allow penetration of the tissue and then stored at -20°C until further processing for gene expression analysis.
| | Sample_growth_protocol_ch1 | All animals received ethical care as specified by Swiss law and in accordance with the 'Guide for the care and use of laboratory animals' published by the NIH. The test facility is fully accredited by the Association for Assessment and Accreditation of Laboratory Animal Care International (AAALAC). The study was based on guidelines proposed by the ICH (International Conference on Harmonisation of Technical Requirements for Registration of Pharmaceuticals for Human Use) and the CPMP (Committee for Proprietary Medicinal Products of the EMEA [European Agency for the Evaluation of Medicinal Products]) and the OECD.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNeasy extraction of total RNA was performed according to the manufacturer's instructions (Qiagen).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2 ug total RNA (Expression Analysis Technical Manual, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat U34a Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000.
| | Sample_data_processing | MAS 5 data summarization was carrried out using the simpleaffy package in Bioconductor (call.exprs function). Values were calculated on a linear scale, afterwards a quantile normalization was applied across all arrays.
| | Sample_platform_id | GPL85
| | Sample_contact_name | Adrian,B,Roth
| | Sample_contact_laboratory | 90-518a
| | Sample_contact_department | NCS
| | Sample_contact_institute | Roche
| | Sample_contact_address | Grenzacherstr 124
| | Sample_contact_city | Basel
| | Sample_contact_zip/postal_code | 4070
| | Sample_contact_country | Switzerland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM434nnn/GSM434445/suppl/GSM434445.cel.gz
| | Sample_series_id | GSE17388
| | Sample_data_row_count | 8799
| | |
|
GSM434446 | GPL85 |
|
Liver Study2 336h Vehicle_Control dose 0 - rep 2
|
Male Wistar Rat Liver
|
gender: Male
tissue: Liver
strain: Wistar
treatment: Vehicle_Control
dose amount (mg_per_kg_per_day): 0
sampling time (hours): 336
|
Gene expression data from rat liver, vehicle control
|
| Sample_geo_accession | GSM434446
| | Sample_status | Public on Jul 29 2009
| | Sample_submission_date | Jul 28 2009
| | Sample_last_update_date | Jul 28 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Eight-week-old male Wistar rats were dosed orally (gavage) once daily with the indicated dose of either test compound or vehicle (citric acid buffer) and sacrificed by carbon dioxide asphyxiation 24 hrs after the last dosing. The livers of all animals were excised immediately and a tissue slice which consisted of ca. ¼ from the bottom of the left lateral lobe was placed in RNALater (Ambion, TX, USA) at 4°C for 24 hrs to allow penetration of the tissue and then stored at -20°C until further processing for gene expression analysis.
| | Sample_growth_protocol_ch1 | All animals received ethical care as specified by Swiss law and in accordance with the 'Guide for the care and use of laboratory animals' published by the NIH. The test facility is fully accredited by the Association for Assessment and Accreditation of Laboratory Animal Care International (AAALAC). The study was based on guidelines proposed by the ICH (International Conference on Harmonisation of Technical Requirements for Registration of Pharmaceuticals for Human Use) and the CPMP (Committee for Proprietary Medicinal Products of the EMEA [European Agency for the Evaluation of Medicinal Products]) and the OECD.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNeasy extraction of total RNA was performed according to the manufacturer's instructions (Qiagen).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2 ug total RNA (Expression Analysis Technical Manual, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat U34a Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000.
| | Sample_data_processing | MAS 5 data summarization was carrried out using the simpleaffy package in Bioconductor (call.exprs function). Values were calculated on a linear scale, afterwards a quantile normalization was applied across all arrays.
| | Sample_platform_id | GPL85
| | Sample_contact_name | Adrian,B,Roth
| | Sample_contact_laboratory | 90-518a
| | Sample_contact_department | NCS
| | Sample_contact_institute | Roche
| | Sample_contact_address | Grenzacherstr 124
| | Sample_contact_city | Basel
| | Sample_contact_zip/postal_code | 4070
| | Sample_contact_country | Switzerland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM434nnn/GSM434446/suppl/GSM434446.cel.gz
| | Sample_series_id | GSE17388
| | Sample_data_row_count | 8799
| | |
|
GSM434447 | GPL85 |
|
Liver Study2 336h Vehicle_Control dose 0 - rep 3
|
Male Wistar Rat Liver
|
gender: Male
tissue: Liver
strain: Wistar
treatment: Vehicle_Control
dose amount (mg_per_kg_per_day): 0
sampling time (hours): 336
|
Gene expression data from rat liver, vehicle control
|
| Sample_geo_accession | GSM434447
| | Sample_status | Public on Jul 29 2009
| | Sample_submission_date | Jul 28 2009
| | Sample_last_update_date | Jul 28 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Eight-week-old male Wistar rats were dosed orally (gavage) once daily with the indicated dose of either test compound or vehicle (citric acid buffer) and sacrificed by carbon dioxide asphyxiation 24 hrs after the last dosing. The livers of all animals were excised immediately and a tissue slice which consisted of ca. ¼ from the bottom of the left lateral lobe was placed in RNALater (Ambion, TX, USA) at 4°C for 24 hrs to allow penetration of the tissue and then stored at -20°C until further processing for gene expression analysis.
| | Sample_growth_protocol_ch1 | All animals received ethical care as specified by Swiss law and in accordance with the 'Guide for the care and use of laboratory animals' published by the NIH. The test facility is fully accredited by the Association for Assessment and Accreditation of Laboratory Animal Care International (AAALAC). The study was based on guidelines proposed by the ICH (International Conference on Harmonisation of Technical Requirements for Registration of Pharmaceuticals for Human Use) and the CPMP (Committee for Proprietary Medicinal Products of the EMEA [European Agency for the Evaluation of Medicinal Products]) and the OECD.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNeasy extraction of total RNA was performed according to the manufacturer's instructions (Qiagen).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2 ug total RNA (Expression Analysis Technical Manual, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat U34a Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000.
| | Sample_data_processing | MAS 5 data summarization was carrried out using the simpleaffy package in Bioconductor (call.exprs function). Values were calculated on a linear scale, afterwards a quantile normalization was applied across all arrays.
| | Sample_platform_id | GPL85
| | Sample_contact_name | Adrian,B,Roth
| | Sample_contact_laboratory | 90-518a
| | Sample_contact_department | NCS
| | Sample_contact_institute | Roche
| | Sample_contact_address | Grenzacherstr 124
| | Sample_contact_city | Basel
| | Sample_contact_zip/postal_code | 4070
| | Sample_contact_country | Switzerland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM434nnn/GSM434447/suppl/GSM434447.cel.gz
| | Sample_series_id | GSE17388
| | Sample_data_row_count | 8799
| | |
|
GSM434448 | GPL85 |
|
Liver Study2 336h Vehicle_Control dose 0 - rep 4
|
Male Wistar Rat Liver
|
gender: Male
tissue: Liver
strain: Wistar
treatment: Vehicle_Control
dose amount (mg_per_kg_per_day): 0
sampling time (hours): 336
|
Gene expression data from rat liver, vehicle control
|
| Sample_geo_accession | GSM434448
| | Sample_status | Public on Jul 29 2009
| | Sample_submission_date | Jul 28 2009
| | Sample_last_update_date | Jul 28 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Eight-week-old male Wistar rats were dosed orally (gavage) once daily with the indicated dose of either test compound or vehicle (citric acid buffer) and sacrificed by carbon dioxide asphyxiation 24 hrs after the last dosing. The livers of all animals were excised immediately and a tissue slice which consisted of ca. ¼ from the bottom of the left lateral lobe was placed in RNALater (Ambion, TX, USA) at 4°C for 24 hrs to allow penetration of the tissue and then stored at -20°C until further processing for gene expression analysis.
| | Sample_growth_protocol_ch1 | All animals received ethical care as specified by Swiss law and in accordance with the 'Guide for the care and use of laboratory animals' published by the NIH. The test facility is fully accredited by the Association for Assessment and Accreditation of Laboratory Animal Care International (AAALAC). The study was based on guidelines proposed by the ICH (International Conference on Harmonisation of Technical Requirements for Registration of Pharmaceuticals for Human Use) and the CPMP (Committee for Proprietary Medicinal Products of the EMEA [European Agency for the Evaluation of Medicinal Products]) and the OECD.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNeasy extraction of total RNA was performed according to the manufacturer's instructions (Qiagen).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2 ug total RNA (Expression Analysis Technical Manual, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat U34a Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000.
| | Sample_data_processing | MAS 5 data summarization was carrried out using the simpleaffy package in Bioconductor (call.exprs function). Values were calculated on a linear scale, afterwards a quantile normalization was applied across all arrays.
| | Sample_platform_id | GPL85
| | Sample_contact_name | Adrian,B,Roth
| | Sample_contact_laboratory | 90-518a
| | Sample_contact_department | NCS
| | Sample_contact_institute | Roche
| | Sample_contact_address | Grenzacherstr 124
| | Sample_contact_city | Basel
| | Sample_contact_zip/postal_code | 4070
| | Sample_contact_country | Switzerland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM434nnn/GSM434448/suppl/GSM434448.cel.gz
| | Sample_series_id | GSE17388
| | Sample_data_row_count | 8799
| | |
|
GSM434449 | GPL85 |
|
Liver Study2 336h R1 dose 20 - rep 1
|
Male Wistar Rat Liver
|
gender: Male
tissue: Liver
strain: Wistar
treatment: R1
dose amount (mg_per_kg_per_day): 20
sampling time (hours): 336
|
Gene expression data from rat liver, treated with development compound R1
|
| Sample_geo_accession | GSM434449
| | Sample_status | Public on Jul 29 2009
| | Sample_submission_date | Jul 28 2009
| | Sample_last_update_date | Jul 28 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Eight-week-old male Wistar rats were dosed orally (gavage) once daily with the indicated dose of either test compound or vehicle (citric acid buffer) and sacrificed by carbon dioxide asphyxiation 24 hrs after the last dosing. The livers of all animals were excised immediately and a tissue slice which consisted of ca. ¼ from the bottom of the left lateral lobe was placed in RNALater (Ambion, TX, USA) at 4°C for 24 hrs to allow penetration of the tissue and then stored at -20°C until further processing for gene expression analysis.
| | Sample_growth_protocol_ch1 | All animals received ethical care as specified by Swiss law and in accordance with the 'Guide for the care and use of laboratory animals' published by the NIH. The test facility is fully accredited by the Association for Assessment and Accreditation of Laboratory Animal Care International (AAALAC). The study was based on guidelines proposed by the ICH (International Conference on Harmonisation of Technical Requirements for Registration of Pharmaceuticals for Human Use) and the CPMP (Committee for Proprietary Medicinal Products of the EMEA [European Agency for the Evaluation of Medicinal Products]) and the OECD.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNeasy extraction of total RNA was performed according to the manufacturer's instructions (Qiagen).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2 ug total RNA (Expression Analysis Technical Manual, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat U34a Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000.
| | Sample_data_processing | MAS 5 data summarization was carrried out using the simpleaffy package in Bioconductor (call.exprs function). Values were calculated on a linear scale, afterwards a quantile normalization was applied across all arrays.
| | Sample_platform_id | GPL85
| | Sample_contact_name | Adrian,B,Roth
| | Sample_contact_laboratory | 90-518a
| | Sample_contact_department | NCS
| | Sample_contact_institute | Roche
| | Sample_contact_address | Grenzacherstr 124
| | Sample_contact_city | Basel
| | Sample_contact_zip/postal_code | 4070
| | Sample_contact_country | Switzerland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM434nnn/GSM434449/suppl/GSM434449.cel.gz
| | Sample_series_id | GSE17388
| | Sample_data_row_count | 8799
| | |
|
GSM434450 | GPL85 |
|
Liver Study2 336h R1 dose 20 - rep 2
|
Male Wistar Rat Liver
|
gender: Male
tissue: Liver
strain: Wistar
treatment: R1
dose amount (mg_per_kg_per_day): 20
sampling time (hours): 336
|
Gene expression data from rat liver, treated with development compound R1
|
| Sample_geo_accession | GSM434450
| | Sample_status | Public on Jul 29 2009
| | Sample_submission_date | Jul 28 2009
| | Sample_last_update_date | Jul 28 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Eight-week-old male Wistar rats were dosed orally (gavage) once daily with the indicated dose of either test compound or vehicle (citric acid buffer) and sacrificed by carbon dioxide asphyxiation 24 hrs after the last dosing. The livers of all animals were excised immediately and a tissue slice which consisted of ca. ¼ from the bottom of the left lateral lobe was placed in RNALater (Ambion, TX, USA) at 4°C for 24 hrs to allow penetration of the tissue and then stored at -20°C until further processing for gene expression analysis.
| | Sample_growth_protocol_ch1 | All animals received ethical care as specified by Swiss law and in accordance with the 'Guide for the care and use of laboratory animals' published by the NIH. The test facility is fully accredited by the Association for Assessment and Accreditation of Laboratory Animal Care International (AAALAC). The study was based on guidelines proposed by the ICH (International Conference on Harmonisation of Technical Requirements for Registration of Pharmaceuticals for Human Use) and the CPMP (Committee for Proprietary Medicinal Products of the EMEA [European Agency for the Evaluation of Medicinal Products]) and the OECD.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNeasy extraction of total RNA was performed according to the manufacturer's instructions (Qiagen).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2 ug total RNA (Expression Analysis Technical Manual, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat U34a Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000.
| | Sample_data_processing | MAS 5 data summarization was carrried out using the simpleaffy package in Bioconductor (call.exprs function). Values were calculated on a linear scale, afterwards a quantile normalization was applied across all arrays.
| | Sample_platform_id | GPL85
| | Sample_contact_name | Adrian,B,Roth
| | Sample_contact_laboratory | 90-518a
| | Sample_contact_department | NCS
| | Sample_contact_institute | Roche
| | Sample_contact_address | Grenzacherstr 124
| | Sample_contact_city | Basel
| | Sample_contact_zip/postal_code | 4070
| | Sample_contact_country | Switzerland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM434nnn/GSM434450/suppl/GSM434450.cel.gz
| | Sample_series_id | GSE17388
| | Sample_data_row_count | 8799
| | |
|
GSM434451 | GPL85 |
|
Liver Study2 336h R1 dose 20 - rep 3
|
Male Wistar Rat Liver
|
gender: Male
tissue: Liver
strain: Wistar
treatment: R1
dose amount (mg_per_kg_per_day): 20
sampling time (hours): 336
|
Gene expression data from rat liver, treated with development compound R1
|
| Sample_geo_accession | GSM434451
| | Sample_status | Public on Jul 29 2009
| | Sample_submission_date | Jul 28 2009
| | Sample_last_update_date | Jul 28 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Eight-week-old male Wistar rats were dosed orally (gavage) once daily with the indicated dose of either test compound or vehicle (citric acid buffer) and sacrificed by carbon dioxide asphyxiation 24 hrs after the last dosing. The livers of all animals were excised immediately and a tissue slice which consisted of ca. ¼ from the bottom of the left lateral lobe was placed in RNALater (Ambion, TX, USA) at 4°C for 24 hrs to allow penetration of the tissue and then stored at -20°C until further processing for gene expression analysis.
| | Sample_growth_protocol_ch1 | All animals received ethical care as specified by Swiss law and in accordance with the 'Guide for the care and use of laboratory animals' published by the NIH. The test facility is fully accredited by the Association for Assessment and Accreditation of Laboratory Animal Care International (AAALAC). The study was based on guidelines proposed by the ICH (International Conference on Harmonisation of Technical Requirements for Registration of Pharmaceuticals for Human Use) and the CPMP (Committee for Proprietary Medicinal Products of the EMEA [European Agency for the Evaluation of Medicinal Products]) and the OECD.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNeasy extraction of total RNA was performed according to the manufacturer's instructions (Qiagen).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2 ug total RNA (Expression Analysis Technical Manual, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat U34a Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000.
| | Sample_data_processing | MAS 5 data summarization was carrried out using the simpleaffy package in Bioconductor (call.exprs function). Values were calculated on a linear scale, afterwards a quantile normalization was applied across all arrays.
| | Sample_platform_id | GPL85
| | Sample_contact_name | Adrian,B,Roth
| | Sample_contact_laboratory | 90-518a
| | Sample_contact_department | NCS
| | Sample_contact_institute | Roche
| | Sample_contact_address | Grenzacherstr 124
| | Sample_contact_city | Basel
| | Sample_contact_zip/postal_code | 4070
| | Sample_contact_country | Switzerland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM434nnn/GSM434451/suppl/GSM434451.cel.gz
| | Sample_series_id | GSE17388
| | Sample_data_row_count | 8799
| | |
|
GSM434452 | GPL85 |
|
Liver Study2 336h R1 dose 20 - rep 4
|
Male Wistar Rat Liver
|
gender: Male
tissue: Liver
strain: Wistar
treatment: R1
dose amount (mg_per_kg_per_day): 20
sampling time (hours): 336
|
Gene expression data from rat liver, treated with development compound R1
|
| Sample_geo_accession | GSM434452
| | Sample_status | Public on Jul 29 2009
| | Sample_submission_date | Jul 28 2009
| | Sample_last_update_date | Jul 28 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Eight-week-old male Wistar rats were dosed orally (gavage) once daily with the indicated dose of either test compound or vehicle (citric acid buffer) and sacrificed by carbon dioxide asphyxiation 24 hrs after the last dosing. The livers of all animals were excised immediately and a tissue slice which consisted of ca. ¼ from the bottom of the left lateral lobe was placed in RNALater (Ambion, TX, USA) at 4°C for 24 hrs to allow penetration of the tissue and then stored at -20°C until further processing for gene expression analysis.
| | Sample_growth_protocol_ch1 | All animals received ethical care as specified by Swiss law and in accordance with the 'Guide for the care and use of laboratory animals' published by the NIH. The test facility is fully accredited by the Association for Assessment and Accreditation of Laboratory Animal Care International (AAALAC). The study was based on guidelines proposed by the ICH (International Conference on Harmonisation of Technical Requirements for Registration of Pharmaceuticals for Human Use) and the CPMP (Committee for Proprietary Medicinal Products of the EMEA [European Agency for the Evaluation of Medicinal Products]) and the OECD.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNeasy extraction of total RNA was performed according to the manufacturer's instructions (Qiagen).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2 ug total RNA (Expression Analysis Technical Manual, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat U34a Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000.
| | Sample_data_processing | MAS 5 data summarization was carrried out using the simpleaffy package in Bioconductor (call.exprs function). Values were calculated on a linear scale, afterwards a quantile normalization was applied across all arrays.
| | Sample_platform_id | GPL85
| | Sample_contact_name | Adrian,B,Roth
| | Sample_contact_laboratory | 90-518a
| | Sample_contact_department | NCS
| | Sample_contact_institute | Roche
| | Sample_contact_address | Grenzacherstr 124
| | Sample_contact_city | Basel
| | Sample_contact_zip/postal_code | 4070
| | Sample_contact_country | Switzerland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM434nnn/GSM434452/suppl/GSM434452.cel.gz
| | Sample_series_id | GSE17388
| | Sample_data_row_count | 8799
| | |
|
GSM434453 | GPL85 |
|
Liver Study2 336h R1 dose 20 - rep 5
|
Male Wistar Rat Liver
|
gender: Male
tissue: Liver
strain: Wistar
treatment: R1
dose amount (mg_per_kg_per_day): 20
sampling time (hours): 336
|
Gene expression data from rat liver, treated with development compound R1
|
| Sample_geo_accession | GSM434453
| | Sample_status | Public on Jul 29 2009
| | Sample_submission_date | Jul 28 2009
| | Sample_last_update_date | Jul 28 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Eight-week-old male Wistar rats were dosed orally (gavage) once daily with the indicated dose of either test compound or vehicle (citric acid buffer) and sacrificed by carbon dioxide asphyxiation 24 hrs after the last dosing. The livers of all animals were excised immediately and a tissue slice which consisted of ca. ¼ from the bottom of the left lateral lobe was placed in RNALater (Ambion, TX, USA) at 4°C for 24 hrs to allow penetration of the tissue and then stored at -20°C until further processing for gene expression analysis.
| | Sample_growth_protocol_ch1 | All animals received ethical care as specified by Swiss law and in accordance with the 'Guide for the care and use of laboratory animals' published by the NIH. The test facility is fully accredited by the Association for Assessment and Accreditation of Laboratory Animal Care International (AAALAC). The study was based on guidelines proposed by the ICH (International Conference on Harmonisation of Technical Requirements for Registration of Pharmaceuticals for Human Use) and the CPMP (Committee for Proprietary Medicinal Products of the EMEA [European Agency for the Evaluation of Medicinal Products]) and the OECD.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNeasy extraction of total RNA was performed according to the manufacturer's instructions (Qiagen).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2 ug total RNA (Expression Analysis Technical Manual, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat U34a Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000.
| | Sample_data_processing | MAS 5 data summarization was carrried out using the simpleaffy package in Bioconductor (call.exprs function). Values were calculated on a linear scale, afterwards a quantile normalization was applied across all arrays.
| | Sample_platform_id | GPL85
| | Sample_contact_name | Adrian,B,Roth
| | Sample_contact_laboratory | 90-518a
| | Sample_contact_department | NCS
| | Sample_contact_institute | Roche
| | Sample_contact_address | Grenzacherstr 124
| | Sample_contact_city | Basel
| | Sample_contact_zip/postal_code | 4070
| | Sample_contact_country | Switzerland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM434nnn/GSM434453/suppl/GSM434453.cel.gz
| | Sample_series_id | GSE17388
| | Sample_data_row_count | 8799
| | |
|
GSM434454 | GPL85 |
|
Liver Study2 336h R1 dose 100 - rep 1
|
Male Wistar Rat Liver
|
gender: Male
tissue: Liver
strain: Wistar
treatment: R1
dose amount (mg_per_kg_per_day): 100
sampling time (hours): 336
|
Gene expression data from rat liver, treated with development compound R1
|
| Sample_geo_accession | GSM434454
| | Sample_status | Public on Jul 29 2009
| | Sample_submission_date | Jul 28 2009
| | Sample_last_update_date | Jul 28 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Eight-week-old male Wistar rats were dosed orally (gavage) once daily with the indicated dose of either test compound or vehicle (citric acid buffer) and sacrificed by carbon dioxide asphyxiation 24 hrs after the last dosing. The livers of all animals were excised immediately and a tissue slice which consisted of ca. ¼ from the bottom of the left lateral lobe was placed in RNALater (Ambion, TX, USA) at 4°C for 24 hrs to allow penetration of the tissue and then stored at -20°C until further processing for gene expression analysis.
| | Sample_growth_protocol_ch1 | All animals received ethical care as specified by Swiss law and in accordance with the 'Guide for the care and use of laboratory animals' published by the NIH. The test facility is fully accredited by the Association for Assessment and Accreditation of Laboratory Animal Care International (AAALAC). The study was based on guidelines proposed by the ICH (International Conference on Harmonisation of Technical Requirements for Registration of Pharmaceuticals for Human Use) and the CPMP (Committee for Proprietary Medicinal Products of the EMEA [European Agency for the Evaluation of Medicinal Products]) and the OECD.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNeasy extraction of total RNA was performed according to the manufacturer's instructions (Qiagen).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2 ug total RNA (Expression Analysis Technical Manual, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat U34a Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000.
| | Sample_data_processing | MAS 5 data summarization was carrried out using the simpleaffy package in Bioconductor (call.exprs function). Values were calculated on a linear scale, afterwards a quantile normalization was applied across all arrays.
| | Sample_platform_id | GPL85
| | Sample_contact_name | Adrian,B,Roth
| | Sample_contact_laboratory | 90-518a
| | Sample_contact_department | NCS
| | Sample_contact_institute | Roche
| | Sample_contact_address | Grenzacherstr 124
| | Sample_contact_city | Basel
| | Sample_contact_zip/postal_code | 4070
| | Sample_contact_country | Switzerland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM434nnn/GSM434454/suppl/GSM434454.cel.gz
| | Sample_series_id | GSE17388
| | Sample_data_row_count | 8799
| | |
|
GSM434455 | GPL85 |
|
Liver Study2 336h R1 dose 100 - rep 2
|
Male Wistar Rat Liver
|
gender: Male
tissue: Liver
strain: Wistar
treatment: R1
dose amount (mg_per_kg_per_day): 100
sampling time (hours): 336
|
Gene expression data from rat liver, treated with development compound R1
|
| Sample_geo_accession | GSM434455
| | Sample_status | Public on Jul 29 2009
| | Sample_submission_date | Jul 28 2009
| | Sample_last_update_date | Jul 28 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Eight-week-old male Wistar rats were dosed orally (gavage) once daily with the indicated dose of either test compound or vehicle (citric acid buffer) and sacrificed by carbon dioxide asphyxiation 24 hrs after the last dosing. The livers of all animals were excised immediately and a tissue slice which consisted of ca. ¼ from the bottom of the left lateral lobe was placed in RNALater (Ambion, TX, USA) at 4°C for 24 hrs to allow penetration of the tissue and then stored at -20°C until further processing for gene expression analysis.
| | Sample_growth_protocol_ch1 | All animals received ethical care as specified by Swiss law and in accordance with the 'Guide for the care and use of laboratory animals' published by the NIH. The test facility is fully accredited by the Association for Assessment and Accreditation of Laboratory Animal Care International (AAALAC). The study was based on guidelines proposed by the ICH (International Conference on Harmonisation of Technical Requirements for Registration of Pharmaceuticals for Human Use) and the CPMP (Committee for Proprietary Medicinal Products of the EMEA [European Agency for the Evaluation of Medicinal Products]) and the OECD.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNeasy extraction of total RNA was performed according to the manufacturer's instructions (Qiagen).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2 ug total RNA (Expression Analysis Technical Manual, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat U34a Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000.
| | Sample_data_processing | MAS 5 data summarization was carrried out using the simpleaffy package in Bioconductor (call.exprs function). Values were calculated on a linear scale, afterwards a quantile normalization was applied across all arrays.
| | Sample_platform_id | GPL85
| | Sample_contact_name | Adrian,B,Roth
| | Sample_contact_laboratory | 90-518a
| | Sample_contact_department | NCS
| | Sample_contact_institute | Roche
| | Sample_contact_address | Grenzacherstr 124
| | Sample_contact_city | Basel
| | Sample_contact_zip/postal_code | 4070
| | Sample_contact_country | Switzerland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM434nnn/GSM434455/suppl/GSM434455.cel.gz
| | Sample_series_id | GSE17388
| | Sample_data_row_count | 8799
| | |
|
GSM434456 | GPL85 |
|
Liver Study2 336h R1 dose 100 - rep 3
|
Male Wistar Rat Liver
|
gender: Male
tissue: Liver
strain: Wistar
treatment: R1
dose amount (mg_per_kg_per_day): 100
sampling time (hours): 336
|
Gene expression data from rat liver, treated with development compound R1
|
| Sample_geo_accession | GSM434456
| | Sample_status | Public on Jul 29 2009
| | Sample_submission_date | Jul 28 2009
| | Sample_last_update_date | Jul 28 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Eight-week-old male Wistar rats were dosed orally (gavage) once daily with the indicated dose of either test compound or vehicle (citric acid buffer) and sacrificed by carbon dioxide asphyxiation 24 hrs after the last dosing. The livers of all animals were excised immediately and a tissue slice which consisted of ca. ¼ from the bottom of the left lateral lobe was placed in RNALater (Ambion, TX, USA) at 4°C for 24 hrs to allow penetration of the tissue and then stored at -20°C until further processing for gene expression analysis.
| | Sample_growth_protocol_ch1 | All animals received ethical care as specified by Swiss law and in accordance with the 'Guide for the care and use of laboratory animals' published by the NIH. The test facility is fully accredited by the Association for Assessment and Accreditation of Laboratory Animal Care International (AAALAC). The study was based on guidelines proposed by the ICH (International Conference on Harmonisation of Technical Requirements for Registration of Pharmaceuticals for Human Use) and the CPMP (Committee for Proprietary Medicinal Products of the EMEA [European Agency for the Evaluation of Medicinal Products]) and the OECD.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNeasy extraction of total RNA was performed according to the manufacturer's instructions (Qiagen).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2 ug total RNA (Expression Analysis Technical Manual, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat U34a Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000.
| | Sample_data_processing | MAS 5 data summarization was carrried out using the simpleaffy package in Bioconductor (call.exprs function). Values were calculated on a linear scale, afterwards a quantile normalization was applied across all arrays.
| | Sample_platform_id | GPL85
| | Sample_contact_name | Adrian,B,Roth
| | Sample_contact_laboratory | 90-518a
| | Sample_contact_department | NCS
| | Sample_contact_institute | Roche
| | Sample_contact_address | Grenzacherstr 124
| | Sample_contact_city | Basel
| | Sample_contact_zip/postal_code | 4070
| | Sample_contact_country | Switzerland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM434nnn/GSM434456/suppl/GSM434456.cel.gz
| | Sample_series_id | GSE17388
| | Sample_data_row_count | 8799
| | |
|
GSM434457 | GPL85 |
|
Liver Study2 336h R1 dose 100 - rep 4
|
Male Wistar Rat Liver
|
gender: Male
tissue: Liver
strain: Wistar
treatment: R1
dose amount (mg_per_kg_per_day): 100
sampling time (hours): 336
|
Gene expression data from rat liver, treated with development compound R1
|
| Sample_geo_accession | GSM434457
| | Sample_status | Public on Jul 29 2009
| | Sample_submission_date | Jul 28 2009
| | Sample_last_update_date | Jul 28 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Eight-week-old male Wistar rats were dosed orally (gavage) once daily with the indicated dose of either test compound or vehicle (citric acid buffer) and sacrificed by carbon dioxide asphyxiation 24 hrs after the last dosing. The livers of all animals were excised immediately and a tissue slice which consisted of ca. ¼ from the bottom of the left lateral lobe was placed in RNALater (Ambion, TX, USA) at 4°C for 24 hrs to allow penetration of the tissue and then stored at -20°C until further processing for gene expression analysis.
| | Sample_growth_protocol_ch1 | All animals received ethical care as specified by Swiss law and in accordance with the 'Guide for the care and use of laboratory animals' published by the NIH. The test facility is fully accredited by the Association for Assessment and Accreditation of Laboratory Animal Care International (AAALAC). The study was based on guidelines proposed by the ICH (International Conference on Harmonisation of Technical Requirements for Registration of Pharmaceuticals for Human Use) and the CPMP (Committee for Proprietary Medicinal Products of the EMEA [European Agency for the Evaluation of Medicinal Products]) and the OECD.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNeasy extraction of total RNA was performed according to the manufacturer's instructions (Qiagen).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2 ug total RNA (Expression Analysis Technical Manual, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat U34a Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000.
| | Sample_data_processing | MAS 5 data summarization was carrried out using the simpleaffy package in Bioconductor (call.exprs function). Values were calculated on a linear scale, afterwards a quantile normalization was applied across all arrays.
| | Sample_platform_id | GPL85
| | Sample_contact_name | Adrian,B,Roth
| | Sample_contact_laboratory | 90-518a
| | Sample_contact_department | NCS
| | Sample_contact_institute | Roche
| | Sample_contact_address | Grenzacherstr 124
| | Sample_contact_city | Basel
| | Sample_contact_zip/postal_code | 4070
| | Sample_contact_country | Switzerland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM434nnn/GSM434457/suppl/GSM434457.cel.gz
| | Sample_series_id | GSE17388
| | Sample_data_row_count | 8799
| | |
|
GSM434458 | GPL85 |
|
Liver Study4 24h Vehicle_Control dose 0 - rep 1
|
Male Wistar Rat Liver
|
gender: Male
tissue: Liver
strain: Wistar
treatment: Vehicle_Control
dose amount (mg_per_kg_per_day): 0
sampling time (hours): 24
|
Gene expression data from rat liver, vehicle control
|
| Sample_geo_accession | GSM434458
| | Sample_status | Public on Jul 29 2009
| | Sample_submission_date | Jul 28 2009
| | Sample_last_update_date | Jul 28 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Eight-week-old male Wistar rats were dosed orally (gavage) once daily with the indicated dose of either test compound or vehicle (citric acid buffer) and sacrificed by carbon dioxide asphyxiation 24 hrs after the last dosing. The livers of all animals were excised immediately and a tissue slice which consisted of ca. ¼ from the bottom of the left lateral lobe was placed in RNALater (Ambion, TX, USA) at 4°C for 24 hrs to allow penetration of the tissue and then stored at -20°C until further processing for gene expression analysis.
| | Sample_growth_protocol_ch1 | All animals received ethical care as specified by Swiss law and in accordance with the 'Guide for the care and use of laboratory animals' published by the NIH. The test facility is fully accredited by the Association for Assessment and Accreditation of Laboratory Animal Care International (AAALAC). The study was based on guidelines proposed by the ICH (International Conference on Harmonisation of Technical Requirements for Registration of Pharmaceuticals for Human Use) and the CPMP (Committee for Proprietary Medicinal Products of the EMEA [European Agency for the Evaluation of Medicinal Products]) and the OECD.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNeasy extraction of total RNA was performed according to the manufacturer's instructions (Qiagen).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2 ug total RNA (Expression Analysis Technical Manual, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat U34a Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000.
| | Sample_data_processing | MAS 5 data summarization was carrried out using the simpleaffy package in Bioconductor (call.exprs function). Values were calculated on a linear scale, afterwards a quantile normalization was applied across all arrays.
| | Sample_platform_id | GPL85
| | Sample_contact_name | Adrian,B,Roth
| | Sample_contact_laboratory | 90-518a
| | Sample_contact_department | NCS
| | Sample_contact_institute | Roche
| | Sample_contact_address | Grenzacherstr 124
| | Sample_contact_city | Basel
| | Sample_contact_zip/postal_code | 4070
| | Sample_contact_country | Switzerland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM434nnn/GSM434458/suppl/GSM434458.cel.gz
| | Sample_series_id | GSE17388
| | Sample_data_row_count | 8799
| | |
|
GSM434459 | GPL85 |
|
Liver Study4 24h Vehicle_Control dose 0 - rep 2
|
Male Wistar Rat Liver
|
gender: Male
tissue: Liver
strain: Wistar
treatment: Vehicle_Control
dose amount (mg_per_kg_per_day): 0
sampling time (hours): 24
|
Gene expression data from rat liver, vehicle control
|
| Sample_geo_accession | GSM434459
| | Sample_status | Public on Jul 29 2009
| | Sample_submission_date | Jul 28 2009
| | Sample_last_update_date | Jul 28 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Eight-week-old male Wistar rats were dosed orally (gavage) once daily with the indicated dose of either test compound or vehicle (citric acid buffer) and sacrificed by carbon dioxide asphyxiation 24 hrs after the last dosing. The livers of all animals were excised immediately and a tissue slice which consisted of ca. ¼ from the bottom of the left lateral lobe was placed in RNALater (Ambion, TX, USA) at 4°C for 24 hrs to allow penetration of the tissue and then stored at -20°C until further processing for gene expression analysis.
| | Sample_growth_protocol_ch1 | All animals received ethical care as specified by Swiss law and in accordance with the 'Guide for the care and use of laboratory animals' published by the NIH. The test facility is fully accredited by the Association for Assessment and Accreditation of Laboratory Animal Care International (AAALAC). The study was based on guidelines proposed by the ICH (International Conference on Harmonisation of Technical Requirements for Registration of Pharmaceuticals for Human Use) and the CPMP (Committee for Proprietary Medicinal Products of the EMEA [European Agency for the Evaluation of Medicinal Products]) and the OECD.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNeasy extraction of total RNA was performed according to the manufacturer's instructions (Qiagen).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2 ug total RNA (Expression Analysis Technical Manual, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat U34a Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000.
| | Sample_data_processing | MAS 5 data summarization was carrried out using the simpleaffy package in Bioconductor (call.exprs function). Values were calculated on a linear scale, afterwards a quantile normalization was applied across all arrays.
| | Sample_platform_id | GPL85
| | Sample_contact_name | Adrian,B,Roth
| | Sample_contact_laboratory | 90-518a
| | Sample_contact_department | NCS
| | Sample_contact_institute | Roche
| | Sample_contact_address | Grenzacherstr 124
| | Sample_contact_city | Basel
| | Sample_contact_zip/postal_code | 4070
| | Sample_contact_country | Switzerland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM434nnn/GSM434459/suppl/GSM434459.cel.gz
| | Sample_series_id | GSE17388
| | Sample_data_row_count | 8799
| | |
|
GSM434460 | GPL85 |
|
Liver Study4 24h Vehicle_Control dose 0 - rep 3
|
Male Wistar Rat Liver
|
gender: Male
tissue: Liver
strain: Wistar
treatment: Vehicle_Control
dose amount (mg_per_kg_per_day): 0
sampling time (hours): 24
|
Gene expression data from rat liver, vehicle control
|
| Sample_geo_accession | GSM434460
| | Sample_status | Public on Jul 29 2009
| | Sample_submission_date | Jul 28 2009
| | Sample_last_update_date | Jul 28 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Eight-week-old male Wistar rats were dosed orally (gavage) once daily with the indicated dose of either test compound or vehicle (citric acid buffer) and sacrificed by carbon dioxide asphyxiation 24 hrs after the last dosing. The livers of all animals were excised immediately and a tissue slice which consisted of ca. ¼ from the bottom of the left lateral lobe was placed in RNALater (Ambion, TX, USA) at 4°C for 24 hrs to allow penetration of the tissue and then stored at -20°C until further processing for gene expression analysis.
| | Sample_growth_protocol_ch1 | All animals received ethical care as specified by Swiss law and in accordance with the 'Guide for the care and use of laboratory animals' published by the NIH. The test facility is fully accredited by the Association for Assessment and Accreditation of Laboratory Animal Care International (AAALAC). The study was based on guidelines proposed by the ICH (International Conference on Harmonisation of Technical Requirements for Registration of Pharmaceuticals for Human Use) and the CPMP (Committee for Proprietary Medicinal Products of the EMEA [European Agency for the Evaluation of Medicinal Products]) and the OECD.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNeasy extraction of total RNA was performed according to the manufacturer's instructions (Qiagen).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2 ug total RNA (Expression Analysis Technical Manual, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat U34a Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000.
| | Sample_data_processing | MAS 5 data summarization was carrried out using the simpleaffy package in Bioconductor (call.exprs function). Values were calculated on a linear scale, afterwards a quantile normalization was applied across all arrays.
| | Sample_platform_id | GPL85
| | Sample_contact_name | Adrian,B,Roth
| | Sample_contact_laboratory | 90-518a
| | Sample_contact_department | NCS
| | Sample_contact_institute | Roche
| | Sample_contact_address | Grenzacherstr 124
| | Sample_contact_city | Basel
| | Sample_contact_zip/postal_code | 4070
| | Sample_contact_country | Switzerland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM434nnn/GSM434460/suppl/GSM434460.cel.gz
| | Sample_series_id | GSE17388
| | Sample_data_row_count | 8799
| | |
|
GSM434461 | GPL85 |
|
Liver Study4 24h Vehicle_Control dose 0 - rep 4
|
Male Wistar Rat Liver
|
gender: Male
tissue: Liver
strain: Wistar
treatment: Vehicle_Control
dose amount (mg_per_kg_per_day): 0
sampling time (hours): 24
|
Gene expression data from rat liver, vehicle control
|
| Sample_geo_accession | GSM434461
| | Sample_status | Public on Jul 29 2009
| | Sample_submission_date | Jul 28 2009
| | Sample_last_update_date | Jul 28 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Eight-week-old male Wistar rats were dosed orally (gavage) once daily with the indicated dose of either test compound or vehicle (citric acid buffer) and sacrificed by carbon dioxide asphyxiation 24 hrs after the last dosing. The livers of all animals were excised immediately and a tissue slice which consisted of ca. ¼ from the bottom of the left lateral lobe was placed in RNALater (Ambion, TX, USA) at 4°C for 24 hrs to allow penetration of the tissue and then stored at -20°C until further processing for gene expression analysis.
| | Sample_growth_protocol_ch1 | All animals received ethical care as specified by Swiss law and in accordance with the 'Guide for the care and use of laboratory animals' published by the NIH. The test facility is fully accredited by the Association for Assessment and Accreditation of Laboratory Animal Care International (AAALAC). The study was based on guidelines proposed by the ICH (International Conference on Harmonisation of Technical Requirements for Registration of Pharmaceuticals for Human Use) and the CPMP (Committee for Proprietary Medicinal Products of the EMEA [European Agency for the Evaluation of Medicinal Products]) and the OECD.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNeasy extraction of total RNA was performed according to the manufacturer's instructions (Qiagen).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2 ug total RNA (Expression Analysis Technical Manual, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat U34a Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000.
| | Sample_data_processing | MAS 5 data summarization was carrried out using the simpleaffy package in Bioconductor (call.exprs function). Values were calculated on a linear scale, afterwards a quantile normalization was applied across all arrays.
| | Sample_platform_id | GPL85
| | Sample_contact_name | Adrian,B,Roth
| | Sample_contact_laboratory | 90-518a
| | Sample_contact_department | NCS
| | Sample_contact_institute | Roche
| | Sample_contact_address | Grenzacherstr 124
| | Sample_contact_city | Basel
| | Sample_contact_zip/postal_code | 4070
| | Sample_contact_country | Switzerland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM434nnn/GSM434461/suppl/GSM434461.cel.gz
| | Sample_series_id | GSE17388
| | Sample_data_row_count | 8799
| | |
|
GSM434462 | GPL85 |
|
Liver Study4 24h R2 dose 300 - rep 1
|
Male Wistar Rat Liver
|
gender: Male
tissue: Liver
strain: Wistar
treatment: R2
dose amount (mg_per_kg_per_day): 300
sampling time (hours): 24
|
Gene expression data from rat liver, treated with development compound R2
|
| Sample_geo_accession | GSM434462
| | Sample_status | Public on Jul 29 2009
| | Sample_submission_date | Jul 28 2009
| | Sample_last_update_date | Jul 28 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Eight-week-old male Wistar rats were dosed orally (gavage) once daily with the indicated dose of either test compound or vehicle (citric acid buffer) and sacrificed by carbon dioxide asphyxiation 24 hrs after the last dosing. The livers of all animals were excised immediately and a tissue slice which consisted of ca. ¼ from the bottom of the left lateral lobe was placed in RNALater (Ambion, TX, USA) at 4°C for 24 hrs to allow penetration of the tissue and then stored at -20°C until further processing for gene expression analysis.
| | Sample_growth_protocol_ch1 | All animals received ethical care as specified by Swiss law and in accordance with the 'Guide for the care and use of laboratory animals' published by the NIH. The test facility is fully accredited by the Association for Assessment and Accreditation of Laboratory Animal Care International (AAALAC). The study was based on guidelines proposed by the ICH (International Conference on Harmonisation of Technical Requirements for Registration of Pharmaceuticals for Human Use) and the CPMP (Committee for Proprietary Medicinal Products of the EMEA [European Agency for the Evaluation of Medicinal Products]) and the OECD.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNeasy extraction of total RNA was performed according to the manufacturer's instructions (Qiagen).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2 ug total RNA (Expression Analysis Technical Manual, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat U34a Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000.
| | Sample_data_processing | MAS 5 data summarization was carrried out using the simpleaffy package in Bioconductor (call.exprs function). Values were calculated on a linear scale, afterwards a quantile normalization was applied across all arrays.
| | Sample_platform_id | GPL85
| | Sample_contact_name | Adrian,B,Roth
| | Sample_contact_laboratory | 90-518a
| | Sample_contact_department | NCS
| | Sample_contact_institute | Roche
| | Sample_contact_address | Grenzacherstr 124
| | Sample_contact_city | Basel
| | Sample_contact_zip/postal_code | 4070
| | Sample_contact_country | Switzerland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM434nnn/GSM434462/suppl/GSM434462.cel.gz
| | Sample_series_id | GSE17388
| | Sample_data_row_count | 8799
| | |
|
GSM434463 | GPL85 |
|
Liver Study4 24h R2 dose 300 - rep 2
|
Male Wistar Rat Liver
|
gender: Male
tissue: Liver
strain: Wistar
treatment: R2
dose amount (mg_per_kg_per_day): 300
sampling time (hours): 24
|
Gene expression data from rat liver, treated with development compound R2
|
| Sample_geo_accession | GSM434463
| | Sample_status | Public on Jul 29 2009
| | Sample_submission_date | Jul 28 2009
| | Sample_last_update_date | Jul 28 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Eight-week-old male Wistar rats were dosed orally (gavage) once daily with the indicated dose of either test compound or vehicle (citric acid buffer) and sacrificed by carbon dioxide asphyxiation 24 hrs after the last dosing. The livers of all animals were excised immediately and a tissue slice which consisted of ca. ¼ from the bottom of the left lateral lobe was placed in RNALater (Ambion, TX, USA) at 4°C for 24 hrs to allow penetration of the tissue and then stored at -20°C until further processing for gene expression analysis.
| | Sample_growth_protocol_ch1 | All animals received ethical care as specified by Swiss law and in accordance with the 'Guide for the care and use of laboratory animals' published by the NIH. The test facility is fully accredited by the Association for Assessment and Accreditation of Laboratory Animal Care International (AAALAC). The study was based on guidelines proposed by the ICH (International Conference on Harmonisation of Technical Requirements for Registration of Pharmaceuticals for Human Use) and the CPMP (Committee for Proprietary Medicinal Products of the EMEA [European Agency for the Evaluation of Medicinal Products]) and the OECD.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNeasy extraction of total RNA was performed according to the manufacturer's instructions (Qiagen).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2 ug total RNA (Expression Analysis Technical Manual, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat U34a Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000.
| | Sample_data_processing | MAS 5 data summarization was carrried out using the simpleaffy package in Bioconductor (call.exprs function). Values were calculated on a linear scale, afterwards a quantile normalization was applied across all arrays.
| | Sample_platform_id | GPL85
| | Sample_contact_name | Adrian,B,Roth
| | Sample_contact_laboratory | 90-518a
| | Sample_contact_department | NCS
| | Sample_contact_institute | Roche
| | Sample_contact_address | Grenzacherstr 124
| | Sample_contact_city | Basel
| | Sample_contact_zip/postal_code | 4070
| | Sample_contact_country | Switzerland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM434nnn/GSM434463/suppl/GSM434463.cel.gz
| | Sample_series_id | GSE17388
| | Sample_data_row_count | 8799
| | |
|
GSM434464 | GPL85 |
|
Liver Study4 24h R2 dose 300 - rep 3
|
Male Wistar Rat Liver
|
gender: Male
tissue: Liver
strain: Wistar
treatment: R2
dose amount (mg_per_kg_per_day): 300
sampling time (hours): 24
|
Gene expression data from rat liver, treated with development compound R2
|
| Sample_geo_accession | GSM434464
| | Sample_status | Public on Jul 29 2009
| | Sample_submission_date | Jul 28 2009
| | Sample_last_update_date | Jul 28 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Eight-week-old male Wistar rats were dosed orally (gavage) once daily with the indicated dose of either test compound or vehicle (citric acid buffer) and sacrificed by carbon dioxide asphyxiation 24 hrs after the last dosing. The livers of all animals were excised immediately and a tissue slice which consisted of ca. ¼ from the bottom of the left lateral lobe was placed in RNALater (Ambion, TX, USA) at 4°C for 24 hrs to allow penetration of the tissue and then stored at -20°C until further processing for gene expression analysis.
| | Sample_growth_protocol_ch1 | All animals received ethical care as specified by Swiss law and in accordance with the 'Guide for the care and use of laboratory animals' published by the NIH. The test facility is fully accredited by the Association for Assessment and Accreditation of Laboratory Animal Care International (AAALAC). The study was based on guidelines proposed by the ICH (International Conference on Harmonisation of Technical Requirements for Registration of Pharmaceuticals for Human Use) and the CPMP (Committee for Proprietary Medicinal Products of the EMEA [European Agency for the Evaluation of Medicinal Products]) and the OECD.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNeasy extraction of total RNA was performed according to the manufacturer's instructions (Qiagen).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2 ug total RNA (Expression Analysis Technical Manual, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat U34a Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000.
| | Sample_data_processing | MAS 5 data summarization was carrried out using the simpleaffy package in Bioconductor (call.exprs function). Values were calculated on a linear scale, afterwards a quantile normalization was applied across all arrays.
| | Sample_platform_id | GPL85
| | Sample_contact_name | Adrian,B,Roth
| | Sample_contact_laboratory | 90-518a
| | Sample_contact_department | NCS
| | Sample_contact_institute | Roche
| | Sample_contact_address | Grenzacherstr 124
| | Sample_contact_city | Basel
| | Sample_contact_zip/postal_code | 4070
| | Sample_contact_country | Switzerland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM434nnn/GSM434464/suppl/GSM434464.cel.gz
| | Sample_series_id | GSE17388
| | Sample_data_row_count | 8799
| | |
|
GSM434465 | GPL85 |
|
Liver Study4 24h R2 dose 300 - rep 4
|
Male Wistar Rat Liver
|
gender: Male
tissue: Liver
strain: Wistar
treatment: R2
dose amount (mg_per_kg_per_day): 300
sampling time (hours): 24
|
Gene expression data from rat liver, treated with development compound R2
|
| Sample_geo_accession | GSM434465
| | Sample_status | Public on Jul 29 2009
| | Sample_submission_date | Jul 28 2009
| | Sample_last_update_date | Jul 28 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Eight-week-old male Wistar rats were dosed orally (gavage) once daily with the indicated dose of either test compound or vehicle (citric acid buffer) and sacrificed by carbon dioxide asphyxiation 24 hrs after the last dosing. The livers of all animals were excised immediately and a tissue slice which consisted of ca. ¼ from the bottom of the left lateral lobe was placed in RNALater (Ambion, TX, USA) at 4°C for 24 hrs to allow penetration of the tissue and then stored at -20°C until further processing for gene expression analysis.
| | Sample_growth_protocol_ch1 | All animals received ethical care as specified by Swiss law and in accordance with the 'Guide for the care and use of laboratory animals' published by the NIH. The test facility is fully accredited by the Association for Assessment and Accreditation of Laboratory Animal Care International (AAALAC). The study was based on guidelines proposed by the ICH (International Conference on Harmonisation of Technical Requirements for Registration of Pharmaceuticals for Human Use) and the CPMP (Committee for Proprietary Medicinal Products of the EMEA [European Agency for the Evaluation of Medicinal Products]) and the OECD.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNeasy extraction of total RNA was performed according to the manufacturer's instructions (Qiagen).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2 ug total RNA (Expression Analysis Technical Manual, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat U34a Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000.
| | Sample_data_processing | MAS 5 data summarization was carrried out using the simpleaffy package in Bioconductor (call.exprs function). Values were calculated on a linear scale, afterwards a quantile normalization was applied across all arrays.
| | Sample_platform_id | GPL85
| | Sample_contact_name | Adrian,B,Roth
| | Sample_contact_laboratory | 90-518a
| | Sample_contact_department | NCS
| | Sample_contact_institute | Roche
| | Sample_contact_address | Grenzacherstr 124
| | Sample_contact_city | Basel
| | Sample_contact_zip/postal_code | 4070
| | Sample_contact_country | Switzerland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM434nnn/GSM434465/suppl/GSM434465.cel.gz
| | Sample_series_id | GSE17388
| | Sample_data_row_count | 8799
| | |
|
GSM434466 | GPL85 |
|
Liver Study4 24h R2 dose 300 - rep 5
|
Male Wistar Rat Liver
|
gender: Male
tissue: Liver
strain: Wistar
treatment: R2
dose amount (mg_per_kg_per_day): 300
sampling time (hours): 24
|
Gene expression data from rat liver, treated with development compound R2
|
| Sample_geo_accession | GSM434466
| | Sample_status | Public on Jul 29 2009
| | Sample_submission_date | Jul 28 2009
| | Sample_last_update_date | Jul 28 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Eight-week-old male Wistar rats were dosed orally (gavage) once daily with the indicated dose of either test compound or vehicle (citric acid buffer) and sacrificed by carbon dioxide asphyxiation 24 hrs after the last dosing. The livers of all animals were excised immediately and a tissue slice which consisted of ca. ¼ from the bottom of the left lateral lobe was placed in RNALater (Ambion, TX, USA) at 4°C for 24 hrs to allow penetration of the tissue and then stored at -20°C until further processing for gene expression analysis.
| | Sample_growth_protocol_ch1 | All animals received ethical care as specified by Swiss law and in accordance with the 'Guide for the care and use of laboratory animals' published by the NIH. The test facility is fully accredited by the Association for Assessment and Accreditation of Laboratory Animal Care International (AAALAC). The study was based on guidelines proposed by the ICH (International Conference on Harmonisation of Technical Requirements for Registration of Pharmaceuticals for Human Use) and the CPMP (Committee for Proprietary Medicinal Products of the EMEA [European Agency for the Evaluation of Medicinal Products]) and the OECD.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNeasy extraction of total RNA was performed according to the manufacturer's instructions (Qiagen).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2 ug total RNA (Expression Analysis Technical Manual, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat U34a Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000.
| | Sample_data_processing | MAS 5 data summarization was carrried out using the simpleaffy package in Bioconductor (call.exprs function). Values were calculated on a linear scale, afterwards a quantile normalization was applied across all arrays.
| | Sample_platform_id | GPL85
| | Sample_contact_name | Adrian,B,Roth
| | Sample_contact_laboratory | 90-518a
| | Sample_contact_department | NCS
| | Sample_contact_institute | Roche
| | Sample_contact_address | Grenzacherstr 124
| | Sample_contact_city | Basel
| | Sample_contact_zip/postal_code | 4070
| | Sample_contact_country | Switzerland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM434nnn/GSM434466/suppl/GSM434466.cel.gz
| | Sample_series_id | GSE17388
| | Sample_data_row_count | 8799
| | |
|
GSM434467 | GPL85 |
|
Liver Study3 336h R1 dose 30 - rep 1
|
Male Wistar Rat Liver
|
gender: Male
tissue: Liver
strain: Wistar
treatment: R1
dose amount (mg_per_kg_per_day): 30
sampling time (hours): 336
|
Gene expression data from rat liver, treated with development compound R1
|
| Sample_geo_accession | GSM434467
| | Sample_status | Public on Jul 29 2009
| | Sample_submission_date | Jul 28 2009
| | Sample_last_update_date | Jul 28 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Eight-week-old male Wistar rats were dosed orally (gavage) once daily with the indicated dose of either test compound or vehicle (citric acid buffer) and sacrificed by carbon dioxide asphyxiation 24 hrs after the last dosing. The livers of all animals were excised immediately and a tissue slice which consisted of ca. ¼ from the bottom of the left lateral lobe was placed in RNALater (Ambion, TX, USA) at 4°C for 24 hrs to allow penetration of the tissue and then stored at -20°C until further processing for gene expression analysis.
| | Sample_growth_protocol_ch1 | All animals received ethical care as specified by Swiss law and in accordance with the 'Guide for the care and use of laboratory animals' published by the NIH. The test facility is fully accredited by the Association for Assessment and Accreditation of Laboratory Animal Care International (AAALAC). The study was based on guidelines proposed by the ICH (International Conference on Harmonisation of Technical Requirements for Registration of Pharmaceuticals for Human Use) and the CPMP (Committee for Proprietary Medicinal Products of the EMEA [European Agency for the Evaluation of Medicinal Products]) and the OECD.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNeasy extraction of total RNA was performed according to the manufacturer's instructions (Qiagen).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2 ug total RNA (Expression Analysis Technical Manual, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat U34a Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000.
| | Sample_data_processing | MAS 5 data summarization was carrried out using the simpleaffy package in Bioconductor (call.exprs function). Values were calculated on a linear scale, afterwards a quantile normalization was applied across all arrays.
| | Sample_platform_id | GPL85
| | Sample_contact_name | Adrian,B,Roth
| | Sample_contact_laboratory | 90-518a
| | Sample_contact_department | NCS
| | Sample_contact_institute | Roche
| | Sample_contact_address | Grenzacherstr 124
| | Sample_contact_city | Basel
| | Sample_contact_zip/postal_code | 4070
| | Sample_contact_country | Switzerland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM434nnn/GSM434467/suppl/GSM434467.cel.gz
| | Sample_series_id | GSE17388
| | Sample_data_row_count | 8799
| | |
|
GSM434468 | GPL85 |
|
Liver Study3 336h R1 dose 30 - rep 2
|
Male Wistar Rat Liver
|
gender: Male
tissue: Liver
strain: Wistar
treatment: R1
dose amount (mg_per_kg_per_day): 30
sampling time (hours): 336
|
Gene expression data from rat liver, treated with development compound R1
|
| Sample_geo_accession | GSM434468
| | Sample_status | Public on Jul 29 2009
| | Sample_submission_date | Jul 28 2009
| | Sample_last_update_date | Jul 28 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Eight-week-old male Wistar rats were dosed orally (gavage) once daily with the indicated dose of either test compound or vehicle (citric acid buffer) and sacrificed by carbon dioxide asphyxiation 24 hrs after the last dosing. The livers of all animals were excised immediately and a tissue slice which consisted of ca. ¼ from the bottom of the left lateral lobe was placed in RNALater (Ambion, TX, USA) at 4°C for 24 hrs to allow penetration of the tissue and then stored at -20°C until further processing for gene expression analysis.
| | Sample_growth_protocol_ch1 | All animals received ethical care as specified by Swiss law and in accordance with the 'Guide for the care and use of laboratory animals' published by the NIH. The test facility is fully accredited by the Association for Assessment and Accreditation of Laboratory Animal Care International (AAALAC). The study was based on guidelines proposed by the ICH (International Conference on Harmonisation of Technical Requirements for Registration of Pharmaceuticals for Human Use) and the CPMP (Committee for Proprietary Medicinal Products of the EMEA [European Agency for the Evaluation of Medicinal Products]) and the OECD.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNeasy extraction of total RNA was performed according to the manufacturer's instructions (Qiagen).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2 ug total RNA (Expression Analysis Technical Manual, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat U34a Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000.
| | Sample_data_processing | MAS 5 data summarization was carrried out using the simpleaffy package in Bioconductor (call.exprs function). Values were calculated on a linear scale, afterwards a quantile normalization was applied across all arrays.
| | Sample_platform_id | GPL85
| | Sample_contact_name | Adrian,B,Roth
| | Sample_contact_laboratory | 90-518a
| | Sample_contact_department | NCS
| | Sample_contact_institute | Roche
| | Sample_contact_address | Grenzacherstr 124
| | Sample_contact_city | Basel
| | Sample_contact_zip/postal_code | 4070
| | Sample_contact_country | Switzerland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM434nnn/GSM434468/suppl/GSM434468.cel.gz
| | Sample_series_id | GSE17388
| | Sample_data_row_count | 8799
| | |
|
GSM434469 | GPL85 |
|
Liver Study3 336h R1 dose 30 - rep 3
|
Male Wistar Rat Liver
|
gender: Male
tissue: Liver
strain: Wistar
treatment: R1
dose amount (mg_per_kg_per_day): 30
sampling time (hours): 336
|
Gene expression data from rat liver, treated with development compound R1
|
| Sample_geo_accession | GSM434469
| | Sample_status | Public on Jul 29 2009
| | Sample_submission_date | Jul 28 2009
| | Sample_last_update_date | Jul 28 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Eight-week-old male Wistar rats were dosed orally (gavage) once daily with the indicated dose of either test compound or vehicle (citric acid buffer) and sacrificed by carbon dioxide asphyxiation 24 hrs after the last dosing. The livers of all animals were excised immediately and a tissue slice which consisted of ca. ¼ from the bottom of the left lateral lobe was placed in RNALater (Ambion, TX, USA) at 4°C for 24 hrs to allow penetration of the tissue and then stored at -20°C until further processing for gene expression analysis.
| | Sample_growth_protocol_ch1 | All animals received ethical care as specified by Swiss law and in accordance with the 'Guide for the care and use of laboratory animals' published by the NIH. The test facility is fully accredited by the Association for Assessment and Accreditation of Laboratory Animal Care International (AAALAC). The study was based on guidelines proposed by the ICH (International Conference on Harmonisation of Technical Requirements for Registration of Pharmaceuticals for Human Use) and the CPMP (Committee for Proprietary Medicinal Products of the EMEA [European Agency for the Evaluation of Medicinal Products]) and the OECD.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNeasy extraction of total RNA was performed according to the manufacturer's instructions (Qiagen).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2 ug total RNA (Expression Analysis Technical Manual, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat U34a Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000.
| | Sample_data_processing | MAS 5 data summarization was carrried out using the simpleaffy package in Bioconductor (call.exprs function). Values were calculated on a linear scale, afterwards a quantile normalization was applied across all arrays.
| | Sample_platform_id | GPL85
| | Sample_contact_name | Adrian,B,Roth
| | Sample_contact_laboratory | 90-518a
| | Sample_contact_department | NCS
| | Sample_contact_institute | Roche
| | Sample_contact_address | Grenzacherstr 124
| | Sample_contact_city | Basel
| | Sample_contact_zip/postal_code | 4070
| | Sample_contact_country | Switzerland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM434nnn/GSM434469/suppl/GSM434469.cel.gz
| | Sample_series_id | GSE17388
| | Sample_data_row_count | 8799
| | |
|
GSM434470 | GPL85 |
|
Liver Study3 336h R1 dose 30 - rep 4
|
Male Wistar Rat Liver
|
gender: Male
tissue: Liver
strain: Wistar
treatment: R1
dose amount (mg_per_kg_per_day): 30
sampling time (hours): 336
|
Gene expression data from rat liver, treated with development compound R1
|
| Sample_geo_accession | GSM434470
| | Sample_status | Public on Jul 29 2009
| | Sample_submission_date | Jul 28 2009
| | Sample_last_update_date | Jul 28 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Eight-week-old male Wistar rats were dosed orally (gavage) once daily with the indicated dose of either test compound or vehicle (citric acid buffer) and sacrificed by carbon dioxide asphyxiation 24 hrs after the last dosing. The livers of all animals were excised immediately and a tissue slice which consisted of ca. ¼ from the bottom of the left lateral lobe was placed in RNALater (Ambion, TX, USA) at 4°C for 24 hrs to allow penetration of the tissue and then stored at -20°C until further processing for gene expression analysis.
| | Sample_growth_protocol_ch1 | All animals received ethical care as specified by Swiss law and in accordance with the 'Guide for the care and use of laboratory animals' published by the NIH. The test facility is fully accredited by the Association for Assessment and Accreditation of Laboratory Animal Care International (AAALAC). The study was based on guidelines proposed by the ICH (International Conference on Harmonisation of Technical Requirements for Registration of Pharmaceuticals for Human Use) and the CPMP (Committee for Proprietary Medicinal Products of the EMEA [European Agency for the Evaluation of Medicinal Products]) and the OECD.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNeasy extraction of total RNA was performed according to the manufacturer's instructions (Qiagen).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2 ug total RNA (Expression Analysis Technical Manual, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat U34a Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000.
| | Sample_data_processing | MAS 5 data summarization was carrried out using the simpleaffy package in Bioconductor (call.exprs function). Values were calculated on a linear scale, afterwards a quantile normalization was applied across all arrays.
| | Sample_platform_id | GPL85
| | Sample_contact_name | Adrian,B,Roth
| | Sample_contact_laboratory | 90-518a
| | Sample_contact_department | NCS
| | Sample_contact_institute | Roche
| | Sample_contact_address | Grenzacherstr 124
| | Sample_contact_city | Basel
| | Sample_contact_zip/postal_code | 4070
| | Sample_contact_country | Switzerland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM434nnn/GSM434470/suppl/GSM434470.cel.gz
| | Sample_series_id | GSE17388
| | Sample_data_row_count | 8799
| | |
|
GSM434471 | GPL85 |
|
Liver Study3 336h Vehicle_Control dose 0 - rep 1
|
Male Wistar Rat Liver
|
gender: Male
tissue: Liver
strain: Wistar
treatment: Vehicle_Control
dose amount (mg_per_kg_per_day): 0
sampling time (hours): 336
|
Gene expression data from rat liver, vehicle control
|
| Sample_geo_accession | GSM434471
| | Sample_status | Public on Jul 29 2009
| | Sample_submission_date | Jul 28 2009
| | Sample_last_update_date | Jul 28 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Eight-week-old male Wistar rats were dosed orally (gavage) once daily with the indicated dose of either test compound or vehicle (citric acid buffer) and sacrificed by carbon dioxide asphyxiation 24 hrs after the last dosing. The livers of all animals were excised immediately and a tissue slice which consisted of ca. ¼ from the bottom of the left lateral lobe was placed in RNALater (Ambion, TX, USA) at 4°C for 24 hrs to allow penetration of the tissue and then stored at -20°C until further processing for gene expression analysis.
| | Sample_growth_protocol_ch1 | All animals received ethical care as specified by Swiss law and in accordance with the 'Guide for the care and use of laboratory animals' published by the NIH. The test facility is fully accredited by the Association for Assessment and Accreditation of Laboratory Animal Care International (AAALAC). The study was based on guidelines proposed by the ICH (International Conference on Harmonisation of Technical Requirements for Registration of Pharmaceuticals for Human Use) and the CPMP (Committee for Proprietary Medicinal Products of the EMEA [European Agency for the Evaluation of Medicinal Products]) and the OECD.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNeasy extraction of total RNA was performed according to the manufacturer's instructions (Qiagen).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2 ug total RNA (Expression Analysis Technical Manual, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat U34a Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000.
| | Sample_data_processing | MAS 5 data summarization was carrried out using the simpleaffy package in Bioconductor (call.exprs function). Values were calculated on a linear scale, afterwards a quantile normalization was applied across all arrays.
| | Sample_platform_id | GPL85
| | Sample_contact_name | Adrian,B,Roth
| | Sample_contact_laboratory | 90-518a
| | Sample_contact_department | NCS
| | Sample_contact_institute | Roche
| | Sample_contact_address | Grenzacherstr 124
| | Sample_contact_city | Basel
| | Sample_contact_zip/postal_code | 4070
| | Sample_contact_country | Switzerland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM434nnn/GSM434471/suppl/GSM434471.cel.gz
| | Sample_series_id | GSE17388
| | Sample_data_row_count | 8799
| | |
|
GSM434472 | GPL85 |
|
Liver Study3 336h Vehicle_Control dose 0 - rep 2
|
Male Wistar Rat Liver
|
gender: Male
tissue: Liver
strain: Wistar
treatment: Vehicle_Control
dose amount (mg_per_kg_per_day): 0
sampling time (hours): 336
|
Gene expression data from rat liver, vehicle control
|
| Sample_geo_accession | GSM434472
| | Sample_status | Public on Jul 29 2009
| | Sample_submission_date | Jul 28 2009
| | Sample_last_update_date | Jul 28 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Eight-week-old male Wistar rats were dosed orally (gavage) once daily with the indicated dose of either test compound or vehicle (citric acid buffer) and sacrificed by carbon dioxide asphyxiation 24 hrs after the last dosing. The livers of all animals were excised immediately and a tissue slice which consisted of ca. ¼ from the bottom of the left lateral lobe was placed in RNALater (Ambion, TX, USA) at 4°C for 24 hrs to allow penetration of the tissue and then stored at -20°C until further processing for gene expression analysis.
| | Sample_growth_protocol_ch1 | All animals received ethical care as specified by Swiss law and in accordance with the 'Guide for the care and use of laboratory animals' published by the NIH. The test facility is fully accredited by the Association for Assessment and Accreditation of Laboratory Animal Care International (AAALAC). The study was based on guidelines proposed by the ICH (International Conference on Harmonisation of Technical Requirements for Registration of Pharmaceuticals for Human Use) and the CPMP (Committee for Proprietary Medicinal Products of the EMEA [European Agency for the Evaluation of Medicinal Products]) and the OECD.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNeasy extraction of total RNA was performed according to the manufacturer's instructions (Qiagen).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2 ug total RNA (Expression Analysis Technical Manual, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat U34a Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000.
| | Sample_data_processing | MAS 5 data summarization was carrried out using the simpleaffy package in Bioconductor (call.exprs function). Values were calculated on a linear scale, afterwards a quantile normalization was applied across all arrays.
| | Sample_platform_id | GPL85
| | Sample_contact_name | Adrian,B,Roth
| | Sample_contact_laboratory | 90-518a
| | Sample_contact_department | NCS
| | Sample_contact_institute | Roche
| | Sample_contact_address | Grenzacherstr 124
| | Sample_contact_city | Basel
| | Sample_contact_zip/postal_code | 4070
| | Sample_contact_country | Switzerland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM434nnn/GSM434472/suppl/GSM434472.cel.gz
| | Sample_series_id | GSE17388
| | Sample_data_row_count | 8799
| | |
|
GSM434473 | GPL85 |
|
Liver Study3 336h Vehicle_Control dose 0 - rep 3
|
Male Wistar Rat Liver
|
gender: Male
tissue: Liver
strain: Wistar
treatment: Vehicle_Control
dose amount (mg_per_kg_per_day): 0
sampling time (hours): 336
|
Gene expression data from rat liver, vehicle control
|
| Sample_geo_accession | GSM434473
| | Sample_status | Public on Jul 29 2009
| | Sample_submission_date | Jul 28 2009
| | Sample_last_update_date | Jul 28 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Eight-week-old male Wistar rats were dosed orally (gavage) once daily with the indicated dose of either test compound or vehicle (citric acid buffer) and sacrificed by carbon dioxide asphyxiation 24 hrs after the last dosing. The livers of all animals were excised immediately and a tissue slice which consisted of ca. ¼ from the bottom of the left lateral lobe was placed in RNALater (Ambion, TX, USA) at 4°C for 24 hrs to allow penetration of the tissue and then stored at -20°C until further processing for gene expression analysis.
| | Sample_growth_protocol_ch1 | All animals received ethical care as specified by Swiss law and in accordance with the 'Guide for the care and use of laboratory animals' published by the NIH. The test facility is fully accredited by the Association for Assessment and Accreditation of Laboratory Animal Care International (AAALAC). The study was based on guidelines proposed by the ICH (International Conference on Harmonisation of Technical Requirements for Registration of Pharmaceuticals for Human Use) and the CPMP (Committee for Proprietary Medicinal Products of the EMEA [European Agency for the Evaluation of Medicinal Products]) and the OECD.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNeasy extraction of total RNA was performed according to the manufacturer's instructions (Qiagen).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2 ug total RNA (Expression Analysis Technical Manual, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat U34a Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000.
| | Sample_data_processing | MAS 5 data summarization was carrried out using the simpleaffy package in Bioconductor (call.exprs function). Values were calculated on a linear scale, afterwards a quantile normalization was applied across all arrays.
| | Sample_platform_id | GPL85
| | Sample_contact_name | Adrian,B,Roth
| | Sample_contact_laboratory | 90-518a
| | Sample_contact_department | NCS
| | Sample_contact_institute | Roche
| | Sample_contact_address | Grenzacherstr 124
| | Sample_contact_city | Basel
| | Sample_contact_zip/postal_code | 4070
| | Sample_contact_country | Switzerland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM434nnn/GSM434473/suppl/GSM434473.cel.gz
| | Sample_series_id | GSE17388
| | Sample_data_row_count | 8799
| | |
|
GSM434474 | GPL85 |
|
Liver Study3 336h Vehicle_Control dose 0 - rep 4
|
Male Wistar Rat Liver
|
gender: Male
tissue: Liver
strain: Wistar
treatment: Vehicle_Control
dose amount (mg_per_kg_per_day): 0
sampling time (hours): 336
|
Gene expression data from rat liver, vehicle control
|
| Sample_geo_accession | GSM434474
| | Sample_status | Public on Jul 29 2009
| | Sample_submission_date | Jul 28 2009
| | Sample_last_update_date | Jul 28 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Eight-week-old male Wistar rats were dosed orally (gavage) once daily with the indicated dose of either test compound or vehicle (citric acid buffer) and sacrificed by carbon dioxide asphyxiation 24 hrs after the last dosing. The livers of all animals were excised immediately and a tissue slice which consisted of ca. ¼ from the bottom of the left lateral lobe was placed in RNALater (Ambion, TX, USA) at 4°C for 24 hrs to allow penetration of the tissue and then stored at -20°C until further processing for gene expression analysis.
| | Sample_growth_protocol_ch1 | All animals received ethical care as specified by Swiss law and in accordance with the 'Guide for the care and use of laboratory animals' published by the NIH. The test facility is fully accredited by the Association for Assessment and Accreditation of Laboratory Animal Care International (AAALAC). The study was based on guidelines proposed by the ICH (International Conference on Harmonisation of Technical Requirements for Registration of Pharmaceuticals for Human Use) and the CPMP (Committee for Proprietary Medicinal Products of the EMEA [European Agency for the Evaluation of Medicinal Products]) and the OECD.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNeasy extraction of total RNA was performed according to the manufacturer's instructions (Qiagen).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2 ug total RNA (Expression Analysis Technical Manual, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat U34a Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000.
| | Sample_data_processing | MAS 5 data summarization was carrried out using the simpleaffy package in Bioconductor (call.exprs function). Values were calculated on a linear scale, afterwards a quantile normalization was applied across all arrays.
| | Sample_platform_id | GPL85
| | Sample_contact_name | Adrian,B,Roth
| | Sample_contact_laboratory | 90-518a
| | Sample_contact_department | NCS
| | Sample_contact_institute | Roche
| | Sample_contact_address | Grenzacherstr 124
| | Sample_contact_city | Basel
| | Sample_contact_zip/postal_code | 4070
| | Sample_contact_country | Switzerland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM434nnn/GSM434474/suppl/GSM434474.cel.gz
| | Sample_series_id | GSE17388
| | Sample_data_row_count | 8799
| | |
|
GSM434475 | GPL85 |
|
Liver Study3 336h Vehicle_Control dose 0 - rep 5
|
Male Wistar Rat Liver
|
gender: Male
tissue: Liver
strain: Wistar
treatment: Vehicle_Control
dose amount (mg_per_kg_per_day): 0
sampling time (hours): 336
|
Gene expression data from rat liver, vehicle control
|
| Sample_geo_accession | GSM434475
| | Sample_status | Public on Jul 29 2009
| | Sample_submission_date | Jul 28 2009
| | Sample_last_update_date | Jul 28 2009
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | Eight-week-old male Wistar rats were dosed orally (gavage) once daily with the indicated dose of either test compound or vehicle (citric acid buffer) and sacrificed by carbon dioxide asphyxiation 24 hrs after the last dosing. The livers of all animals were excised immediately and a tissue slice which consisted of ca. ¼ from the bottom of the left lateral lobe was placed in RNALater (Ambion, TX, USA) at 4°C for 24 hrs to allow penetration of the tissue and then stored at -20°C until further processing for gene expression analysis.
| | Sample_growth_protocol_ch1 | All animals received ethical care as specified by Swiss law and in accordance with the 'Guide for the care and use of laboratory animals' published by the NIH. The test facility is fully accredited by the Association for Assessment and Accreditation of Laboratory Animal Care International (AAALAC). The study was based on guidelines proposed by the ICH (International Conference on Harmonisation of Technical Requirements for Registration of Pharmaceuticals for Human Use) and the CPMP (Committee for Proprietary Medicinal Products of the EMEA [European Agency for the Evaluation of Medicinal Products]) and the OECD.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | RNeasy extraction of total RNA was performed according to the manufacturer's instructions (Qiagen).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotinylated cRNA were prepared according to the standard Affymetrix protocol from 2 ug total RNA (Expression Analysis Technical Manual, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip Rat U34a Genome Array. GeneChips were washed and stained in the Affymetrix Fluidics Station 450.
| | Sample_scan_protocol | GeneChips were scanned using the Affymetrix GeneChip Scanner 3000.
| | Sample_data_processing | MAS 5 data summarization was carrried out using the simpleaffy package in Bioconductor (call.exprs function). Values were calculated on a linear scale, afterwards a quantile normalization was applied across all arrays.
| | Sample_platform_id | GPL85
| | Sample_contact_name | Adrian,B,Roth
| | Sample_contact_laboratory | 90-518a
| | Sample_contact_department | NCS
| | Sample_contact_institute | Roche
| | Sample_contact_address | Grenzacherstr 124
| | Sample_contact_city | Basel
| | Sample_contact_zip/postal_code | 4070
| | Sample_contact_country | Switzerland
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM434nnn/GSM434475/suppl/GSM434475.cel.gz
| | Sample_series_id | GSE17388
| | Sample_data_row_count | 8799
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