Search results for the GEO ID: GSE21937  |
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|
GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM545786 | GPL1355 |
|
Germ_free_liver_animal #1
|
germ free
|
strain: Sprague Dawley
tissue: liver
treatment: germ free
|
n/a
|
| Sample_geo_accession | GSM545786
| | Sample_status | Public on Aug 31 2010
| | Sample_submission_date | May 20 2010
| | Sample_last_update_date | May 21 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | The antibiotic was provided as a pre-prepared solution in water, made up of 4 mg/ml Streptomycin and 2 mg/ml Penicillin. The antibiotic solution was supplied as a 10X stock (stored at approximately +4ºC) in 30 mL pre-prepared aliquots which was then be diluted by adding into 270 mL of the animals’ drinking water to make up to 300 mL. Light-protective water bottles (amber) were used throughout the study. The animals had free access to the antibiotic for 8 days, until necropsy.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Qiagen RNeasy miniprep (according to manufacturer's protocol)
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip
| | Sample_scan_protocol | Affymetrix GeneChip Scanner 3000; GCOS 1.4
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | James,,Sidaway
| | Sample_contact_email | james.sidaway@astrazeneca.com
| | Sample_contact_laboratory | Molecular Toxicology
| | Sample_contact_department | Safety Assessment
| | Sample_contact_institute | AstraZeneca
| | Sample_contact_address | Mereside, Alderely Park
| | Sample_contact_city | Macclesfield
| | Sample_contact_zip/postal_code | SK10 9TG
| | Sample_contact_country | United Kingdom
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM545nnn/GSM545786/suppl/GSM545786_1443KR_-_JS_-_Liver_01.CEL.gz
| | Sample_series_id | GSE21937
| | Sample_data_row_count | 31099
| | |
|
GSM545787 | GPL1355 |
|
Germ_free_liver_animal #3
|
germ free
|
strain: Sprague Dawley
tissue: liver
treatment: germ free
|
n/a
|
| Sample_geo_accession | GSM545787
| | Sample_status | Public on Aug 31 2010
| | Sample_submission_date | May 20 2010
| | Sample_last_update_date | May 21 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | The antibiotic was provided as a pre-prepared solution in water, made up of 4 mg/ml Streptomycin and 2 mg/ml Penicillin. The antibiotic solution was supplied as a 10X stock (stored at approximately +4ºC) in 30 mL pre-prepared aliquots which was then be diluted by adding into 270 mL of the animals’ drinking water to make up to 300 mL. Light-protective water bottles (amber) were used throughout the study. The animals had free access to the antibiotic for 8 days, until necropsy.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Qiagen RNeasy miniprep (according to manufacturer's protocol)
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip
| | Sample_scan_protocol | Affymetrix GeneChip Scanner 3000; GCOS 1.4
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | James,,Sidaway
| | Sample_contact_email | james.sidaway@astrazeneca.com
| | Sample_contact_laboratory | Molecular Toxicology
| | Sample_contact_department | Safety Assessment
| | Sample_contact_institute | AstraZeneca
| | Sample_contact_address | Mereside, Alderely Park
| | Sample_contact_city | Macclesfield
| | Sample_contact_zip/postal_code | SK10 9TG
| | Sample_contact_country | United Kingdom
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM545nnn/GSM545787/suppl/GSM545787_1443KR_-_JS_-_Liver_03.CEL.gz
| | Sample_series_id | GSE21937
| | Sample_data_row_count | 31099
| | |
|
GSM545788 | GPL1355 |
|
Germ_free_liver_animal #4
|
germ free
|
strain: Sprague Dawley
tissue: liver
treatment: germ free
|
n/a
|
| Sample_geo_accession | GSM545788
| | Sample_status | Public on Aug 31 2010
| | Sample_submission_date | May 20 2010
| | Sample_last_update_date | May 21 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | The antibiotic was provided as a pre-prepared solution in water, made up of 4 mg/ml Streptomycin and 2 mg/ml Penicillin. The antibiotic solution was supplied as a 10X stock (stored at approximately +4ºC) in 30 mL pre-prepared aliquots which was then be diluted by adding into 270 mL of the animals’ drinking water to make up to 300 mL. Light-protective water bottles (amber) were used throughout the study. The animals had free access to the antibiotic for 8 days, until necropsy.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Qiagen RNeasy miniprep (according to manufacturer's protocol)
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip
| | Sample_scan_protocol | Affymetrix GeneChip Scanner 3000; GCOS 1.4
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | James,,Sidaway
| | Sample_contact_email | james.sidaway@astrazeneca.com
| | Sample_contact_laboratory | Molecular Toxicology
| | Sample_contact_department | Safety Assessment
| | Sample_contact_institute | AstraZeneca
| | Sample_contact_address | Mereside, Alderely Park
| | Sample_contact_city | Macclesfield
| | Sample_contact_zip/postal_code | SK10 9TG
| | Sample_contact_country | United Kingdom
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM545nnn/GSM545788/suppl/GSM545788_1443KR_-_JS_-_Liver_04.CEL.gz
| | Sample_series_id | GSE21937
| | Sample_data_row_count | 31099
| | |
|
GSM545789 | GPL1355 |
|
Normal_not-germ-free_liver_animal #6
|
normal
|
strain: Sprague Dawley
tissue: liver
treatment: normal
|
n/a
|
| Sample_geo_accession | GSM545789
| | Sample_status | Public on Aug 31 2010
| | Sample_submission_date | May 20 2010
| | Sample_last_update_date | May 21 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | The antibiotic was provided as a pre-prepared solution in water, made up of 4 mg/ml Streptomycin and 2 mg/ml Penicillin. The antibiotic solution was supplied as a 10X stock (stored at approximately +4ºC) in 30 mL pre-prepared aliquots which was then be diluted by adding into 270 mL of the animals’ drinking water to make up to 300 mL. Light-protective water bottles (amber) were used throughout the study. The animals had free access to the antibiotic for 8 days, until necropsy.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Qiagen RNeasy miniprep (according to manufacturer's protocol)
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip
| | Sample_scan_protocol | Affymetrix GeneChip Scanner 3000; GCOS 1.4
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | James,,Sidaway
| | Sample_contact_email | james.sidaway@astrazeneca.com
| | Sample_contact_laboratory | Molecular Toxicology
| | Sample_contact_department | Safety Assessment
| | Sample_contact_institute | AstraZeneca
| | Sample_contact_address | Mereside, Alderely Park
| | Sample_contact_city | Macclesfield
| | Sample_contact_zip/postal_code | SK10 9TG
| | Sample_contact_country | United Kingdom
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM545nnn/GSM545789/suppl/GSM545789_1443KR_-_JS_-_Liver_06.CEL.gz
| | Sample_series_id | GSE21937
| | Sample_data_row_count | 31099
| | |
|
GSM545790 | GPL1355 |
|
Normal_not-germ-free_liver_animal #7
|
normal
|
strain: Sprague Dawley
tissue: liver
treatment: normal
|
n/a
|
| Sample_geo_accession | GSM545790
| | Sample_status | Public on Aug 31 2010
| | Sample_submission_date | May 20 2010
| | Sample_last_update_date | May 21 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | The antibiotic was provided as a pre-prepared solution in water, made up of 4 mg/ml Streptomycin and 2 mg/ml Penicillin. The antibiotic solution was supplied as a 10X stock (stored at approximately +4ºC) in 30 mL pre-prepared aliquots which was then be diluted by adding into 270 mL of the animals’ drinking water to make up to 300 mL. Light-protective water bottles (amber) were used throughout the study. The animals had free access to the antibiotic for 8 days, until necropsy.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Qiagen RNeasy miniprep (according to manufacturer's protocol)
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip
| | Sample_scan_protocol | Affymetrix GeneChip Scanner 3000; GCOS 1.4
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | James,,Sidaway
| | Sample_contact_email | james.sidaway@astrazeneca.com
| | Sample_contact_laboratory | Molecular Toxicology
| | Sample_contact_department | Safety Assessment
| | Sample_contact_institute | AstraZeneca
| | Sample_contact_address | Mereside, Alderely Park
| | Sample_contact_city | Macclesfield
| | Sample_contact_zip/postal_code | SK10 9TG
| | Sample_contact_country | United Kingdom
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM545nnn/GSM545790/suppl/GSM545790_1443KR_-_JS_-_Liver_07.CEL.gz
| | Sample_series_id | GSE21937
| | Sample_data_row_count | 31099
| | |
|
GSM545791 | GPL1355 |
|
Normal_not-germ-free_liver_animal #8
|
normal
|
strain: Sprague Dawley
tissue: liver
treatment: normal
|
n/a
|
| Sample_geo_accession | GSM545791
| | Sample_status | Public on Aug 31 2010
| | Sample_submission_date | May 20 2010
| | Sample_last_update_date | May 21 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | The antibiotic was provided as a pre-prepared solution in water, made up of 4 mg/ml Streptomycin and 2 mg/ml Penicillin. The antibiotic solution was supplied as a 10X stock (stored at approximately +4ºC) in 30 mL pre-prepared aliquots which was then be diluted by adding into 270 mL of the animals’ drinking water to make up to 300 mL. Light-protective water bottles (amber) were used throughout the study. The animals had free access to the antibiotic for 8 days, until necropsy.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Qiagen RNeasy miniprep (according to manufacturer's protocol)
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip
| | Sample_scan_protocol | Affymetrix GeneChip Scanner 3000; GCOS 1.4
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | James,,Sidaway
| | Sample_contact_email | james.sidaway@astrazeneca.com
| | Sample_contact_laboratory | Molecular Toxicology
| | Sample_contact_department | Safety Assessment
| | Sample_contact_institute | AstraZeneca
| | Sample_contact_address | Mereside, Alderely Park
| | Sample_contact_city | Macclesfield
| | Sample_contact_zip/postal_code | SK10 9TG
| | Sample_contact_country | United Kingdom
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM545nnn/GSM545791/suppl/GSM545791_1443KR_-_JS_-_Liver_08.CEL.gz
| | Sample_series_id | GSE21937
| | Sample_data_row_count | 31099
| | |
|
GSM545792 | GPL1355 |
|
Control_no-antibiotic_liver_animal #1
|
control
|
strain: Han Wistar
tissue: liver
treatment: control
|
n/a
|
| Sample_geo_accession | GSM545792
| | Sample_status | Public on Aug 31 2010
| | Sample_submission_date | May 20 2010
| | Sample_last_update_date | May 21 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | The antibiotic was provided as a pre-prepared solution in water, made up of 4 mg/ml Streptomycin and 2 mg/ml Penicillin. The antibiotic solution was supplied as a 10X stock (stored at approximately +4ºC) in 30 mL pre-prepared aliquots which was then be diluted by adding into 270 mL of the animals’ drinking water to make up to 300 mL. Light-protective water bottles (amber) were used throughout the study. The animals had free access to the antibiotic for 8 days, until necropsy.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Qiagen RNeasy miniprep (according to manufacturer's protocol)
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip
| | Sample_scan_protocol | Affymetrix GeneChip Scanner 3000; GCOS 1.4
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | James,,Sidaway
| | Sample_contact_email | james.sidaway@astrazeneca.com
| | Sample_contact_laboratory | Molecular Toxicology
| | Sample_contact_department | Safety Assessment
| | Sample_contact_institute | AstraZeneca
| | Sample_contact_address | Mereside, Alderely Park
| | Sample_contact_city | Macclesfield
| | Sample_contact_zip/postal_code | SK10 9TG
| | Sample_contact_country | United Kingdom
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM545nnn/GSM545792/suppl/GSM545792_1512KR_-_JS_-_Liver_01.CEL.gz
| | Sample_series_id | GSE21937
| | Sample_data_row_count | 31099
| | |
|
GSM545793 | GPL1355 |
|
Control_no-antibiotic_liver_animal #2
|
control
|
strain: Han Wistar
tissue: liver
treatment: control
|
n/a
|
| Sample_geo_accession | GSM545793
| | Sample_status | Public on Aug 31 2010
| | Sample_submission_date | May 20 2010
| | Sample_last_update_date | May 21 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | The antibiotic was provided as a pre-prepared solution in water, made up of 4 mg/ml Streptomycin and 2 mg/ml Penicillin. The antibiotic solution was supplied as a 10X stock (stored at approximately +4ºC) in 30 mL pre-prepared aliquots which was then be diluted by adding into 270 mL of the animals’ drinking water to make up to 300 mL. Light-protective water bottles (amber) were used throughout the study. The animals had free access to the antibiotic for 8 days, until necropsy.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Qiagen RNeasy miniprep (according to manufacturer's protocol)
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip
| | Sample_scan_protocol | Affymetrix GeneChip Scanner 3000; GCOS 1.4
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | James,,Sidaway
| | Sample_contact_email | james.sidaway@astrazeneca.com
| | Sample_contact_laboratory | Molecular Toxicology
| | Sample_contact_department | Safety Assessment
| | Sample_contact_institute | AstraZeneca
| | Sample_contact_address | Mereside, Alderely Park
| | Sample_contact_city | Macclesfield
| | Sample_contact_zip/postal_code | SK10 9TG
| | Sample_contact_country | United Kingdom
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM545nnn/GSM545793/suppl/GSM545793_1512KR_-_JS_-_Liver_02.CEL.gz
| | Sample_series_id | GSE21937
| | Sample_data_row_count | 31099
| | |
|
GSM545794 | GPL1355 |
|
Control_no-antibiotic_liver_animal #3
|
control
|
strain: Han Wistar
tissue: liver
treatment: control
|
n/a
|
| Sample_geo_accession | GSM545794
| | Sample_status | Public on Aug 31 2010
| | Sample_submission_date | May 20 2010
| | Sample_last_update_date | May 21 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | The antibiotic was provided as a pre-prepared solution in water, made up of 4 mg/ml Streptomycin and 2 mg/ml Penicillin. The antibiotic solution was supplied as a 10X stock (stored at approximately +4ºC) in 30 mL pre-prepared aliquots which was then be diluted by adding into 270 mL of the animals’ drinking water to make up to 300 mL. Light-protective water bottles (amber) were used throughout the study. The animals had free access to the antibiotic for 8 days, until necropsy.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Qiagen RNeasy miniprep (according to manufacturer's protocol)
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip
| | Sample_scan_protocol | Affymetrix GeneChip Scanner 3000; GCOS 1.4
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | James,,Sidaway
| | Sample_contact_email | james.sidaway@astrazeneca.com
| | Sample_contact_laboratory | Molecular Toxicology
| | Sample_contact_department | Safety Assessment
| | Sample_contact_institute | AstraZeneca
| | Sample_contact_address | Mereside, Alderely Park
| | Sample_contact_city | Macclesfield
| | Sample_contact_zip/postal_code | SK10 9TG
| | Sample_contact_country | United Kingdom
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM545nnn/GSM545794/suppl/GSM545794_1512KR_-_JS_-_Liver_03.CEL.gz
| | Sample_series_id | GSE21937
| | Sample_data_row_count | 31099
| | |
|
GSM545795 | GPL1355 |
|
Antibiotic_liver_animal #13
|
antibiotic dosed
|
strain: Han Wistar
tissue: liver
treatment: antibiotic dosed
|
n/a
|
| Sample_geo_accession | GSM545795
| | Sample_status | Public on Aug 31 2010
| | Sample_submission_date | May 20 2010
| | Sample_last_update_date | May 21 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | The antibiotic was provided as a pre-prepared solution in water, made up of 4 mg/ml Streptomycin and 2 mg/ml Penicillin. The antibiotic solution was supplied as a 10X stock (stored at approximately +4ºC) in 30 mL pre-prepared aliquots which was then be diluted by adding into 270 mL of the animals’ drinking water to make up to 300 mL. Light-protective water bottles (amber) were used throughout the study. The animals had free access to the antibiotic for 8 days, until necropsy.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Qiagen RNeasy miniprep (according to manufacturer's protocol)
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip
| | Sample_scan_protocol | Affymetrix GeneChip Scanner 3000; GCOS 1.4
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | James,,Sidaway
| | Sample_contact_email | james.sidaway@astrazeneca.com
| | Sample_contact_laboratory | Molecular Toxicology
| | Sample_contact_department | Safety Assessment
| | Sample_contact_institute | AstraZeneca
| | Sample_contact_address | Mereside, Alderely Park
| | Sample_contact_city | Macclesfield
| | Sample_contact_zip/postal_code | SK10 9TG
| | Sample_contact_country | United Kingdom
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM545nnn/GSM545795/suppl/GSM545795_1512KR_-_JS_-_Liver_13.CEL.gz
| | Sample_series_id | GSE21937
| | Sample_data_row_count | 31099
| | |
|
GSM545796 | GPL1355 |
|
Antibiotic_liver_animal #14
|
antibiotic dosed
|
strain: Han Wistar
tissue: liver
treatment: antibiotic dosed
|
n/a
|
| Sample_geo_accession | GSM545796
| | Sample_status | Public on Aug 31 2010
| | Sample_submission_date | May 20 2010
| | Sample_last_update_date | May 21 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | The antibiotic was provided as a pre-prepared solution in water, made up of 4 mg/ml Streptomycin and 2 mg/ml Penicillin. The antibiotic solution was supplied as a 10X stock (stored at approximately +4ºC) in 30 mL pre-prepared aliquots which was then be diluted by adding into 270 mL of the animals’ drinking water to make up to 300 mL. Light-protective water bottles (amber) were used throughout the study. The animals had free access to the antibiotic for 8 days, until necropsy.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Qiagen RNeasy miniprep (according to manufacturer's protocol)
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip
| | Sample_scan_protocol | Affymetrix GeneChip Scanner 3000; GCOS 1.4
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | James,,Sidaway
| | Sample_contact_email | james.sidaway@astrazeneca.com
| | Sample_contact_laboratory | Molecular Toxicology
| | Sample_contact_department | Safety Assessment
| | Sample_contact_institute | AstraZeneca
| | Sample_contact_address | Mereside, Alderely Park
| | Sample_contact_city | Macclesfield
| | Sample_contact_zip/postal_code | SK10 9TG
| | Sample_contact_country | United Kingdom
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM545nnn/GSM545796/suppl/GSM545796_1512KR_-_JS_-_Liver_14.CEL.gz
| | Sample_series_id | GSE21937
| | Sample_data_row_count | 31099
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GSM545797 | GPL1355 |
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Antibiotic_liver_animal #15
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antibiotic dosed
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strain: Han Wistar
tissue: liver
treatment: antibiotic dosed
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n/a
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| Sample_geo_accession | GSM545797
| | Sample_status | Public on Aug 31 2010
| | Sample_submission_date | May 20 2010
| | Sample_last_update_date | May 21 2010
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Rattus norvegicus
| | Sample_taxid_ch1 | 10116
| | Sample_treatment_protocol_ch1 | The antibiotic was provided as a pre-prepared solution in water, made up of 4 mg/ml Streptomycin and 2 mg/ml Penicillin. The antibiotic solution was supplied as a 10X stock (stored at approximately +4ºC) in 30 mL pre-prepared aliquots which was then be diluted by adding into 270 mL of the animals’ drinking water to make up to 300 mL. Light-protective water bottles (amber) were used throughout the study. The animals had free access to the antibiotic for 8 days, until necropsy.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 | Qiagen RNeasy miniprep (according to manufacturer's protocol)
| | Sample_label_ch1 | Biotin
| | Sample_label_protocol_ch1 | 5 ug total RNA (Expression Analysis Technical Manual, 2001, Affymetrix).
| | Sample_hyb_protocol | Following fragmentation, 10 ug of cRNA were hybridized for 16 hr at 45C on GeneChip
| | Sample_scan_protocol | Affymetrix GeneChip Scanner 3000; GCOS 1.4
| | Sample_data_processing | The data were analyzed with Microarray Suite version 5.0 (MAS 5.0) using Affymetrix default analysis settings and global scaling as normalization method. The trimmed mean target intensity of each array was arbitrarily set to 100.
| | Sample_platform_id | GPL1355
| | Sample_contact_name | James,,Sidaway
| | Sample_contact_email | james.sidaway@astrazeneca.com
| | Sample_contact_laboratory | Molecular Toxicology
| | Sample_contact_department | Safety Assessment
| | Sample_contact_institute | AstraZeneca
| | Sample_contact_address | Mereside, Alderely Park
| | Sample_contact_city | Macclesfield
| | Sample_contact_zip/postal_code | SK10 9TG
| | Sample_contact_country | United Kingdom
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM545nnn/GSM545797/suppl/GSM545797_1512KR_-_JS_-_Liver_15.CEL.gz
| | Sample_series_id | GSE21937
| | Sample_data_row_count | 31099
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