Search results for the GEO ID: GSE26986  |
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GSM ID | GPL ID |
Select for analysis |
Title |
Source name |
Description |
Characteristics |
GSM664751 | GPL1261 |
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Mice fed with control diet and starved before sacrifice
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liver tissue, control diet, starved
|
strain: C57Bl/6J
gender: male
tissue: liver
treatment: control diet followed by starvation
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CT-1
Gene expression data from mice fed with control diet and starved before sacrifice.
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| Sample_geo_accession | GSM664751
| | Sample_status | Public on Aug 26 2011
| | Sample_submission_date | Jan 31 2011
| | Sample_last_update_date | Aug 26 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | After an acclimatization period of 1 week, the mice were fed a control diet (CT) (D08041805, Research diets, New Brunswick, USA) or an n-3 PUFA-depleted diet (DEF) (D08041806, Research diets, New Brunswick, USA) for 3 months. The CT diet contained the following (percent w/w): casein 20, total carbohydrate 72.4 (including corn starch 44.2, sucrose 10, maltodextrin 13.2, cellulose 5), soybean oil 5, mineral mix 3.5 and vitamin mix 1. The depletion was induced by replacing the soybean oil with sunflower oil, which exhibited a higher n-6/n-3 PUFA ratio. The n-6/n-3 PUFA ratio was 6.9 and 127.2 for the CT diet and the DEF diet, respectively. At the end of the study period, mice (CT, n=6; DEF, n=7) were anesthetized (ketamine/xylazine i.p., 100 and 10 mg/kg of body weight, respectively) after a 6h period of fasting. Some mice (CT: n=4 et DEF: n=7) were anesthetized without being starved. Vena cava blood samples were collected in EDTA tubes. After centrifugation (10 min at 1500g), plasma was stored at –80 °C. A fraction of the main liver lobe was fixed-frozen in isopentane and kept at -80°C for histological analysis. The excess tissue material was immediately clamped in liquid N2 and kept at -80°C.
| | Sample_growth_protocol_ch1 | Male C57Bl/6J mice (9 weeks old; Charles River, Brussels, Belgium) were housed in groups of four mice per cage at 22°C in a 12h light/dark cycle and given free access to diet and water.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 = Total RNA was isolated from liver tissue of fasted and fed mice using the TriPure reagent (Roche, Basel, Switzerland). RNA quality was checked using Bioanalyzer (Agilent). Equal amounts of RNA from each mouse (n | 4 to 7 mice per group) were pooled within each group. Double-stranded cDNA was synthesized from total RNA using the One-cycle cDNA synthesis kit (Affymetrix, Santa Clara, USA).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin-labeled cRNA was synthesized using the GeneChip IVT labelling kit (Affymetrix, Santa Clara, USA).
| | Sample_hyb_protocol | cRNA was hybridized to Mouse Genome 430 2.0 arrays (Affymetrix, Santa Clara, USA).
| | Sample_scan_protocol | Affymetrix standard protocol.
| | Sample_data_processing | The MAS5 algorithm was run using GCOS Affymetrix software as follows: the scaling factor using all probe sets was set to 100, the normalize factor was set to 1 and the baseline comparison was done on the control diet hybridization samples.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Jean-Baptiste,,Demoulin
| | Sample_contact_email | Jean-Baptiste.Demoulin@uclouvain.be
| | Sample_contact_laboratory | MEXP unit
| | Sample_contact_department | de Duve Institute
| | Sample_contact_institute | Université catholique de Louvain
| | Sample_contact_address | av Hippocrate 75, UCL74.30
| | Sample_contact_city | Brussels
| | Sample_contact_zip/postal_code | B-1200
| | Sample_contact_country | Belgium
| | Sample_contact_web_link | www.icp.ucl.ac.be/mexp
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM664nnn/GSM664751/suppl/GSM664751.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM664nnn/GSM664751/suppl/GSM664751.CHP.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM664nnn/GSM664751/suppl/GSM664751.xml.gz
| | Sample_series_id | GSE26986
| | Sample_data_row_count | 45101
| | |
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GSM664752 | GPL1261 |
|
Mice fed with n-3 PUFA-depleted diet and starved before sacrifice
|
liver tissue, n-3 PUFA-deficient diet, starved
|
strain: C57Bl/6J
gender: male
tissue: liver
treatment: n-3 polyunsaturated fatty acids (PUFA)-deficient diet followed by starvation
|
DEF-1
Gene expression data from mice fed with n-3 PUFA-depleted diet and starved before sacrifice.
|
| Sample_geo_accession | GSM664752
| | Sample_status | Public on Aug 26 2011
| | Sample_submission_date | Jan 31 2011
| | Sample_last_update_date | Aug 26 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | After an acclimatization period of 1 week, the mice were fed a control diet (CT) (D08041805, Research diets, New Brunswick, USA) or an n-3 PUFA-depleted diet (DEF) (D08041806, Research diets, New Brunswick, USA) for 3 months. The CT diet contained the following (percent w/w): casein 20, total carbohydrate 72.4 (including corn starch 44.2, sucrose 10, maltodextrin 13.2, cellulose 5), soybean oil 5, mineral mix 3.5 and vitamin mix 1. The depletion was induced by replacing the soybean oil with sunflower oil, which exhibited a higher n-6/n-3 PUFA ratio. The n-6/n-3 PUFA ratio was 6.9 and 127.2 for the CT diet and the DEF diet, respectively. At the end of the study period, mice (CT, n=6; DEF, n=7) were anesthetized (ketamine/xylazine i.p., 100 and 10 mg/kg of body weight, respectively) after a 6h period of fasting. Some mice (CT: n=4 et DEF: n=7) were anesthetized without being starved. Vena cava blood samples were collected in EDTA tubes. After centrifugation (10 min at 1500g), plasma was stored at –80 °C. A fraction of the main liver lobe was fixed-frozen in isopentane and kept at -80°C for histological analysis. The excess tissue material was immediately clamped in liquid N2 and kept at -80°C.
| | Sample_growth_protocol_ch1 | Male C57Bl/6J mice (9 weeks old; Charles River, Brussels, Belgium) were housed in groups of four mice per cage at 22°C in a 12h light/dark cycle and given free access to diet and water.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 = Total RNA was isolated from liver tissue of fasted and fed mice using the TriPure reagent (Roche, Basel, Switzerland). RNA quality was checked using Bioanalyzer (Agilent). Equal amounts of RNA from each mouse (n | 4 to 7 mice per group) were pooled within each group. Double-stranded cDNA was synthesized from total RNA using the One-cycle cDNA synthesis kit (Affymetrix, Santa Clara, USA).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin-labeled cRNA was synthesized using the GeneChip IVT labelling kit (Affymetrix, Santa Clara, USA).
| | Sample_hyb_protocol | cRNA was hybridized to Mouse Genome 430 2.0 arrays (Affymetrix, Santa Clara, USA).
| | Sample_scan_protocol | Affymetrix standard protocol.
| | Sample_data_processing | The MAS5 algorithm was run using GCOS Affymetrix software as follows: the scaling factor using all probe sets was set to 100, the normalize factor was set to 1 and the baseline comparison was done on the control diet hybridization samples.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Jean-Baptiste,,Demoulin
| | Sample_contact_email | Jean-Baptiste.Demoulin@uclouvain.be
| | Sample_contact_laboratory | MEXP unit
| | Sample_contact_department | de Duve Institute
| | Sample_contact_institute | Université catholique de Louvain
| | Sample_contact_address | av Hippocrate 75, UCL74.30
| | Sample_contact_city | Brussels
| | Sample_contact_zip/postal_code | B-1200
| | Sample_contact_country | Belgium
| | Sample_contact_web_link | www.icp.ucl.ac.be/mexp
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM664nnn/GSM664752/suppl/GSM664752.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM664nnn/GSM664752/suppl/GSM664752.CHP.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM664nnn/GSM664752/suppl/GSM664752.xml.gz
| | Sample_series_id | GSE26986
| | Sample_data_row_count | 45101
| | |
|
GSM664753 | GPL1261 |
|
Mice fed with control diet
|
liver tissue, control diet
|
strain: C57Bl/6J
gender: male
tissue: liver
treatment: control diet
|
CT-4
Gene expression data from mice fed with control diet.
|
| Sample_geo_accession | GSM664753
| | Sample_status | Public on Aug 26 2011
| | Sample_submission_date | Jan 31 2011
| | Sample_last_update_date | Aug 26 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | After an acclimatization period of 1 week, the mice were fed a control diet (CT) (D08041805, Research diets, New Brunswick, USA) or an n-3 PUFA-depleted diet (DEF) (D08041806, Research diets, New Brunswick, USA) for 3 months. The CT diet contained the following (percent w/w): casein 20, total carbohydrate 72.4 (including corn starch 44.2, sucrose 10, maltodextrin 13.2, cellulose 5), soybean oil 5, mineral mix 3.5 and vitamin mix 1. The depletion was induced by replacing the soybean oil with sunflower oil, which exhibited a higher n-6/n-3 PUFA ratio. The n-6/n-3 PUFA ratio was 6.9 and 127.2 for the CT diet and the DEF diet, respectively. At the end of the study period, mice (CT, n=6; DEF, n=7) were anesthetized (ketamine/xylazine i.p., 100 and 10 mg/kg of body weight, respectively) after a 6h period of fasting. Some mice (CT: n=4 et DEF: n=7) were anesthetized without being starved. Vena cava blood samples were collected in EDTA tubes. After centrifugation (10 min at 1500g), plasma was stored at –80 °C. A fraction of the main liver lobe was fixed-frozen in isopentane and kept at -80°C for histological analysis. The excess tissue material was immediately clamped in liquid N2 and kept at -80°C.
| | Sample_growth_protocol_ch1 | Male C57Bl/6J mice (9 weeks old; Charles River, Brussels, Belgium) were housed in groups of four mice per cage at 22°C in a 12h light/dark cycle and given free access to diet and water.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 = Total RNA was isolated from liver tissue of fasted and fed mice using the TriPure reagent (Roche, Basel, Switzerland). RNA quality was checked using Bioanalyzer (Agilent). Equal amounts of RNA from each mouse (n | 4 to 7 mice per group) were pooled within each group. Double-stranded cDNA was synthesized from total RNA using the One-cycle cDNA synthesis kit (Affymetrix, Santa Clara, USA).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin-labeled cRNA was synthesized using the GeneChip IVT labelling kit (Affymetrix, Santa Clara, USA).
| | Sample_hyb_protocol | cRNA was hybridized to Mouse Genome 430 2.0 arrays (Affymetrix, Santa Clara, USA).
| | Sample_scan_protocol | Affymetrix standard protocol.
| | Sample_data_processing | The MAS5 algorithm was run using GCOS Affymetrix software as follows: the scaling factor using all probe sets was set to 100, the normalize factor was set to 1 and the baseline comparison was done on the control diet hybridization samples.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Jean-Baptiste,,Demoulin
| | Sample_contact_email | Jean-Baptiste.Demoulin@uclouvain.be
| | Sample_contact_laboratory | MEXP unit
| | Sample_contact_department | de Duve Institute
| | Sample_contact_institute | Université catholique de Louvain
| | Sample_contact_address | av Hippocrate 75, UCL74.30
| | Sample_contact_city | Brussels
| | Sample_contact_zip/postal_code | B-1200
| | Sample_contact_country | Belgium
| | Sample_contact_web_link | www.icp.ucl.ac.be/mexp
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM664nnn/GSM664753/suppl/GSM664753.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM664nnn/GSM664753/suppl/GSM664753.CHP.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM664nnn/GSM664753/suppl/GSM664753.xml.gz
| | Sample_series_id | GSE26986
| | Sample_data_row_count | 45101
| | |
|
GSM664754 | GPL1261 |
|
Mice fed with n-3 PUFA-depleted diet
|
liver tissue, n-3 PUFA-deficient diet
|
strain: C57Bl/6J
gender: male
tissue: liver
treatment: n-3 polyunsaturated fatty acids (PUFA)-deficient diet
|
DEF-4
Gene expression data from mice fed with n-3 PUFA-depleted diet.
|
| Sample_geo_accession | GSM664754
| | Sample_status | Public on Aug 26 2011
| | Sample_submission_date | Jan 31 2011
| | Sample_last_update_date | Aug 26 2011
| | Sample_type | RNA
| | Sample_channel_count | 1
| | Sample_organism_ch1 | Mus musculus
| | Sample_taxid_ch1 | 10090
| | Sample_treatment_protocol_ch1 | After an acclimatization period of 1 week, the mice were fed a control diet (CT) (D08041805, Research diets, New Brunswick, USA) or an n-3 PUFA-depleted diet (DEF) (D08041806, Research diets, New Brunswick, USA) for 3 months. The CT diet contained the following (percent w/w): casein 20, total carbohydrate 72.4 (including corn starch 44.2, sucrose 10, maltodextrin 13.2, cellulose 5), soybean oil 5, mineral mix 3.5 and vitamin mix 1. The depletion was induced by replacing the soybean oil with sunflower oil, which exhibited a higher n-6/n-3 PUFA ratio. The n-6/n-3 PUFA ratio was 6.9 and 127.2 for the CT diet and the DEF diet, respectively. At the end of the study period, mice (CT, n=6; DEF, n=7) were anesthetized (ketamine/xylazine i.p., 100 and 10 mg/kg of body weight, respectively) after a 6h period of fasting. Some mice (CT: n=4 et DEF: n=7) were anesthetized without being starved. Vena cava blood samples were collected in EDTA tubes. After centrifugation (10 min at 1500g), plasma was stored at –80 °C. A fraction of the main liver lobe was fixed-frozen in isopentane and kept at -80°C for histological analysis. The excess tissue material was immediately clamped in liquid N2 and kept at -80°C.
| | Sample_growth_protocol_ch1 | Male C57Bl/6J mice (9 weeks old; Charles River, Brussels, Belgium) were housed in groups of four mice per cage at 22°C in a 12h light/dark cycle and given free access to diet and water.
| | Sample_molecule_ch1 | total RNA
| | Sample_extract_protocol_ch1 = Total RNA was isolated from liver tissue of fasted and fed mice using the TriPure reagent (Roche, Basel, Switzerland). RNA quality was checked using Bioanalyzer (Agilent). Equal amounts of RNA from each mouse (n | 4 to 7 mice per group) were pooled within each group. Double-stranded cDNA was synthesized from total RNA using the One-cycle cDNA synthesis kit (Affymetrix, Santa Clara, USA).
| | Sample_label_ch1 | biotin
| | Sample_label_protocol_ch1 | Biotin-labeled cRNA was synthesized using the GeneChip IVT labelling kit (Affymetrix, Santa Clara, USA).
| | Sample_hyb_protocol | cRNA was hybridized to Mouse Genome 430 2.0 arrays (Affymetrix, Santa Clara, USA).
| | Sample_scan_protocol | Affymetrix standard protocol.
| | Sample_data_processing | The MAS5 algorithm was run using GCOS Affymetrix software as follows: the scaling factor using all probe sets was set to 100, the normalize factor was set to 1 and the baseline comparison was done on the control diet hybridization samples.
| | Sample_platform_id | GPL1261
| | Sample_contact_name | Jean-Baptiste,,Demoulin
| | Sample_contact_email | Jean-Baptiste.Demoulin@uclouvain.be
| | Sample_contact_laboratory | MEXP unit
| | Sample_contact_department | de Duve Institute
| | Sample_contact_institute | Université catholique de Louvain
| | Sample_contact_address | av Hippocrate 75, UCL74.30
| | Sample_contact_city | Brussels
| | Sample_contact_zip/postal_code | B-1200
| | Sample_contact_country | Belgium
| | Sample_contact_web_link | www.icp.ucl.ac.be/mexp
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM664nnn/GSM664754/suppl/GSM664754.CEL.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM664nnn/GSM664754/suppl/GSM664754.CHP.gz
| | Sample_supplementary_file | ftp://ftp.ncbi.nlm.nih.gov/geo/samples/GSM664nnn/GSM664754/suppl/GSM664754.xml.gz
| | Sample_series_id | GSE26986
| | Sample_data_row_count | 45101
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