Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

Profiling muscle from aged rat model for sarcopenia

ABSTRACT: This program aims at identifying a muscle gene signature associated with aging in rat sarcopenia model The profiling data was analyzed by identifying genes that were up- and down-regulated at selected p value and fold change in the muscle of aged rats compared to the young controls.

ORGANISM(S): Rattus norvegicus

SUBMITTER: I-Ming Wang

PROVIDER: E-GEOD-38077 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Publications

Systems analysis of eleven rodent disease models reveals an inflammatome signature and key drivers.

Wang I-Ming IM Zhang Bin B Yang Xia X Zhu Jun J Stepaniants Serguei S Zhang Chunsheng C Meng Qingying Q Peters Mette M He Yudong Y Ni Chester C Slipetz Deborah D Crackower Michael A MA Houshyar Hani H Tan Christopher M CM Asante-Appiah Ernest E O'Neill Gary G Luo Mingjuan Jane MJ Thieringer Rolf R Yuan Jeffrey J Chiu Chi-Sung CS Lum Pek Yee PY Lamb John J Boie Yves Y Wilkinson Hilary A HA Schadt Eric E EE Dai Hongyue H Roberts Christopher C

Molecular systems biology 20120717

Common inflammatome gene signatures as well as disease-specific signatures were identified by analyzing 12 expression profiling data sets derived from 9 different tissues isolated from 11 rodent inflammatory disease models. The inflammatome signature significantly overlaps with known drug targets and co-expressed gene modules linked to metabolic disorders and cancer. A large proportion of genes in this signature are tightly connected in tissue-specific Bayesian networks (BNs) built from multiple ...[more]

PMID: 22806142

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Project description:Acute toxic responses to a single 50 mg/kg oral dose of 1-napthylisothiocyanate (ANIT) were evaluated by microarray analysis of laser capture-microdissected rat biliary epithelium or hepatic parenchyma at 2 and 6 hours post-dose. Selective and dramatic differences between the biliary epithelium and the hepatic parenchyma were evident as soon as 2 hours at which time 375 genes were altered in biliary epithelium, but only a nominal 38 genes were altered in the hepatic parenchyma. Gene expression analysis revealed increased expression of genes involved in the unfolded protein response and ER stress in biliary epithelial cells, but no alteration of these genes in hepatocytes. By 6 hours post dose, 620 genes showed altered expression in biliary epithelium while there were only 32 genes altered in hepatic parenchyma. At this timepoint, analysis of the biliary epithelium revealed decreased expression of genes involved in the unfolded protein response compared to the 2 hour time point, and increased expression at 6 hours of genes involved in protein degradation such as proteasome-ubquination pathways, and genes associated with cell death. Our analysis revealed early loss of biliary epithelial integrity and attempts at repair of damage with subsequent activation of protein degradation and cell fate decisions leading to death pathways within a 6 hour time course. During this same time interval, hepatic parenchymal gene expression changed little and mainly reflected a decrease in enterohepatic circulation of bile acids and an increase in ribosomal proteins which may signal an adaptive change to reduced bile acid delivery to the liver and an increased demand for bile acids and glutathione-mediated transport of ANIT. This versatile approach provides a precise evaluation of distinct cell populations, biliary epithelium and hepatic parenchyma, in situ. (Cullen et.al., Toxicologic Pathology 2010) Rat were exposed to a single dose of 1-napthylisothiocyanate (ANIT) or vehicle. Laser capture-microdissection was used to isolate rat biliary epithelium or hepatic parenchyma at 2 and 6 hours post-dose. Affymetrix GeneChips and Rosetta Resolver were used to determine differential gene expression.

Dataset Information

Profiling muscle from aged rat model for sarcopenia

Publications

Systems analysis of eleven rodent disease models reveals an inflammatome signature and key drivers.

Similar Datasets

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