Transcriptomics

Dataset Information

24

Pathway analysis of expression QTL data in fat identifies a role for cyclin H in oxidative phosphorylation


ABSTRACT: Genome-wide gene expression profiling has been extensively used to generate biological hypotheses based on differential expression. Recently, many studies have used microarrays to measure gene expression levels across genetic mapping populations. These gene expression phenotypes have been used for genome-wide association analyses, an analysis referred to as expression QTL (eQTL) mapping. Here, eQTL analysis was performed in fat issue from 28 inbred strains of mice. We focused our analysis on “trans-eQTL bands”, defined as instances in which the expression patterns of many genes were all associated to a common genetic locus. Genes comprising trans-eQTL bands were screened for enrichments in functional gene sets representing known biological pathways, while genes located at associated trans-eQTL band loci were considered candidate transcriptional modulators. We demonstrate that these patterns reflect previously characterized relationships between known upstream transcriptional regulators and their downstream target genes. Moreover, we used this strategy to identify both novel regulators and novel members of known pathways. Finally, based on putative regulatory relationship identified in our analysis, we validated in vitro a previously uncharacterized role for cyclin H in the regulation of oxidative phosphorylation. Keywords: strain comparison Overall design: tissues were taken from different mouse strains under identical baseline conditions

INSTRUMENT(S): GNF1M

ORGANISM(S): Mus musculus  

SUBMITTER: John R Walker  

PROVIDER: GSE8028 | GEO | 2008-05-01

SECONDARY ACCESSION(S): PRJNA100837

REPOSITORIES: GEO

Similar Datasets

2008-05-01 | E-GEOD-8028 | ArrayExpress
2008-05-22 | GSE11437 | GEO
2008-05-22 | GSE11514 | GEO
2008-05-22 | E-GEOD-11514 | ArrayExpress
2008-05-22 | E-GEOD-11437 | ArrayExpress
2014-05-01 | E-GEOD-54089 | ArrayExpress
2011-06-29 | GSE27052 | GEO
2014-06-05 | E-GEOD-58239 | ArrayExpress
2011-06-29 | E-GEOD-27052 | ArrayExpress
| GSE4081 | GEO