FitSNPs: highly differentially expressed genes are more likely to have variants associated with disease.

ABSTRACT:

Background

Candidate single nucleotide polymorphisms (SNPs) from genome-wide association studies (GWASs) were often selected for validation based on their functional annotation, which was inadequate and biased. We propose to use the more than 200,000 microarray studies in the Gene Expression Omnibus to systematically prioritize candidate SNPs from GWASs.

Results

We analyzed all human microarray studies from the Gene Expression Omnibus, and calculated the observed frequency of differential expression, which we called differential expression ratio, for every human gene. Analysis conducted in a comprehensive list of curated disease genes revealed a positive association between differential expression ratio values and the likelihood of harboring disease-associated variants. By c

SUBMITTER: Chen R 

PROVIDER: S-EPMC2646274 | biostudies-literature | 2008

REPOSITORIES: biostudies-literature