FastMap: fast eQTL mapping in homozygous populations.

ABSTRACT:

Motivation

Gene expression Quantitative Trait Locus (eQTL) mapping measures the association between transcript expression and genotype in order to find genomic locations likely to regulate transcript expression. The availability of both gene expression and high-density genotype data has improved our ability to perform eQTL mapping in inbred mouse and other homozygous populations. However, existing eQTL mapping software does not scale well when the number of transcripts and markers are on the order of 10(5) and 10(5)-10(6), respectively.

Results

We propose a new method, FastMap, for fast and efficient eQTL mapping in homozygous inbred populations with binary allele calls. FastMap exploits the discrete nature and structure of the measured single nucleotide polymorphisms (SNPs)

SUBMITTER: Gatti DM 

PROVIDER: S-EPMC2642639 | biostudies-literature | 2009 Feb

REPOSITORIES: biostudies-literature