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Veqtl-mapper: variance association mapping for molecular phenotypes.

ABSTRACT:

Motivation

Genetic loci associated with the variance of phenotypic traits have been of recent interest as they can be signatures of genetic interactions, gene by environment interactions, parent of origin effects and canalization. We present a fast efficient tool to map loci affecting variance of gene expression and other molecular phenotypes in cis. Results: Applied to the publicly available Geuvadis gene expression dataset, we identify 816 loci associated with variance of gene expression using an additive model, and 32 showing differences in variance between homozygous and heterozygous alleles, signatures of parent of origin effects.

Availability and implementation

Documentation and links to source code and binaries for linux can be found at https://funpopgen.github.io/veqm/ .

Contact

andrew.brown@unige.ch.

Supplementary information

Supplementary data are available at Bioinformatics online.

SUBMITTER: Brown AA

PROVIDER: S-EPMC5860057 | biostudies-literature | 2017 Sep

REPOSITORIES: biostudies-literature

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veqtl-mapper: variance association mapping for molecular phenotypes.

Brown Andrew Anand AA

Bioinformatics (Oxford, England) 20170901 17

<h4>Motivation</h4>Genetic loci associated with the variance of phenotypic traits have been of recent interest as they can be signatures of genetic interactions, gene by environment interactions, parent of origin effects and canalization. We present a fast efficient tool to map loci affecting variance of gene expression and other molecular phenotypes in cis. Results: Applied to the publicly available Geuvadis gene expression dataset, we identify 816 loci associated with variance of gene expressi ...[more]

PMID: 28449110

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