Paper Info
Title
Matrix eQTL: ultra fast eQTL analysis via large matrix operations.
Abstract
Results: We have developed a new software for computationally efficient eQTL analysis called Matrix eQTL. In tests on large datasets, it was 2-3 orders of magnitude faster than existing popular tools for QTL/eQTL analysis, while finding the same eQTLs. The fast performance is achieved by special preprocessing and expressing the most computationally intensive part of the algorithm in terms of large matrix operations. Matrix eQTL supports additive linear and ANOVA models with covariates, including models with correlated and heteroskedastic errors. The issue of multiple testing is addressed by calculating false discovery rate; this can be done separately for cis- and trans-eQTLs.
Year
DOI
Venue
2012
10.1093/bioinformatics/bts163
BIOINFORMATICS
Keywords
Field
DocType
expression quantitative trait loci,gene transcription,gene expression,genotype,quantitative trait loci,algorithms,linear regression,linear model
Data mining,Covariate,Heteroscedasticity,False discovery rate,Quantitative trait locus,Computer science,Multiple comparisons problem,Preprocessor,Expression quantitative trait loci,Bioinformatics,Matrix multiplication
Journal
Volume
Issue
ISSN
28
10
1367-4803
Citations 
PageRank 
References 
22
2.54
5
Authors
1
Name
Order
Citations
PageRank
Andrey A Shabalin11038.38