TY - JOUR
T1 - Meta-eQTL
T2 - A tool set for flexible eQTL meta-analysis
AU - Di Narzo, Antonio Fabio
AU - Cheng, Haoxiang
AU - Lu, Jianwei
AU - Hao, Ke
N1 - Publisher Copyright:
© Di Narzo et al.; licensee BioMed Central Ltd.
PY - 2014/11/28
Y1 - 2014/11/28
N2 - Background: Increasing number of eQTL (Expression Quantitative Trait Loci) datasets facilitate genetics and systems biology research. Meta-analysis tools are in need to jointly analyze datasets of same or similar issue types to improve statistical power especially in trans-eQTL mapping. Meta-analysis framework is also necessary for ChrX eQTL discovery. Results: We developed a novel tool, for fast eQTL meta-analysis of arbitrary sample size and arbitrary number of datasets. Further, this tool accommodates versatile modeling, eg. non-parametric model and mixed effect models. In addition, readily handles calculation of chrX eQTLs. Conclusions: We demonstrated and validated as fast and comprehensive tool to meta-analyze multiple datasets and ChrX eQTL discovery. is a set of command line utilities written in R, with some computationally intensive parts written in C. The software runs on Linux platforms and is designed to intelligently adapt to high performance computing (HPC) cluster. We applied the novel tool to liver and adipose tissue data, and revealed eSNPs underlying diabetes GWAS loci.
AB - Background: Increasing number of eQTL (Expression Quantitative Trait Loci) datasets facilitate genetics and systems biology research. Meta-analysis tools are in need to jointly analyze datasets of same or similar issue types to improve statistical power especially in trans-eQTL mapping. Meta-analysis framework is also necessary for ChrX eQTL discovery. Results: We developed a novel tool, for fast eQTL meta-analysis of arbitrary sample size and arbitrary number of datasets. Further, this tool accommodates versatile modeling, eg. non-parametric model and mixed effect models. In addition, readily handles calculation of chrX eQTLs. Conclusions: We demonstrated and validated as fast and comprehensive tool to meta-analyze multiple datasets and ChrX eQTL discovery. is a set of command line utilities written in R, with some computationally intensive parts written in C. The software runs on Linux platforms and is designed to intelligently adapt to high performance computing (HPC) cluster. We applied the novel tool to liver and adipose tissue data, and revealed eSNPs underlying diabetes GWAS loci.
UR - http://www.scopus.com/inward/record.url?scp=84923864092&partnerID=8YFLogxK
U2 - 10.1186/s12859-014-0392-0
DO - 10.1186/s12859-014-0392-0
M3 - Article
C2 - 25431350
AN - SCOPUS:84923864092
SN - 1471-2105
VL - 15
JO - BMC Bioinformatics
JF - BMC Bioinformatics
IS - 1
M1 - 392
ER -