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Transcriptional Regulatory Inference from Genetics of Gene ExpRession

Bioconductor version: Release (3.1)

This R package provides tools for the statistical analysis of integrative genomic data that involve some combination of: genotypes, high-dimensional intermediate traits (e.g., gene expression, protein abundance), and higher-order traits (phenotypes). The package includes functions to: (1) construct global linkage maps between genetic markers and gene expression; (2) analyze multiple-locus linkage (epistasis) for gene expression; (3) quantify the proportion of genome-wide variation explained by each locus and identify eQTL hotspots; (4) estimate pair-wise causal gene regulatory probabilities and construct gene regulatory networks; and (5) identify causal genes for a quantitative trait of interest.

Author: Lin S. Chen <lchen at>, Dipen P. Sangurdekar <dps at> and John D. Storey <jstorey at>

Maintainer: John D. Storey <jstorey at>

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biocViews GeneExpression, GeneticVariability, Genetics, Microarray, SNP, Software
Version 1.14.0
In Bioconductor since BioC 2.9 (R-2.14) (4 years)
License GPL-3
Depends R (>= 2.14.0), corpcor, qtl
Imports qvalue, methods, graphics, sva
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