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WASP: allele-specific software for robust discovery of molecular quantitative trait loci

By Bryce van de Geijn, Graham McVicker, Yoav Gilad, Jonathan K Pritchard

Posted 07 Nov 2014
bioRxiv DOI: 10.1101/011221 (published DOI: 10.1038/nmeth.3582)

Allele-specific sequencing reads provide a powerful signal for identifying molecular quantitative trait loci (QTLs), however they are challenging to analyze and prone to technical artefacts. Here we describe WASP, a suite of tools for unbiased allele-specific read mapping and discovery of molecular QTLs. Using simulated reads, RNA-seq reads and ChIP-seq reads, we demonstrate that our approach has a low error rate and is far more powerful than existing QTL mapping approaches.

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