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WormQTL2: an interactive platform for systems genetics in Caenorhabditis elegans

By Basten L. Snoek, Mark G. Sterken, Margi Hartanto, Albert-Jan van Zuilichem, Jan E. Kammenga, Dick de Ridder, Harm Nijveen

Posted 12 Sep 2019
bioRxiv DOI: 10.1101/766386 (published DOI: 10.1093/database/baz149)

Quantitative genetics provides the tools for linking polymorphic loci (QTLs) to trait variation. Linkage analysis of gene expression is an established and widely applied method, leading to the identification of expression quantitative trait loci (eQTLs). (e)QTL detection facilitates the identification and understanding of the underlying molecular components and pathways, yet (e)QTL data access and mining often is a bottleneck. Here we present WormQTL2 (www.bioinformatics.nl/WormQTL2/), a database and platform for comparative investigations and meta-analyses of published (e)QTL datasets in the model nematode worm C. elegans . WormQTL2 integrates six eQTL studies spanning 11 conditions as-well-as over 1000 traits from 32 studies and allows experimental results to be compared, reused, and extended upon to guide further experiments and conduct systems-genetic analyses. For example, one can easily screen a locus for specific cis-eQTLs that could be linked to variation in other traits, detect gene-by-environment interactions by comparing eQTLs under different conditions, or find correlations between QTL profiles of classical traits and gene expression.

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