fly_rils_rad_data
Genetic Dissection of  Model Complex Trait Using the Drosophila Synthetic Population Resource
Genetic dissection of complex, polygenic trait variation is a key goal of medical and   evolutionary genetics. Attempts to identify genetic variants underlying complex traits   have been plagued by low mapping resolution in traditional linkage studies, and an   inability to identify variants that cumulatively explain the bulk of standing genetic   variation in genome-wide association studies (GWAS). Thus, much of the heritability   remains unexplained for most complex traits. Here we describe a novel, freely-available   resource for the Drosophila community consisting of two sets of recombinant inbred   lines (RILs), each derived from an advanced generation cross between a different set of   eight highly-inbred, completely resequenced founders. The Drosophila Synthetic   Population Resource (DSPR) has been designed to combine the high mapping   resolution offered by multiple generations of recombination, with the high statistical   power afforded by a linkage-based design. Here, we detail the properties of the   mapping panel of >1,600 genotyped RILs, and provide an empirical demonstration of   the utility of the approach by genetically dissecting alcohol dehydrogenase (ADH)   enzyme activity. We confirm that a large fraction of the variation in this classic   quantitative trait is due to allelic variation at the Adh locus, and additionally identify   several previously unknown modest-effect trans-acting QTL (quantitative trait loci).
Roughly 1700 Recombinant Inbred Lines were genotyped using RADseq.  We made 18 96-plex libraries based on the SgrA1 enzyme.  Each library was sequenced in 3 lanes of the GAII or a single HiSEQ2000 lane.  Barcodes were used to de-plex the reads.  The reads are deposited as ".fq.gz" files corresponding to the reads associated with a specific RIL and replicate lane.