title: Genomes and phenomes of a population of outbred rats and its progenitors.
abstract: Finding genetic variants that contribute to phenotypic variation is one of the main challenges of modern genetics. We used an outbred population of rats (Heterogeneous Stock, HS) in a combined sequence-based and genetic mapping analysis to identify sequence variants and genes contributing to complex traits of biomedical relevance. Here we describe the sequences of the eight inbred progenitors of the HS and the variants that segregate between them. We report the genotyping of 1,407 HS rats, and the collection from 2,006 rats of 195 phenotypic measures that are relevant to models of anxiety, type 2 diabetes, hypertension and osteoporosis. We make available haplotype dosages for the 1,407 genotyped rats, since genetic mapping in the HS is best carried out by reconstructing each HS chromosome as a mosaic of the progenitor genomes. Finally, we have deposited an R object that makes it easy to incorporate our sequence data into any genetic study of HS rats. Our genetic data are available for both Rnor3.4 and Rnor5.0 rat assemblies.
authors.affiliation: EMBL-EBI, Wellcome Trust Genome Campus, Hinxton , Cambridgeshire, CB10 1SD, UK.
authors.forename: Amelie
authors.initials: A
authors.lastname: Baud
authors.affiliation: European Research Institute for the Biology of Ageing, Rijksuniversiteit Groningen, Universitair Medisch Centrum Groningen , Groningen, 9700 AD, The Netherlands.
authors.forename: Victor
authors.initials: V
authors.lastname: Guryev
authors.affiliation: Max-Delbruck Center for Molecular Medicine , Berlin, 13125, Germany.
authors.forename: Oliver
authors.initials: O
authors.lastname: Hummel
authors.affiliation: Department of Medical Biochemistry and Biophysics, Division of Medical Inflammation Research, Karolinska Institutet , Stockholm, SSE-17177 Sweden.
authors.forename: Martina
authors.initials: M
authors.lastname: Johannesson
authors.affiliation: Wellcome Trust Centre for Human Genetics, Roosevelt Drive , Oxford OX3 7BN, UK.
authors.forename: Jonathan
authors.initials: J
authors.lastname: Flint