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Genotyping by array of 1407 Heterogeneous Stock rats and the eight HS progenitors to study the genetic basis of complex traits.

ABSTRACT: These Heterogeneous Stock (HS) rats are derived from eight inbred progenitors through more than 60 generations of outbreeding. As a result they are fine-grained mosaics of the founder genomes, and well suited for high-resolution genetic mapping of complex traits. This experiment provides dense genotyping data for 1407 HS rats, 15 duplicates, and the 8 progenitors. From these data, each HS rat chromosome can be reconstructed as a mosaic of progenitor haplotypes. Together with phenotype and sequence data available elsewhere (DOI:10.1038/ng.2644), these data allowed fine-mapping of 160 complex traits, and identified causal genes at the QTLs. The sequences of the progenitors are available from ENA (study accession PRJEB3358, http://www.ebi.ac.uk/ena/data/view/PRJEB3358). A series of supporting data files are available from http://www.ebi.ac.uk/arrayexpress/files/E-MTAB-2332 , with an accompanying list (suppl_files_description.xlsx) describing each supporting file.

ORGANISM(S): Rattus norvegicus

SUBMITTER: Amelie Baud 

PROVIDER: E-MTAB-2332 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Publications

Combined sequence-based and genetic mapping analysis of complex traits in outbred rats.

Baud Amelie A   Hermsen Roel R   Guryev Victor V   Stridh Pernilla P   Graham Delyth D   McBride Martin W MW   Foroud Tatiana T   Calderari Sophie S   Diez Margarita M   Ockinger Johan J   Beyeen Amennai D AD   Gillett Alan A   Abdelmagid Nada N   Guerreiro-Cacais Andre Ortlieb AO   Jagodic Maja M   Tuncel Jonatan J   Norin Ulrika U   Beattie Elisabeth E   Huynh Ngan N   Miller William H WH   Koller Daniel L DL   Alam Imranul I   Falak Samreen S   Osborne-Pellegrin Mary M   Martinez-Membrives Esther E   Canete Toni T   Blazquez Gloria G   Vicens-Costa Elia E   Mont-Cardona Carme C   Diaz-Moran Sira S   Tobena Adolf A   Hummel Oliver O   Zelenika Diana D   Saar Kathrin K   Patone Giannino G   Bauerfeind Anja A   Bihoreau Marie-Therese MT   Heinig Matthias M   Lee Young-Ae YA   Rintisch Carola C   Schulz Herbert H   Wheeler David A DA   Worley Kim C KC   Muzny Donna M DM   Gibbs Richard A RA   Lathrop Mark M   Lansu Nico N   Toonen Pim P   Ruzius Frans Paul FP   de Bruijn Ewart E   Hauser Heidi H   Adams David J DJ   Keane Thomas T   Atanur Santosh S SS   Aitman Tim J TJ   Flicek Paul P   Malinauskas Tomas T   Jones E Yvonne EY   Ekman Diana D   Lopez-Aumatell Regina R   Dominiczak Anna F AF   Johannesson Martina M   Holmdahl Rikard R   Olsson Tomas T   Gauguier Dominique D   Hubner Norbert N   Fernandez-Teruel Alberto A   Cuppen Edwin E   Mott Richard R   Flint Jonathan J  

Nature genetics 20130526 7

Genetic mapping on fully sequenced individuals is transforming understanding of the relationship between molecular variation and variation in complex traits. Here we report a combined sequence and genetic mapping analysis in outbred rats that maps 355 quantitative trait loci for 122 phenotypes. We identify 35 causal genes involved in 31 phenotypes, implicating new genes in models of anxiety, heart disease and multiple sclerosis. The relationship between sequence and genetic variation is unexpect  ...[more]

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