title: Mouse genomic variation and its effect on phenotypes and gene regulation.
abstract: We report genome sequences of 17 inbred strains of laboratory mice and identify almost ten times more variants than previously known. We use these genomes to explore the phylogenetic history of the laboratory mouse and to examine the functional consequences of allele-specific variation on transcript abundance, revealing that at least 12% of transcripts show a significant tissue-specific expression bias. By identifying candidate functional variants at 718 quantitative trait loci we show that the molecular nature of functional variants and their position relative to genes vary according to the effect size of the locus. These sequences provide a starting point for a new era in the functional analysis of a key model organism.
authors.affiliation: The Wellcome Trust Sanger Institute, Hinxton, Cambridge CB10 1HH, UK.
authors.forename: Thomas M
authors.initials: TM
authors.lastname: Keane
authors.forename: Leo
authors.initials: L
authors.lastname: Goodstadt
authors.forename: Petr
authors.initials: P
authors.lastname: Danecek
authors.forename: Michael A
authors.initials: MA
authors.lastname: White
authors.forename: Kim
authors.initials: K
authors.lastname: Wong
authors.forename: Binnaz
authors.initials: B
authors.lastname: Yalcin
authors.forename: Andreas
authors.initials: A
authors.lastname: Heger
authors.forename: Avigail
authors.initials: A
authors.lastname: Agam
authors.forename: Guy
authors.initials: G
authors.lastname: Slater
authors.forename: Martin
authors.initials: M
authors.lastname: Goodson
authors.forename: Nicholas A
authors.initials: NA
authors.lastname: Furlotte
authors.forename: Eleazar
authors.initials: E
authors.lastname: Eskin
authors.forename: Christoffer
authors.initials: C
authors.lastname: Nellåker
authors.forename: Helen
authors.initials: H
authors.lastname: Whitley
authors.forename: James
authors.initials: J
authors.lastname: Cleak
authors.forename: Deborah
authors.initials: D
authors.lastname: Janowitz
authors.forename: Polinka
authors.initials: P
authors.lastname: Hernandez-Pliego
authors.forename: Andrew
authors.initials: A
authors.lastname: Edwards
authors.forename: T Grant
authors.initials: TG
authors.lastname: Belgard
authors.forename: Peter L
authors.initials: PL
authors.lastname: Oliver
authors.forename: Rebecca E
authors.initials: RE
authors.lastname: McIntyre
authors.forename: Amarjit
authors.initials: A
authors.lastname: Bhomra
authors.forename: Jérôme
authors.initials: J
authors.lastname: Nicod
authors.forename: Xiangchao
authors.initials: X
authors.lastname: Gan
authors.forename: Wei
authors.initials: W
authors.lastname: Yuan
authors.forename: Louise
authors.initials: L
authors.lastname: van der Weyden
authors.forename: Charles A
authors.initials: CA
authors.lastname: Steward
authors.forename: Sendu
authors.initials: S
authors.lastname: Bala
authors.forename: Jim
authors.initials: J
authors.lastname: Stalker
authors.forename: Richard
authors.initials: R
authors.lastname: Mott
authors.forename: Richard
authors.initials: R
authors.lastname: Durbin
authors.forename: Ian J
authors.initials: IJ
authors.lastname: Jackson
authors.forename: Anne
authors.initials: A
authors.lastname: Czechanski
authors.forename: José Afonso
authors.initials: JA
authors.lastname: Guerra-Assunção
authors.forename: Leah Rae
authors.initials: LR
authors.lastname: Donahue
authors.forename: Laura G
authors.initials: LG
authors.lastname: Reinholdt
authors.forename: Bret A
authors.initials: BA
authors.lastname: Payseur
authors.forename: Chris P
authors.initials: CP
authors.lastname: Ponting
authors.forename: Ewan
authors.initials: E
authors.lastname: Birney
authors.forename: Jonathan
authors.initials: J
authors.lastname: Flint
authors.forename: David J
authors.initials: DJ
authors.lastname: Adams
mesh_terms: D000483:Alleles; D000818:Animals; D000830:Animals, Laboratory / Q000235:genetics; D005786:Gene Expression Regulation / Q000235:genetics*; D014644:Genetic Variation / Q000235:genetics*; D016678:Genome / Q000235:genetics*; D023281:Genomics; D051379:Mice / Q000145:classification / Q000235:genetics*; D008810:Mice, Inbred C57BL / Q000235:genetics; D008815:Mice, Inbred Strains / Q000235:genetics*; D010641:Phenotype; D010802:Phylogeny; D040641:Quantitative Trait Loci / Q000235:genetics