ArticleGenome biology2002
In silico discovery of gene-coding variants in murine quantitative trait loci using strain-specific genome sequence databases.
Article in Genome biology, 2002. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 4 papers.
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4 citing papers in PubMed, 27 citations in OpenAlex.
- Five quantitative trait loci control radiation-induced adenoma multiplicity in Mom1R Apc Min/+ mice.PloS one · 2009Article
- Mouse SNP Miner: an annotated database of mouse functional single nucleotide polymorphisms.BMC genomics · 2007Article
- A strategy for the integration of QTL, gene expression, and sequence analyses.Mammalian genome : official journal of the International Mammalian Genome Society · 2003Article
- Genomic approaches to the genetics of alcoholism.Alcohol research & health : the journal of the National Institute on Alcohol Abuse and Alcoholism · 2002Article
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Authors and funding
6 authors at 3 institutions in 1 country.
Funding
Abstract
backgroundThe identification of genes underlying complex traits has been aided by quantitative trait locus (QTL) mapping approaches, which in turn have benefited from advances in mammalian genome research. Most recently, whole-genome draft sequences and assemblies have been generated for mouse strains that have been used for a large fraction of QTL mapping studies. Here we show how such strain-specific mouse genome sequence databases can be used as part of a high-throughput pipeline for the in silico discovery of gene-coding variations within murine QTLs. As a test of this approach we focused on two QTLs on mouse chromosomes 1 and 13 that are involved in physical dependence on alcohol.
resultsInterstrain alignment of sequences derived from the relevant mouse strain genome sequence databases for 199 QTL-localized genes spanning 210,020 base-pairs of coding sequence identified 21 genes with different coding sequences for the progenitor strains. Several of these genes, including four that exhibit strong phenotypic links to chronic alcohol withdrawal, are promising candidates to underlie these QTLs.
conclusionsThis approach has wide general utility, and should be applicable to any of the several hundred mouse QTLs, encompassing over 60 different complex traits, that have been identified using strains for which relatively complete genome sequences are available.
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