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Keywords {🔍}

strains, genetic, resources, diversity, mouse, captured, inbred, parental, variation, google, scholar, article, cas, genome, resource, strain, distribution, lsdp, fig, css, genetics, derived, analysis, recombinant, subspecies, data, northport, frequency, allele, number, mice, cblj, bxd, chapel, hill, resequencing, level, carolina, systems, lines, collaborative, cross, domesticus, north, threadgill, complex, classical, chromosome, distributed, wildderived,

Topics {✒️}

pardo-manuel de villena de la casa-esperon lsxss recombinant-inbred series full size image fast nearest-neighbor searches affordable high-density genotyping wei wang & david respective genome-wide means high-resolution consensus maps include wild-derived strains lacking wild-derived strains pwd/ph chromosomes introgressed chromosome substitution strains false-negative rate genome-wide congenic strains genome-wide resequencing data original mouse-fancier populations include recombinant inbred consecutive high-resolution intervals complex disease-related traits single classical strain genome-wide association analysis annotated c57bl/6j genome privacy choices/manage cookies 15-strain resequencing project author information authors recombinant-inbred strains recombinant inbred strains article download pdf recombinant inbred lines elucidating strain relationships wei wang recombinant inbred mice parental recipient strain parental strains involved classical inbred strains trait correlation analysis strain distribution patterns leonard mcmillan & david complex trait analysis functional gene variants full access recombinant congenic strains recombinant congenic strains mouse inbred strains progenitor strain information inbred strains trace extant inbred strains laboratory inbred strains progenitor inbred strains

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         headline:The polymorphism architecture of mouse genetic resources elucidated using genome-wide resequencing data: implications for QTL discovery and systems genetics
         description:Mouse genetic resources include inbred strains, recombinant inbred lines, chromosome substitution strains, heterogeneous stocks, and the Collaborative Cross (CC). These resources were generated through various breeding designs that potentially produce different genetic architectures, including the level of diversity represented, the spatial distribution of the variation, and the allele frequencies within the resource. By combining sequencing data for 16 inbred strains and the recorded history of related strains, the architecture of genetic variation in mouse resources was determined. The most commonly used resources harbor only a fraction of the genetic diversity of Mus musculus, which is not uniformly distributed thus resulting in many blind spots. Only resources that include wild-derived inbred strains from subspecies other than M. m. domesticus have no blind spots and a uniform distribution of the variation. Unlike other resources that are primarily suited for gene discovery, the CC is the only resource that can support genome-wide network analysis, which is the foundation of systems genetics. The CC captures significantly more genetic diversity with no blind spots and has a more uniform distribution of the variation than all other resources. Furthermore, the distribution of allele frequencies in the CC resembles that seen in natural populations like humans in which many variants are found at low frequencies and only a minority of variants are common. We conclude that the CC represents a dramatic improvement over existing genetic resources for mammalian systems biology applications.
         datePublished:2007-08-31T00:00:00Z
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            Collaborative Cross
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            Cell Biology
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      headline:The polymorphism architecture of mouse genetic resources elucidated using genome-wide resequencing data: implications for QTL discovery and systems genetics
      description:Mouse genetic resources include inbred strains, recombinant inbred lines, chromosome substitution strains, heterogeneous stocks, and the Collaborative Cross (CC). These resources were generated through various breeding designs that potentially produce different genetic architectures, including the level of diversity represented, the spatial distribution of the variation, and the allele frequencies within the resource. By combining sequencing data for 16 inbred strains and the recorded history of related strains, the architecture of genetic variation in mouse resources was determined. The most commonly used resources harbor only a fraction of the genetic diversity of Mus musculus, which is not uniformly distributed thus resulting in many blind spots. Only resources that include wild-derived inbred strains from subspecies other than M. m. domesticus have no blind spots and a uniform distribution of the variation. Unlike other resources that are primarily suited for gene discovery, the CC is the only resource that can support genome-wide network analysis, which is the foundation of systems genetics. The CC captures significantly more genetic diversity with no blind spots and has a more uniform distribution of the variation than all other resources. Furthermore, the distribution of allele frequencies in the CC resembles that seen in natural populations like humans in which many variants are found at low frequencies and only a minority of variants are common. We conclude that the CC represents a dramatic improvement over existing genetic resources for mammalian systems biology applications.
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      dateModified:2007-08-31T00:00:00Z
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      pageEnd:481
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         Parental Strain
         Inbred Strain
         Recombinant Inbred
         Collaborative Cross
         Chromosome Substitution Strain
         Cell Biology
         Animal Genetics and Genomics
         Human Genetics
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      name:Center for Environmental Health and Susceptibility and Center for Gastrointestinal Biology and Disease, University of North Carolina at Chapel Hill, Chapel Hill, USA
      name:Department of Genetics, University of North Carolina at Chapel Hill, Chapel Hill, USA

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