diCal-IBD: demography-aware inference of identity-by-descent tracts in unrelated individuals
نویسندگان
چکیده
منابع مشابه
diCal-IBD: demography-aware inference of identity-by-descent tracts in unrelated individuals
UNLABELLED We present a tool, diCal-IBD, for detecting identity-by-descent (IBD) tracts between pairs of genomic sequences. Our method builds on a recent demographic inference method based on the coalescent with recombination, and is able to incorporate demographic information as a prior. Simulation study shows that diCal-IBD has significantly higher recall and precision than that of existing s...
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Pedigrees exist within populations. While close pedigree relationships may be known, in any genetic epidemiological study there are likely also relationships among pedigrees. Our ultimate goal is to combine information from within-pedigree gene descent and betweenpedigree genome sharing into a single analysis. Data from SNP genotype assays, in which 300,000 or more SNP variants may be typed acr...
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Family studies of individual tissues have shown that gene expression traits are genetically heritable. Here, we investigate cis and trans components of heritability both within and across tissues by applying variance-components methods to 722 Icelanders from family cohorts, using identity-by-descent (IBD) estimates from long-range phased genome-wide SNP data and gene expression measurements for...
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MOTIVATION Most existing identity-by-descent (IBD) detection methods only consider haplotype pairs; less attention has been paid to considering multiple haplotypes simultaneously, even though IBD is an equivalence relation on haplotypes that partitions a set of haplotypes into IBD clusters. Multiple-haplotype IBD clusters may have advantages over pairwise IBD in some applications, such as IBD m...
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It is an assumption of large, population-based datasets that samples are annotated accurately whether they correspond to known relationships or unrelated individuals. These annotations are key for a broad range of genetics applications. While many methods are available to assess relatedness that involve estimates of identity-by-descent (IBD) and/or identity-by-state (IBS) allele-sharing proport...
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ژورنال
عنوان ژورنال: Bioinformatics
سال: 2014
ISSN: 1460-2059,1367-4803
DOI: 10.1093/bioinformatics/btu563