Joint estimation of gene conversion rates and mean conversion tract lengths from population SNP data
نویسندگان
چکیده
منابع مشابه
Joint estimation of gene conversion rates and mean conversion tract lengths from population SNP data
MOTIVATION Two known types of meiotic recombination are crossovers and gene conversions. Although they leave behind different footprints in the genome, it is a challenging task to tease apart their relative contributions to the observed genetic variation. In particular, for a given population SNP dataset, the joint estimation of the crossover rate, the gene conversion rate and the mean conversi...
متن کاملEstimating meiotic gene conversion rates from population genetic data.
Gene conversion plays an important part in shaping genetic diversity in populations, yet estimating the rate at which it occurs is difficult because of the short lengths of DNA involved. We have developed a new statistical approach to estimating gene conversion rates from genetic variation, by extending an existing model for haplotype data in the presence of crossover events. We show, by simula...
متن کاملImproved conversion rates for SNP genotyping of nonmodel organisms
Single nucleotide polymorphisms (SNPs) are the most abundant form of genetic variation and are highly adaptable to large-scale automated genotyping and population genetics studies. For nonmodel organisms, many SNP discovery projects are based on sequencing and assembly of a transcriptome and the calling of sequence variation in contigs. This paper develops a new method for avoiding intron/exon ...
متن کاملMultiple heterologies increase mitotic double-strand break-induced allelic gene conversion tract lengths in yeast.
Spontaneous and double-strand break (DSB)-induced allelic recombination in yeast was investigated in crosses between ura3 heteroalleles inactivated by an HO site and a +1 frameshift mutation, with flanking markers defining a 3.4-kbp interval. In some crosses, nine additional phenotypically silent RFLP mutations were present at approximately 100-bp intervals. Increasing heterology from 0.2 to 1%...
متن کاملThe estimation of the number and the length distribution of gene conversion tracts from population DNA sequence data.
DNA sequence variation studies report the transfer of small segments of DNA among different sequences caused by gene conversion events. Here, we provide an algorithm to detect gene conversion tracts and a statistical model to estimate the number and the length distribution of conversion tracts for population DNA sequence data. Two length distributions are defined in the model: (1) that of the o...
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ژورنال
عنوان ژورنال: Bioinformatics
سال: 2009
ISSN: 1367-4803,1460-2059
DOI: 10.1093/bioinformatics/btp229