Record nummer 1898506
Titel artikel Whole population, genome-wide mapping of hidden relatedness
Auteur(s) Gusev, A. ; Lowe, J.K. ; Stoffel, M. ; Daly, M.J. ; Altshuler, D. ; Breslow, J.L. ; Friedman, J.M. ; Pe'er, I.
Tijdschrifttitel Genome research
Deel(Jaar)Nummer (2009)19
Paginering 318 - 326
Annotatie(s) 34 refs.; 8 tabs.; 4 figs.
Online full text
Trefwoorden (cab) genetica / afkomst / genoomanalyse / polymorfisme / detectie
Rubrieken Genetica (algemeen)
Publicatie type Artikel
Taal Engels
Toelichting (Engels) We present GERMLINE, a robust algorithm for identifying segmental sharing indicative of recent common ancestry between pairs of individuals. Unlike methods with comparable objectives, GERMLINE scales linearly with the number of samples, enabling analysis of whole-genome data in large cohorts. Our approach is based on a dictionary of haplotypes that is used to efficiently discover short exact matches between individuals. We then expand these matches using dynamic programming to identify long, nearly identical segmental sharing that is indicative of relatedness. We use GERMLINE to comprehensively survey hidden relatedness both in the HapMap as well as in a densely typed island population of 3000 individuals. We verify that GERMLINE is in concordance with other methods when they can process the data, and also facilitates analysis of larger scale studies. We bolster these results by demonstrating novel applications of precise analysis of hidden relatedness for (1) identification and resolution of phasing errors and (2) exposing polymorphic deletions that are otherwise challenging to detect. This finding is supported by concordance of detected deletions with other evidence from independent databases and statistical analyses of fluorescence intensity not used by GERMLINE
Reacties
Er zijn nog geen reacties. U kunt de eerste schrijven!
Schrijf een reactie

To support researchers to publish their research Open Access, deals have been negotiated with various publishers. Depending on the deal, a discount is provided for the author on the Article Processing Charges that need to be paid by the author to publish an article Open Access. A discount of 100% means that (after approval) the author does not have to pay Article Processing Charges.

For the approval of an Open Access deal for an article, the corresponding author of this article must be affiliated with Wageningen University & Research.