Using multi-way admixture mapping to elucidate TB susceptibility in the South African Coloured population.

ABSTRACT:

Background

The admixed South African Coloured population is ideally suited to the discovery of tuberculosis susceptibility genetic variants and their probable ethnic origins, but previous attempts at finding such variants using genome-wide admixture mapping were hampered by the inaccuracy of local ancestry inference. In this study, we infer local ancestry using the novel algorithm implemented in RFMix, with the emphasis on identifying regions of excess San or Bantu ancestry, which we hypothesize may harbour TB susceptibility genes.

Results

Using simulated data, we demonstrate reasonable accuracy of local ancestry inference by RFMix, with a tendency towards miss-calling San ancestry as Bantu. Regions with either excess San ancestry or excess African (San or Bantu) ancestry ar

SUBMITTER: Daya M 

PROVIDER: S-EPMC4256931 | biostudies-literature | 2014 Nov

REPOSITORIES: biostudies-literature