Local Ancestry Inference in Large Pedigrees

Overview

Journal Sci Rep

Specialty Science

Date 2020 Jan 15

PMID 31932708

Citations 3

Authors

Heming Wang

Tamar Sofer

Xiang Zhang

Robert C Elston

Susan Redline

Xiaofeng Zhu

Affiliations

Soon will be listed here.

Abstract

Local ancestry, defined as the genetic ancestry at a genomic location of an admixed individual, is widely used as a genetic marker in genetic association and evolutionary genetics studies. Many methods have been developed to infer the local ancestries in a set of unrelated individuals, a few of them have been extended to small nuclear families, but none can be applied to large (e.g. three-generation) pedigrees. In this study, we developed a method, FamANC, that can improve the accuracy of local ancestry inference in large pedigrees by: (1) using an existing algorithm to infer local ancestries for all individuals in a family, assuming (contrary to fact) they are unrelated, and (2) improving its accuracy by correcting inference errors using pedigree structure. Applied on African-American pedigrees from the Cleveland Family Study, FamANC was able to correct all identified Mendelian errors and most of double crossovers.

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