Evaluation of approaches for identifying population informative markers from high density SNP chips.

ABSTRACT:

Background

Genetic markers can be used to identify and verify the origin of individuals. Motivation for the inference of ancestry ranges from conservation genetics to forensic analysis. High density assays featuring Single Nucleotide Polymorphism (SNP) markers can be exploited to create a reduced panel containing the most informative markers for these purposes. The objectives of this study were to evaluate methods of marker selection and determine the minimum number of markers from the BovineSNP50 BeadChip required to verify the origin of individuals in European cattle breeds. Delta, Wright's FST, Weir & Cockerham's FST and PCA methods for population differentiation were compared. The level of informativeness of each SNP was estimated from the breed specific allele frequencies. Ind

SUBMITTER: Wilkinson S 

PROVIDER: S-EPMC3118130 | biostudies-literature | 2011 May

REPOSITORIES: biostudies-literature