Human population structure detection via multilocus genotype clustering.

ABSTRACT:

Background

We describe a hierarchical clustering algorithm for using Single Nucleotide Polymorphism (SNP) genetic data to assign individuals to populations. The method does not assume Hardy-Weinberg equilibrium and linkage equilibrium among loci in sample population individuals.

Results

We show that the algorithm can assign sample individuals highly accurately to their corresponding ethnic groups in our tests using HapMap SNP data and it is also robust to admixed populations when tested with Perlegen SNP data. Moreover, it can detect fine-scale population structure as subtle as that between Chinese and Japanese by using genome-wide high-diversity SNP loci.

Conclusion

The algorithm provides an alternative approach to the popular STRUCTURE program, especially for fine-s

SUBMITTER: Gao X 

PROVIDER: S-EPMC1934381 | biostudies-literature | 2007 Jun

REPOSITORIES: biostudies-literature