AMY-tree: an algorithm to use whole genome SNP calling for Y chromosomal phylogenetic applications.

ABSTRACT:

Background

Due to the rapid progress of next-generation sequencing (NGS) facilities, an explosion of human whole genome data will become available in the coming years. These data can be used to optimize and to increase the resolution of the phylogenetic Y chromosomal tree. Moreover, the exponential growth of known Y chromosomal lineages will require an automatic determination of the phylogenetic position of an individual based on whole genome SNP calling data and an up to date Y chromosomal tree.

Results

We present an automated approach, 'AMY-tree', which is able to determine the phylogenetic position of a Y chromosome using a whole genome SNP profile, independently from the NGS platform and SNP calling program, whereby mistakes in the SNP calling or phylogenetic Y chromosom

SUBMITTER: Van Geystelen A 

PROVIDER: S-EPMC3583733 | biostudies-literature | 2013 Feb

REPOSITORIES: biostudies-literature