PanCGH: a genotype-calling algorithm for pangenome CGH data.

ABSTRACT:

Motivation

Pangenome arrays contain DNA oligomers targeting several sequenced reference genomes from the same species. In microbiology, these can be employed to investigate the often high genetic variability within a species by comparative genome hybridization (CGH). The biological interpretation of pangenome CGH data depends on the ability to compare strains at a functional level, particularly by comparing the presence or absence of orthologous genes. Due to the high genetic variability, available genotype-calling algorithms can not be applied to pangenome CGH data.

Results

We have developed the algorithm PanCGH that incorporates orthology information about genes to predict the presence or absence of orthologous genes in a query organism using CGH arrays that target the gen

SUBMITTER: Bayjanov JR 

PROVIDER: S-EPMC2639077 | biostudies-literature | 2009 Feb

REPOSITORIES: biostudies-literature