Detection of genomic idiosyncrasies using fuzzy phylogenetic profiles.

ABSTRACT: Phylogenetic profiles express the presence or absence of genes and their homologs across a number of reference genomes. They have emerged as an elegant representation framework for comparative genomics and have been used for the genome-wide inference and discovery of functionally linked genes or metabolic pathways. As the number of reference genomes grows, there is an acute need for faster and more accurate methods for phylogenetic profile analysis with increased performance in speed and quality. We propose a novel, efficient method for the detection of genomic idiosyncrasies, i.e. sets of genes found in a specific genome with peculiar phylogenetic properties, such as intra-genome correlations or inter-genome relationships. Our algorithm is a four-step process where genome profiles are fir

SUBMITTER: Psomopoulos FE 

PROVIDER: S-EPMC3544837 | biostudies-literature | 2013

REPOSITORIES: biostudies-literature