Rock, paper, scissors: harnessing complementarity in ortholog detection methods improves comparative genomic inference.

ABSTRACT: Ortholog detection (OD) is a lynchpin of most statistical methods in comparative genomics. This task involves accurately identifying genes across species that descend from a common ancestral sequence. OD methods comprise a wide variety of approaches, each with their own benefits and costs under a variety of evolutionary and practical scenarios. In this article, we examine the proteomes of ten mammals by using four methodologically distinct, rigorously filtered OD methods. In head-to-head comparisons, we find that these algorithms significantly outperform one another for 38-45% of the genes analyzed. We leverage this high complementarity through the development MOSAIC, or Multiple Orthologous Sequence Analysis and Integration by Cluster optimization, the first tool for integrating methodolo

SUBMITTER: Maher MC 

PROVIDER: S-EPMC4390578 | biostudies-literature | 2015 Feb

REPOSITORIES: biostudies-literature