Identification of mammalian orthologs using local synteny.

ABSTRACT:

Background

Accurate determination of orthology is central to comparative genomics. For vertebrates in particular, very large gene families, high rates of gene duplication and loss, multiple mechanisms of gene duplication, and high rates of retrotransposition all combine to make inference of orthology between genes difficult. Many methods have been developed to identify orthologous genes, mostly based upon analysis of the inferred protein sequence of the genes. More recently, methods have been proposed that use genomic context in addition to protein sequence to improve orthology assignment in vertebrates. Such methods have been most successfully implemented in fungal genomes and have long been used in prokaryotic genomes, where gene order is far less variable than in vertebrates. Ho

SUBMITTER: Jun J 

PROVIDER: S-EPMC2807883 | biostudies-literature | 2009 Dec

REPOSITORIES: biostudies-literature