Efficient Gene Tree Correction Guided by Genome Evolution.

ABSTRACT:

Motivations

Gene trees inferred solely from multiple alignments of homologous sequences often contain weakly supported and uncertain branches. Information for their full resolution may lie in the dependency between gene families and their genomic context. Integrative methods, using species tree information in addition to sequence information, often rely on a computationally intensive tree space search which forecloses an application to large genomic databases.

Results

We propose a new method, called ProfileNJ, that takes a gene tree with statistical supports on its branches, and corrects its weakly supported parts by using a combination of information from a species tree and a distance matrix. Its low running time enabled us to use it on the whole Ensembl Compara database, f

SUBMITTER: Noutahi E 

PROVIDER: S-EPMC4981423 | biostudies-literature | 2016

REPOSITORIES: biostudies-literature