Genome analysis CAFE: a computational tool for the study of gene family evolution

Bie Tijl De, Nello Cristianini, Demuth Jeffery P., Hahn Matthew W., Editor Associate, Stoeckert Chris

Research output: Chapter in Book/Report/Conference proceedingConference Contribution (Conference Proceeding)

Abstract

Summary:We present CAFEC omputational Analysis of gene Family Evolution, a tool for the statistical analysis of the evolution of the size of gene families. It uses a stochastic birth and death process to model the evolution of gene family sizes over a phylogeny. For a specified phylogenetic tree, and given the gene family sizes in the extant species, CAFE can estimate the global birth and death rate of gene families, infer the most likely gene family size at all internal nodes, identify gene families that have accelerated rates of gain and loss quantified by a p-value and identify which branches cause the p-value to be small for significant families. Availability: Software is available from http:www.bio.indiana.edu hahnlabSoftware.html Contact: mwh@indiana.edu
Translated title of the contributionGenome analysis CAFE: a computational tool for the study of gene family evolution
Original languageEnglish
Title of host publicationUnknown
Publication statusPublished - 2007

Bibliographical note

Other page information: 1269-1271
Other identifier: 2000801

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