Maqola

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

Tijl De BieK.U.Leuven, OKP Research Group 1 1 Tiensestraat 102, 3000 Leuven, BelgiumNello CristianiniDepartment of Statistics, U.C. Davis 2 2 360 Kerr Hall, One Shields Avenue, Davis CA 95616, USAJeffery P. DemuthDepartment of Biology and School of Informatics, Indiana University 3 3 1001 E. Third Street Bloomington, IN 47405, USAMatthew W. HahnDepartment of Biology and School of Informatics, Indiana University 3 3 1001 E. Third Street Bloomington, IN 47405, USA

2006en

ABI

Annotatsiya

SUMMARY: We present CAFE (Computational 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/~hahnlab/Software.html

Hali tarjima qilinmagan

Identifikatorlar

DOI: 10.1093/bioinformatics/btl097

Iqtiboslar va manbalar

3 ta iqtibos0 ta foydalanilgan manba

Koʻrsatkichlar — AkademScholar