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. 2008 Jan;36(Database issue):D735-40.
doi: 10.1093/nar/gkm1005. Epub 2007 Dec 1.

TreeFam: 2008 Update

Jue Ruan  1 , Heng Li, Zhongzhong Chen, Avril Coghlan, Lachlan James M Coin, Yiran Guo, Jean-Karim Hériché, Yafeng Hu, Karsten Kristiansen, Ruiqiang Li, Tao Liu, Alan Moses, Junjie Qin, Søren Vang, Albert J Vilella, Abel Ureta-Vidal, Lars Bolund, Jun Wang, Richard Durbin
Affiliations

TreeFam: 2008 Update

Jue Ruan et al. Nucleic Acids Res. 2008 Jan.

Abstract

TreeFam (http://www.treefam.org) was developed to provide curated phylogenetic trees for all animal gene families, as well as orthologue and paralogue assignments. Release 4.0 of TreeFam contains curated trees for 1314 families and automatically generated trees for another 14,351 families. We have expanded TreeFam to include 25 fully sequenced animal genomes, as well as four genomes from plant and fungal outgroup species. We have also introduced more accurate approaches for automatically grouping genes into families, for building phylogenetic trees, and for inferring orthologues and paralogues. The user interface for viewing phylogenetic trees and family information has been improved. Furthermore, a new perl API lets users easily extract data from the TreeFam mysql database.

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Figures

Figure 1.
Figure 1.
Screenshot of the TreeView applet.
See this image and copyright information in PMC

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