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  1. TreeFam (View Publication)
    Full Name of the Resource : Tree families database: phylogenetic trees of animal genes
    Resource Category : Databases -> Human and Other Vertebrate Genomes -> Model Organisms, Comparative Genomics

    Brief Description : TreeFam (Tree families database) is a database of phylogenetic trees of animal genes. It aims at developing a curated resource that gives reliable information about ortholog and paralog assignments, and evolutionary history of various gene families. TreeFam defines a gene family as a group of genes that evolved after the speciation of single-metazoan animals. It also tries to include outgroup genes like yeast (S. cerevisiae and S. pombe) and plant (A. thaliana) to reveal these distant members. TreeFam is also an ortholog database. Unlike other pairwise alignment based ones, TreeFam infers orthologs by means of gene trees. It fits a gene tree into the universal species tree and finds historical duplications, speciations and losses events. TreeFam uses this information to evaluate tree building, guide manual curation, and infer complex ortholog and paralog relations.

    Institute/s :
    Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, CB10 1SA

    Address of Institute/s :
    Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge, CB10 1SA

    Country : United Kingdom

    Associated Institutes :

    • Beijing Institute of Genomics of the Chinese Academy of Sciences, Beijing Genomics Institute, Beijing 101300, China
    • Department of Epidemiology & Public Health, Imperial College, St Mary\'s Campus, Norfolk Place, London W2 1PG, UK
    • Department of Biochemistry and Molecular Biology, University of Southern Denmark
    • DK-5230 Odense M, 5Research Unit for Molecular Medicine, Aarhus University Hospital and Faculty of Health Sciences, University of Aarhus, DK-8200 Aarhus N, Denmark, 6EMBL-European Bioinformatics Institute, Hinxton, Cambridge, UK
    • Institute of Human Genetics, University of Aarhus, DK-8000 Aarhus C, Denmark

    Associated Country : China; Uited Kingdom; Denamrk


    Authors/Contributors : Richard Durbin
    Contact Email : rd@sanger.ac.uk
    Year : 2008
    Language : English

    Keywords : Animals; *Databases, Genetic; Genomics; Internet; *Phylogeny; Software; User-Computer Interface