Literature DB >> 21335321

ProtTest 3: fast selection of best-fit models of protein evolution.

Diego Darriba1, Guillermo L Taboada, Ramón Doallo, David Posada.   

Abstract

UNLABELLED: We have implemented a high-performance computing (HPC) version of ProtTest that can be executed in parallel in multicore desktops and clusters. This version, called ProtTest 3, includes new features and extended capabilities. AVAILABILITY: ProtTest 3 source code and binaries are freely available under GNU license for download from http://darwin.uvigo.es/software/prottest3, linked to a Mercurial repository at Bitbucket (https://bitbucket.org/). CONTACT: dposada@uvigo.es SUPPLEMENTARY INFORMATION: Supplementary data are available at Bioinformatics online.

Entities:  

Mesh:

Year:  2011        PMID: 21335321      PMCID: PMC5215816          DOI: 10.1093/bioinformatics/btr088

Source DB:  PubMed          Journal:  Bioinformatics        ISSN: 1367-4803            Impact factor:   6.937


  5 in total

1.  PAL: an object-oriented programming library for molecular evolution and phylogenetics.

Authors:  A Drummond; K Strimmer
Journal:  Bioinformatics       Date:  2001-07       Impact factor: 6.937

2.  A simple, fast, and accurate algorithm to estimate large phylogenies by maximum likelihood.

Authors:  Stéphane Guindon; Olivier Gascuel
Journal:  Syst Biol       Date:  2003-10       Impact factor: 15.683

3.  Model selection and model averaging in phylogenetics: advantages of akaike information criterion and bayesian approaches over likelihood ratio tests.

Authors:  David Posada; Thomas R Buckley
Journal:  Syst Biol       Date:  2004-10       Impact factor: 15.683

4.  ProtTest: selection of best-fit models of protein evolution.

Authors:  Federico Abascal; Rafael Zardoya; David Posada
Journal:  Bioinformatics       Date:  2005-01-12       Impact factor: 6.937

5.  ALTER: program-oriented conversion of DNA and protein alignments.

Authors:  Daniel Glez-Peña; Daniel Gómez-Blanco; Miguel Reboiro-Jato; Florentino Fdez-Riverola; David Posada
Journal:  Nucleic Acids Res       Date:  2010-05-03       Impact factor: 16.971

  5 in total
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8.  Substitutions near the hemagglutinin receptor-binding site determine the antigenic evolution of influenza A H3N2 viruses in U.S. swine.

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Journal:  J Virol       Date:  2014-02-12       Impact factor: 5.103

9.  The evolutionary origin of epithelial cell-cell adhesion mechanisms.

Authors:  Phillip W Miller; Donald N Clarke; William I Weis; Christopher J Lowe; W James Nelson
Journal:  Curr Top Membr       Date:  2013       Impact factor: 3.049

10.  Molecular bases of an alternative dual-enzyme system for light color acclimation of marine Synechococcus cyanobacteria.

Authors:  Théophile Grébert; Adam A Nguyen; Suman Pokhrel; Kes Lynn Joseph; Morgane Ratin; Louison Dufour; Bo Chen; Allissa M Haney; Jonathan A Karty; Jonathan C Trinidad; Laurence Garczarek; Wendy M Schluchter; David M Kehoe; Frédéric Partensky
Journal:  Proc Natl Acad Sci U S A       Date:  2021-03-02       Impact factor: 11.205

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