Evolutionary trees from DNA sequences: a maximum likelihood approach

Journal of Molecular Evolution
J Felsenstein

Abstract

The application of maximum likelihood techniques to the estimation of evolutionary trees from nucleic acid sequence data is discussed. A computationally feasible method for finding such maximum likelihood estimates is developed, and a computer program is available. This method has advantages over the traditional parsimony algorithms, which can give misleading results if rates of evolution differ in different lineages. It also allows the testing of hypotheses about the constancy of evolutionary rates by likelihood ratio tests, and gives rough indication of the error of ;the estimate of the tree.

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Jul 25, 2008·Journal of Computational Biology : a Journal of Computational Molecular Cell Biology·Yufeng Wu
Jul 26, 2008·Journal of Computational Biology : a Journal of Computational Molecular Cell Biology·Ydo Wexler, Dan Geiger
Jun 19, 2007·Journal of Computational Biology : a Journal of Computational Molecular Cell Biology·Abdoulaye Banire DialloMathieu Blanchette
Mar 1, 2011·Journal of Computational Biology : a Journal of Computational Molecular Cell Biology·Shu-Bo ZhangJian-Huang Lai
Apr 10, 2010·Journal of Computational Biology : a Journal of Computational Molecular Cell Biology·Nicholas D PattengaleAlexandros Stamatakis
Mar 15, 2012·Journal of Computational Biology : a Journal of Computational Molecular Cell Biology·Serena Arima, Luca Tardella
Apr 4, 2012·Journal of Computational Biology : a Journal of Computational Molecular Cell Biology·Mikael Falconnet, Sarah Behrens
Sep 29, 2011·Journal of Computational Biology : a Journal of Computational Molecular Cell Biology·Glenn Hickey, Mathieu Blanchette
Aug 11, 2012·Journal of Computational Biology : a Journal of Computational Molecular Cell Biology·Eyal Cohen, Benny Chor
Jun 13, 2012·Microbial Drug Resistance : MDR : Mechanisms, Epidemiology, and Disease·Sean BuonoMark Pandori
Oct 17, 2009·Briefings in Functional Genomics & Proteomics·Stephan H Bernhart, Ivo L Hofacker
Oct 31, 2008·Briefings in Bioinformatics·Wayne DelportCathal Seoighe
Jan 25, 2011·Briefings in Bioinformatics·Alexandros Stamatakis, Fernando Izquierdo-Carrasco
Mar 26, 2011·Briefings in Bioinformatics·Ahmed Ragab Nabhan, Indra Neil Sarkar
Oct 29, 2004·Bioinformatics·Sergei L Kosakovsky PondSpencer V Muse
Oct 30, 2004·Bioinformatics·T M KeaneG P McCormack
Nov 9, 2004·Bioinformatics·Gavin E Crooks, Steven E Brenner
Mar 8, 2005·Bioinformatics·Andrew J Bordner, Ruben Abagyan
Apr 28, 2005·Bioinformatics·Sebastian ZöllnerJonathan K Pritchard
Jul 28, 2005·Bioinformatics·Bui Quang MinhHeiko A Schmidt
Dec 8, 2005·Bioinformatics·Tanja Gesell, Arndt von Haeseler
Mar 3, 2006·Bioinformatics·Hannes Luz, Martin Vingron
Apr 15, 2006·Bioinformatics·Stephen McCauley, J Hein
Aug 25, 2006·Bioinformatics·Guohua JinTamir Tuller
Jul 25, 2007·Bioinformatics·Miklós CsurösIgor B Rogozin
Nov 17, 2007·Bioinformatics·Luke J HarmonWendell Challenger
Aug 23, 2008·Bioinformatics·Le Si QuangNicolas Lartillot
Nov 20, 2008·Bioinformatics·William H Majoros, Uwe Ohler
May 30, 2009·Bioinformatics·John HawkinsTimothy L Bailey
Apr 17, 2009·Bioinformatics·Marc A Suchard, Andrew Rambaut
Oct 24, 2009·Bioinformatics·Abdoulaye Banire DialloMathieu Blanchette
Jun 10, 2010·Bioinformatics·Alexandros Stamatakis, Nikolaos Alachiotis
Mar 19, 2011·Bioinformatics·Jianfu ZhouGang Wang
Nov 29, 2011·Bioinformatics·Yi-Fei Huang, G B Golding
Sep 18, 2012·Bioinformatics·Joel SjöstrandJens Lagergren
Jun 20, 2008·Biostatistics·Erik W BloomquistMarc A Suchard
Apr 3, 2010·DNA Research : an International Journal for Rapid Publication of Reports on Genes and Genomes·Chenglong YuStephen S-T Yau
Aug 24, 2011·Genome Biology and Evolution·Nathaniel M Hallinan, David R Lindberg
May 18, 2012·Genome Biology and Evolution·Sterling M SawayaVladimir N Minin
Jul 21, 2009·The Journal of Heredity·Barbara CrestanelloGiorgio Bertorelle
Aug 7, 2012·Journal of Experimental Botany·Céline CharonYves Henry
Jan 10, 2003·Molecular Biology and Evolution·S Susanna TwiddyAndrew Rambaut
Mar 28, 2008·Molecular Biology and Evolution·Si Quang Le, Olivier Gascuel
Apr 10, 2008·Molecular Biology and Evolution·D Posada
Apr 19, 2008·Molecular Biology and Evolution·Ligia M Mateiu, Bruce Rannala
May 27, 2008·Molecular Biology and Evolution·Simon Whelan
May 31, 2008·Molecular Biology and Evolution·Sergei L Kosakovsky PondSimon D W Frost
Aug 7, 2008·Molecular Biology and Evolution·Federico Squartini, Peter F Arndt
Oct 17, 2008·Molecular Biology and Evolution·Maria Anisimova, Carolin Kosiol
Nov 1, 2008·Molecular Biology and Evolution·Seth R BordensteinKostas Bourtzis
Nov 6, 2008·Molecular Biology and Evolution·Kazuyuki KashiyamaShin G Goto
Nov 13, 2008·Molecular Biology and Evolution·Andrew RambautBeth Shapiro
May 9, 2009·Molecular Biology and Evolution·William Fletcher, Ziheng Yang
Jul 3, 2009·Molecular Biology and Evolution·Miklós Csurös, István Miklós
Aug 19, 2009·Molecular Biology and Evolution·Jihua Wu, Edward Susko
Sep 29, 2009·Molecular Biology and Evolution·A P Jason de KoningDavid D Pollock
Oct 8, 2009·Molecular Biology and Evolution·Ofir Cohen, Tal Pupko
Nov 13, 2009·Molecular Biology and Evolution·Joseph Heled, Alexei Drummond
Jan 22, 2010·Molecular Biology and Evolution·Miguel LacerdaCathal Seoighe
Mar 3, 2010·Molecular Biology and Evolution·Stéphane Guindon
Mar 6, 2010·Molecular Biology and Evolution·Philippe LemeyMarc A Suchard
Jul 10, 2010·Molecular Biology and Evolution·Jennifer Ripplinger, Jack Sullivan
Jul 28, 2010·Molecular Biology and Evolution·Matthew D Rasmussen, Manolis Kellis
Oct 12, 2010·Molecular Biology and Evolution·Nicolas Lartillot, Raphaël Poujol
Oct 22, 2010·Molecular Biology and Evolution·Itay Mayrose, Sarah P Otto
Jun 15, 2011·Molecular Biology and Evolution·Sergei L Kosakovsky PondKonrad Scheffler
Sep 9, 2011·Molecular Biology and Evolution·Yi-Chieh WuManolis Kellis
Nov 4, 2011·Molecular Biology and Evolution·Tracy A HeathJ P Huelsenbeck
Dec 14, 2011·Molecular Biology and Evolution·Jennifer A TomMarc A Suchard
Feb 10, 2012·Molecular Biology and Evolution·Julien Y DutheilBastien Boussau
Mar 8, 2012·Molecular Biology and Evolution·Ezequiel JuritzGustavo Parisi
Mar 17, 2012·Molecular Biology and Evolution·David BryantArindam RoyChoudhury
Apr 12, 2012·Molecular Biology and Evolution·Si Quang LeOlivier Gascuel
May 24, 2012·Molecular Biology and Evolution·Julien SoubrierAlan Cooper