Literature DB >> 12116942

Should we use model-based methods for phylogenetic inference when we know that assumptions about among-site rate variation and nucleotide substitution pattern are violated?

J Sullivan1, D L Swofford.   

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Year:  2001        PMID： 12116942     DOI： 10.1080/106351501753328848

Source DB:  PubMed          Journal:  Syst Biol        ISSN： 1063-5157            Impact factor:   15.683


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  23 in total

1.  Reanalysis of Murphy et al.'s data gives various mammalian phylogenies and suggests overcredibility of Bayesian trees.

Authors:  Kazuharu Misawa; Masatoshi Nei
Journal:  J Mol Evol       Date:  2003       Impact factor: 2.395

2.  Assessment of substitution model adequacy using frequentist and Bayesian methods.

Authors:  Jennifer Ripplinger; Jack Sullivan
Journal:  Mol Biol Evol       Date:  2010-07-08       Impact factor: 16.240

3.  Biases in phylogenetic estimation can be caused by random sequence segments.

Authors:  Edward Susko; Mathew Spencer; Andrew J Roger
Journal:  J Mol Evol       Date:  2005-07-21       Impact factor: 2.395

Review 4.  New methods for inferring population dynamics from microbial sequences.

Authors:  Marcos Pérez-Losada; Megan L Porter; Loubna Tazi; Keith A Crandall
Journal:  Infect Genet Evol       Date:  2006-04-19       Impact factor: 3.342

5.  Phylogenetic analysis of the complete genome sequence of Encephalitozoon cuniculi supports the fungal origin of microsporidia and reveals a high frequency of fast-evolving genes.

Authors:  Fabienne Thomarat; Christian P Vivarès; Manolo Gouy
Journal:  J Mol Evol       Date:  2004-12       Impact factor: 2.395

6.  Can quartet analyses combining maximum likelihood estimation and Hennigian logic overcome long branch attraction in phylogenomic sequence data?

Authors:  Patrick Kück; Mark Wilkinson; Christian Groß; Peter G Foster; Johann W Wägele
Journal:  PLoS One       Date:  2017-08-25       Impact factor: 3.240

7.  How Phylogenetics Can Elucidate the Chemical Ecology of Poison Frogs and Their Arthropod Prey.

Authors:  Jeffrey L Coleman; David C Cannatella
Journal:  J Chem Ecol       Date:  2022-03-14       Impact factor: 2.626

8.  Performance of criteria for selecting evolutionary models in phylogenetics: a comprehensive study based on simulated datasets.

Authors:  Arong Luo; Huijie Qiao; Yanzhou Zhang; Weifeng Shi; Simon Yw Ho; Weijun Xu; Aibing Zhang; Chaodong Zhu
Journal:  BMC Evol Biol       Date:  2010-08-09       Impact factor: 3.260

9.  Assessing parameter identifiability in phylogenetic models using data cloning.

Authors:  José Miguel Ponciano; J Gordon Burleigh; Edward L Braun; Mark L Taper
Journal:  Syst Biol       Date:  2012-05-30       Impact factor: 15.683

10.  Can comprehensive background knowledge be incorporated into substitution models to improve phylogenetic analyses? A case study on major arthropod relationships.

Authors:  Björn M von Reumont; Karen Meusemann; Nikolaus U Szucsich; Emiliano Dell'Ampio; Vivek Gowri-Shankar; Daniela Bartel; Sabrina Simon; Harald O Letsch; Roman R Stocsits; Yun-xia Luan; Johann Wolfgang Wägele; Günther Pass; Heike Hadrys; Bernhard Misof
Journal:  BMC Evol Biol       Date:  2009-05-27       Impact factor: 3.260
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