相关参考文献
注意:仅列出部分参考文献,下载原文获取全部文献信息。Influence of substitution model selection on protein phylogenetic tree reconstruction
Roberto Del Amparo et al.
GENE (2023)
HIV Protease and Integrase Empirical Substitution Models of Evolution: Protein-Specific Models Outperform Generalist Models
Roberto Del Amparo et al.
GENES (2022)
A mitogenomic phylogeny of chitons (Mollusca: Polyplacophora)
Iker Irisarri et al.
BMC EVOLUTIONARY BIOLOGY (2020)
Large-scale genomic sequence data resolve the deepest divergences in the legume phylogeny and support a near-simultaneous evolutionary origin of all six subfamilies
Erik J. M. Koenen et al.
NEW PHYTOLOGIST (2020)
Relative Model Fit Does Not Predict Topological Accuracy in Single-Gene Protein Phylogenetics
Stephanie J. Spielman
MOLECULAR BIOLOGY AND EVOLUTION (2020)
Nuclear protein phylogenies support the monophyly of the three bryophyte groups (Bryophyta Schimp.)
Filipe de Sousa et al.
NEW PHYTOLOGIST (2019)
Anchored phylogenomics illuminates the skipper butterfly tree of life
Emmanuel F. A. Toussaint et al.
BMC EVOLUTIONARY BIOLOGY (2018)
Improved phylogenetic resolution within Siphonophora (Cnidaria) with implications for trait evolution
Catriona Munro et al.
MOLECULAR PHYLOGENETICS AND EVOLUTION (2018)
Hidden diversity of soil giant viruses
Frederik Schulz et al.
NATURE COMMUNICATIONS (2018)
ModelFinder: fast model selection for accurate phylogenetic estimates
Subha Kalyaanamoorthy et al.
NATURE METHODS (2017)
Improved Modeling of Compositional Heterogeneity Supports Sponges as Sister to All Other Animals
Roberto Feuda et al.
CURRENT BIOLOGY (2017)
A Phylogenomic Solution to the Origin of Insects by Resolving Crustacean-Hexapod Relationships
Martin Schwentner et al.
CURRENT BIOLOGY (2017)
Substitution Model Adequacy and Assessing the Reliability of Estimates of Virus Evolutionary Rates and Time Scales
Sebastian Duchene et al.
MOLECULAR BIOLOGY AND EVOLUTION (2016)
Chloroplast phylogenomic analyses reveal the deepest-branching lineage of the Chlorophyta, Palmophyllophyceae class. nov.
Frederik Leliaert et al.
SCIENTIFIC REPORTS (2016)
Genomic insights into the evolutionary origin of Myxozoa within Cnidaria
E. Sally Chang et al.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA (2015)
IQ-TREE: A Fast and Effective Stochastic Algorithm for Estimating Maximum-Likelihood Phylogenies
Lam-Tung Nguyen et al.
MOLECULAR BIOLOGY AND EVOLUTION (2015)
FastMG: a simple, fast, and accurate maximum likelihood procedure to estimate amino acid replacement rate matrices from large data sets
Cuong Cao Dang et al.
BMC BIOINFORMATICS (2014)
Resolution of deep angiosperm phylogeny using conserved nuclear genes and estimates of early divergence times
Liping Zeng et al.
NATURE COMMUNICATIONS (2014)
A 20-state empirical amino-acid substitution model for green plant chloroplasts
Cymon J. Cox et al.
MOLECULAR PHYLOGENETICS AND EVOLUTION (2013)
Modeling Protein Evolution with Several Amino Acid Replacement Matrices Depending on Site Rates
Si Quang Le et al.
MOLECULAR BIOLOGY AND EVOLUTION (2012)
Broad Phylogenomic Sampling and the Sister Lineage of Land Plants
Ruth E. Timme et al.
PLOS ONE (2012)
An exact algorithm for the geodesic distance between phylogenetic trees
Anne Kupczok et al.
JOURNAL OF COMPUTATIONAL BIOLOGY (2008)
An improved general amino acid replacement matrix
Si Quang Le et al.
MOLECULAR BIOLOGY AND EVOLUTION (2008)
PAML 4: Phylogenetic analysis by maximum likelihood
Ziheng Yang
MOLECULAR BIOLOGY AND EVOLUTION (2007)
Assessment of methods for amino acid matrix selection and their use on empirical data shows that ad hoc assumptions for choice of matrix are not justified
TM Keane et al.
BMC EVOLUTIONARY BIOLOGY (2006)
ProtTest: selection of best-fit models of protein evolution
F Abascal et al.
BIOINFORMATICS (2005)
Modeling compositional heterogeneity
PG Foster
SYSTEMATIC BIOLOGY (2004)
A general empirical model of protein evolution derived from multiple protein families using a maximum-likelihood approach
S Whelan et al.
MOLECULAR BIOLOGY AND EVOLUTION (2001)
Plastid genome phylogeny and a model of amino acid substitution for proteins encoded by chloroplast DNA
J Adachi et al.
JOURNAL OF MOLECULAR EVOLUTION (2000)