Empirical profile mixture models for phylogenetic reconstruction
Motivation: Previous studies have shown that accounting for site-specific amino acid
replacement patterns using mixtures of stationary probability profiles offers a promising …
replacement patterns using mixtures of stationary probability profiles offers a promising …
Modeling protein evolution with several amino acid replacement matrices depending on site rates
Most protein substitution models use a single amino acid replacement matrix summarizing
the biochemical properties of amino acids. However, site evolution is highly heterogeneous …
the biochemical properties of amino acids. However, site evolution is highly heterogeneous …
Phylogenetic mixture models for proteins
Standard protein substitution models use a single amino acid replacement rate matrix that
summarizes the biological, chemical and physical properties of amino acids. However, site …
summarizes the biological, chemical and physical properties of amino acids. However, site …
Accounting for solvent accessibility and secondary structure in protein phylogenetics is clearly beneficial
Amino acid substitution models are essential to most methods to infer phylogenies from
protein data. These models represent the ways in which proteins evolve and substitutions …
protein data. These models represent the ways in which proteins evolve and substitutions …
Evolution of plant MADS box transcription factors: evidence for shifts in selection associated with early angiosperm diversification and concerted gene duplications
Phylogenomic analyses show that gene and genome duplication events have led to the
diversification of transcription factor gene families throughout the evolutionary history of land …
diversification of transcription factor gene families throughout the evolutionary history of land …
[PDF][PDF] Divergence dating using mixed effects clock modelling: An application to HIV-1
The need to estimate divergence times in evolutionary histories in the presence of various
sources of substitution rate variation has stimulated a rich development of relaxed molecular …
sources of substitution rate variation has stimulated a rich development of relaxed molecular …
[图书][B] Genetics and evolution of infectious diseases
M Tibayrenc - 2024 - books.google.com
Genetics and Evolution of Infectious Diseases, Third Edition discusses the evolving field of
infectious diseases and their continued impact on the health of populations, especially in …
infectious diseases and their continued impact on the health of populations, especially in …
Identifiability of a Markovian model of molecular evolution with gamma-distributed rates
Inference of evolutionary trees and rates from biological sequences is commonly performed
using continuous-time Markov models of character change. The Markov process evolves …
using continuous-time Markov models of character change. The Markov process evolves …
[图书][B] Gene und Stammbäume: ein Handbuch zur molekularen Phylogenetik
Gene, Genome und Sequenzen auf der einen Seite, Algorithmen, Computer und Informatik
auf der anderen-sie üben Faszination aus, halten aber viele Interessierte auf respektvolle …
auf der anderen-sie üben Faszination aus, halten aber viele Interessierte auf respektvolle …
Performance of standard and stochastic branch-site models for detecting positive selection among coding sequences
The branch-site model is a widely popular approach that accommodates for the lineage-and
the site-specific heterogeneity of natural selection regimes among coding sequences. This …
the site-specific heterogeneity of natural selection regimes among coding sequences. This …