Results 91 to 100 of about 1,369,061 (328)
jModelTest: phylogenetic model averaging.
Molecular biology and evolution, 2008 jModelTest is a new program for the statistical selection of models of nucleotide substitution based on "Phyml" (Guindon and Gascuel 2003. A simple, fast, and accurate algorithm to estimate large phylogenies by maximum likelihood. Syst Biol. 52:696-704.).
D. Posada
semanticscholar +1 more source
Whole Genome Phylogenetic Tree Reconstruction Using Colored de Bruijn Graphs
, 2017 We present kleuren, a novel assembly-free method to reconstruct phylogenetic trees using the Colored de Bruijn Graph. kleuren works by constructing the Colored de Bruijn Graph and then traversing it, finding bubble structures in the graph that provide ...
Bodily, Paul M. +7 more
core +1 more source
Advanced Engineering Materials, EarlyView.Molecular dynamics simulations are advancing the study of ribonucleic acid (RNA) and RNA‐conjugated molecules. These developments include improvements in force fields, long‐timescale dynamics, and coarse‐grained models, addressing limitations and refining methods.
Kanchan Yadav, Iksoo Jang, Jong Bum Lee
wiley +1 more source
Rank conditions on phylogenetic networks [PDF]
arXiv, 2020 Less rigid than phylogenetic trees, phylogenetic networks allow the description of a wider range of evolutionary events. In this note, we explain how to extend the rank invariants from phylogenetic trees to phylogenetic networks evolving under the general Markov model and the equivariant models.
arxiv
Selection of conserved blocks from multiple alignments for their use in phylogenetic analysis.
Molecular biology and evolution, 2000 The use of some multiple-sequence alignments in phylogenetic analysis, particularly those that are not very well conserved, requires the elimination of poorly aligned positions and divergent regions, since they may not be homologous or may have been ...
J. Castresana
semanticscholar +1 more source
Phylogenetic Algebraic Geometry [PDF]
, 2004 Phylogenetic algebraic geometry is concerned with certain complex projective algebraic varieties derived from finite trees. Real positive points on these varieties represent probabilistic models of evolution.
Eriksson, Nicholas +3 more
core
Advanced Science, EarlyView.Based on a well‐established in vitro directed differentiation model and an integrated analysis of high‐density cell lineage trees (CLTs) and single‐cell transcriptomes, it is demonstrated that many subclones are formed by sub‐CLTs resembling each other in terms of both cell type compositions and topological structures.
Xiaoyu Zhang +14 more
wiley +1 more source
PathogensBovine respiratory syncytial virus (BRSV) is one of the most important respiratory pathogens of cattle. In this study, frequency of infection, analysis of variants, and the immune status of vaccinated and non-vaccinated cattle were studied.
Ozge Aydin +4 more
doaj +1 more source
Indian Journal of Dental Research, 2019 Background: The oral bacteria, mutans streptococci (MS), are an etiological agent of dental caries. Of MS, Streptococcus downei are rarely isolated bacteria. Aim: The aim of this study was to isolate and characterize S. downei from caries-active subjects.
Hamzah Abdulrahman Salman +3 more
doaj +1 more source
Classes of Explicit Phylogenetic Networks and their Biological and Mathematical Significance [PDF]
arXiv, 2021 The evolutionary relationships among organisms have traditionally been represented using rooted phylogenetic trees. However, due to reticulate processes such as hybridization or lateral gene transfer, evolution cannot always be adequately represented by a phylogenetic tree, and rooted phylogenetic networks that describe such complex processes have been
arxiv