Citation Impact
Citing Papers
PhyloSuite: An integrated and scalable desktop platform for streamlined molecular sequence data management and evolutionary phylogenetics studies
2019 Standout
2016 Standout
NCBI Taxonomy: a comprehensive update on curation, resources and tools
2020 Standout
Limits of long-term selection against Neandertal introgression
2019 StandoutNobel
Resolution of ray-finned fish phylogeny and timing of diversification
2012 Standout
One thousand plant transcriptomes and the phylogenomics of green plants
2019 StandoutNature
Interactive Tree of Life (iTOL) v6: recent updates to the phylogenetic tree display and annotation tool
2024 Standout
Extended Newick: it is time for a standard representation of phylogenetic networks
2008
iGTP: A software package for large-scale gene tree parsimony analysis
2010
OrthoFinder: phylogenetic orthology inference for comparative genomics
2019 Standout
Fast and accurate methods for phylogenomic analyses
2011
Inconsistency of Species Tree Methods under Gene Flow
2016
Interactive tree of life (iTOL) v3: an online tool for the display and annotation of phylogenetic and other trees
2016 Standout
Analysis of phylogenomic datasets reveals conflict, concordance, and gene duplications with examples from animals and plants
2015
The Colletotrichum gloeosporioides species complex
2012 Standout
Testing for Ancient Admixture between Closely Related Populations
2011 Standout
Detecting hybrid speciation in the presence of incomplete lineage sorting using gene tree incongruence: A model
2008
PLIP: fully automated protein–ligand interaction profiler
2015 Standout
OrthoFinder: solving fundamental biases in whole genome comparisons dramatically improves orthogroup inference accuracy
2015 Standout
W-IQ-TREE: a fast online phylogenetic tool for maximum likelihood analysis
2016 Standout
Efficient Coalescent Simulation and Genealogical Analysis for Large Sample Sizes
2016
Resolving Difficult Phylogenetic Questions: Why More Sequences Are Not Enough
2011
The integrative future of taxonomy
2010 Standout
Gene tree discordance, phylogenetic inference and the multispecies coalescent
2009
Biogeographical regionalisation of the Neotropical region
2014 Standout
Bayesian Inference of Species Trees from Multilocus Data
2009 Standout
A phylum-level phylogenetic classification of zygomycete fungi based on genome-scale data
2016
Genetic introgression and hybridization in Antillean freshwater turtles (Trachemys) revealed by coalescent analyses of mitochondrial and cloned nuclear markers
2013
ABGD, Automatic Barcode Gap Discovery for primary species delimitation
2011 Standout
Armadillo 1.1: An Original Workflow Platform for Designing and Conducting Phylogenetic Analysis and Simulations
2012
A comprehensive phylogeny of birds (Aves) using targeted next-generation DNA sequencing
2015 StandoutNature
ASTRAL-III: polynomial time species tree reconstruction from partially resolved gene trees
2018 Standout
Unified modeling of gene duplication, loss, and coalescence using a locus tree
2012
Inference of Population Splits and Mixtures from Genome-Wide Allele Frequency Data
2012 Standout
T-REX: a web server for inferring, validating and visualizing phylogenetic trees and networks
2012
Evaluating Summary Methods for Multilocus Species Tree Estimation in the Presence of Incomplete Lineage Sorting
2014
Bayesian Phylogenetics with BEAUti and the BEAST 1.7
2012 Standout
Implementing and testing the multispecies coalescent model: A valuable paradigm for phylogenomics
2015
DnaSP 6: DNA Sequence Polymorphism Analysis of Large Data Sets
2017 Standout
Most parsimonious reconciliation in the presence of gene duplication, loss, and deep coalescence using labeled coalescent trees
2013
Full modeling versus summarizing gene-tree uncertainty: Method choice and species-tree accuracy
2012
Fast and Consistent Estimation of Species Trees Using Supermatrix Rooted Triples
2009
Evolutionary history of Coleoptera revealed by extensive sampling of genes and species
2018 Standout
Algorithms for MDC-Based Multi-Locus Phylogeny Inference: Beyond Rooted Binary Gene Trees on Single Alleles
2011
Dendroscope 3: An Interactive Tool for Rooted Phylogenetic Trees and Networks
2012
Identifying Hybridization Events in the Presence of Coalescence via Model Selection
2009
Phylogenetic Networks: Concepts, Algorithms and Applications
2011
The Cambrian Conundrum: Early Divergence and Later Ecological Success in the Early History of Animals
2011 StandoutScience
Estimating Species Trees: Methods of Phylogenetic Analysis When There Is Incongruence across Genes
2009
Stacks: an analysis tool set for population genomics
2013 Standout
Interactive Tree Of Life (iTOL) v5: an online tool for phylogenetic tree display and annotation
2021 Standout
High-Throughput Genomic Data in Systematics and Phylogenetics
2013
Genome‐wide RAD sequence data provide unprecedented resolution of species boundaries and relationships in the L ake V ictoria cichlid adaptive radiation
2012
Robustness to Divergence Time Underestimation When Inferring Species Trees from Estimated Gene Trees
2013
A Refined Model of the HCV NS5A Protein Bound to Daclatasvir Explains Drug-Resistant Mutations and Activity against Divergent Genotypes
2014 StandoutNobel
Anomalous Unrooted Gene Trees
2013
Naive binning improves phylogenomic analyses
2013
Comparing Two Bayesian Methods for Gene Tree/Species Tree Reconstruction: Simulations with Incomplete Lineage Sorting and Horizontal Gene Transfer
2011
Interactive Tree Of Life (iTOL) v4: recent updates and new developments
2019 Standout
Latest developments in molecular docking: 2010–2011 in review
2013
Unifying Vertical and Nonvertical Evolution: A Stochastic ARG-based Framework
2009
ape 5.0: an environment for modern phylogenetics and evolutionary analyses in R
2018 Standout
Bayesian Evolutionary Analysis with BEAST
2015
ASTRAL: genome-scale coalescent-based species tree estimation
2014 Standout
2015 Standout
Works of Cuong Than being referenced
Species Tree Inference by Minimizing Deep Coalescences
2009
PhyloNet: a software package for analyzing and reconstructing reticulate evolutionary relationships
2008
Confounding Factors in HGT Detection: Statistical Error, Coalescent Effects, and Multiple Solutions
2007
Consistency Properties of Species Tree Inference by Minimizing Deep Coalescences
2011
Efficient inference of bacterial strain trees from genome-scale multilocus data
2008
Seeing the trees and their branches in the network is hard
2008
Coalescent Histories on Phylogenetic Networks and Detection of Hybridization Despite Incomplete Lineage Sorting
2011