On the public citation graph
Maximum-likelihood models for combined analyses of multiple sequence data
0 signed · 422 inferred · view as graph
Inferred edges come from two machine sources: sweeps of open repository metadata (mostly SSRN and Zenodo), and a bulk OpenAlex citation snapshot. Every row below is labelled with the one it came from. Neither is a complete citation index — absence here is not evidence of absence.
Is this your work? Sign in with ORCID and put your name on the
claims that are yours.
Reference health. See whether every reference in this work resolves to a
known work and none has been retracted — and get a dated CiteStamped
badge you can embed.
What this work says
Outgoing claims: the papers this work cites, builds on, or argues with.
inferredcites →https://doi.org/10.1007/bf00160154openalex-snapshot
Maximum likelihood phylogenetic estimation from DNA sequences with variable rates over sites: Approximate methods
inferredcites →https://doi.org/10.1007/bf00160257openalex-snapshot
Heterogeneity in the substitution process of amino acid sites of proteins coded for by mitochondrial DNA
inferredcites →https://doi.org/10.1007/bf00160258openalex-snapshot
Man's place in hominoidea revealed by mitochondrial DNA genealogy
inferredcites →https://doi.org/10.1007/bf00160510openalex-snapshot
Improved dating of the human/chimpanzee separation in the mitochondrial DNA tree: Heterogeneity among amino acid sites
inferredcites →https://doi.org/10.1007/bf00166252openalex-snapshot
Statistical tests of models of DNA substitution
inferredcites →https://doi.org/10.1007/bf00178256openalex-snapshot
Estimating the pattern of nucleotide substitution
inferredcites →https://doi.org/10.1007/bf00182747openalex-snapshot
Substitution rate variation among sites in hypervariable region 1 of human mitochondrial DNA
inferredcites →https://doi.org/10.1007/bf01734359openalex-snapshot
Evolutionary trees from DNA sequences: A maximum likelihood approach
inferredcites →https://doi.org/10.1007/bf02100115openalex-snapshot
Evaluation of the maximum likelihood estimate of the evolutionary tree topologies from DNA sequence data, and the branching order in hominoidea
inferredcites →https://doi.org/10.1007/bf02101694openalex-snapshot
Dating of the human-ape splitting by a molecular clock of mitochondrial DNA
inferredcites →https://doi.org/10.1016/0167-9473(87)90003-xopenalex-snapshot
An empirical investigation of some effects of sparseness in contingency tables
inferredcites →https://doi.org/10.1080/01621459.1987.10478472openalex-snapshot
Asymptotic Properties of Maximum Likelihood Estimators and Likelihood Ratio Tests Under Nonstandard Conditions
inferredcites →https://doi.org/10.1093/oso/9780195066982.001.0001openalex-snapshot
Phylogenetic analysis Of Dna sequences
inferredcites →https://doi.org/10.1093/oxfordjournals.molbev.a040082openalex-snapshot
Maximum-likelihood estimation of phylogeny from DNA sequences when substitution rates differ over sites.
inferredcites →https://doi.org/10.1093/oxfordjournals.molbev.a040108openalex-snapshot
Relative efficiencies of the maximum-likelihood, neighbor-joining, and maximum-parsimony methods when substitution rate varies with site.
inferredcites →https://doi.org/10.1093/oxfordjournals.molbev.a040112openalex-snapshot
Comparison of models for nucleotide substitution used in maximum-likelihood phylogenetic estimation.
inferredcites →https://doi.org/10.1093/oxfordjournals.molbev.a040124openalex-snapshot
Substitution-rate variation among sites and the estimation of transition bias.
inferredcites →https://doi.org/10.1093/oxfordjournals.molbev.a040183openalex-snapshot
Success of maximum likelihood phylogeny inference in the four-taxon case.
inferredcites →https://doi.org/10.1093/oxfordjournals.molbev.a040259openalex-snapshot
Phylogenetic test of the molecular clock and linearized trees.
inferredcites →https://doi.org/10.1093/sysbio/42.3.384openalex-snapshot
Partitioning and Combining Data in Phylogenetic Analysis
inferredcites →https://doi.org/10.1093/sysbio/43.3.329openalex-snapshot
Statistical Properties of the Maximum Likelihood Method of Phylogenetic Estimation and Comparison With Distance Matrix Methods
inferredcites →https://doi.org/10.1093/sysbio/44.3.384openalex-snapshot
Maximum Likelihood Trees from DNA Sequences: A Peculiar Statistical Estimation Problem
inferredcites →https://doi.org/10.1146/annurev.ge.22.120188.002513openalex-snapshot
PHYLOGENIES FROM MOLECULAR SEQUENCES: INFERENCE AND RELIABILITY
inferredcites →https://doi.org/10.1214/aos/1176344001openalex-snapshot
Log-Linear Models and Frequency Tables with Small Expected Cell Counts
inferredcites →https://doi.org/10.1525/aa.1986.88.2.02a00010openalex-snapshot
Distinguished Lecture: Hominoid Evolution and Hominoid Origins
What points at this work
Incoming claims: where this work appears in other papers’ reference lists and arguments.
inferred← citeshttps://doi.org/10.5852/ejt.2017.283zenodo-depositor-declared
Pitfalls in supermatrix phylogenomics
inferred← citeshttps://doi.org/10.1002/0471650129.dob0418openalex-snapshot
Maximum‐Likelihood Phylogeny Reconstruction
inferred← citeshttps://doi.org/10.1002/9780470015902.a0021784openalex-snapshot
Phylogenetic Relationships Deduced from Whole Genome Comparisons
inferred← citeshttps://doi.org/10.1002/9780470570418.ch2openalex-snapshot
Current Approaches to Phylogenomic Reconstruction
inferred← citeshttps://doi.org/10.1002/9780471650126.dob0418.pub2openalex-snapshot
Maximum Likelihood Phylogeny Reconstruction
inferred← citeshttps://doi.org/10.1002/9780471650126.dob0515.pub2openalex-snapshot
PAML (Phylogenetic Analysis by Maximum Likelihood)
inferred← citeshttps://doi.org/10.1002/ajpa.10322openalex-snapshot
Primate phylogeny, evolutionary rate variations, and divergence times: A contribution from the nuclear gene IRBP
inferred← citeshttps://doi.org/10.1002/ece3.722openalex-snapshot
Why to account for finite sites in population genetic studies and how to do this with Jaatha 2.0
inferred← citeshttps://doi.org/10.1002/jez.b.21026openalex-snapshot
Inferring species phylogenies from multiple genes: Concatenated sequence tree versus consensus gene tree
inferred← citeshttps://doi.org/10.1002/jsfa.4507openalex-snapshot
Evaluation of genetic markers for identifying isolates of the species of the genus Fusarium
inferred← citeshttps://doi.org/10.1006/mpev.1999.0631openalex-snapshot
Molecular Evolution and Phylogeny of the Drosophila saltans Species Group Inferred from the Xdh Gene
inferred← citeshttps://doi.org/10.1006/mpev.2000.0813openalex-snapshot
Tree Rooting with Outgroups When They Differ in Their Nucleotide Composition from the Ingroup: The Drosophila saltans and willistoni Groups, a Case Study
inferred← citeshttps://doi.org/10.1006/mpev.2001.0945openalex-snapshot
Phylogeny of Rodentia (Mammalia) Inferred from the Nuclear-Encoded Gene IRBP
inferred← citeshttps://doi.org/10.1006/mpev.2001.0990openalex-snapshot
Phylogenetics of Planipapillus, Lawn-Headed Onychophorans of the Australian Alps, Based on Nuclear and Mitochondrial Gene Sequences
inferred← citeshttps://doi.org/10.1006/mpev.2001.1070openalex-snapshot
Molecular Phylogenetics of Emydine Turtles: Taxonomic Revision and the Evolution of Shell Kinesis
inferred← citeshttps://doi.org/10.1006/tpbi.2002.1593openalex-snapshot
Ancient Phylogenetic Relationships
inferred← citeshttps://doi.org/10.1007/978-1-4419-5913-3_27openalex-snapshot
Genome-Wide EST Data Mining Approaches to Resolving Incongruence of Molecular Phylogenies
inferred← citeshttps://doi.org/10.1007/978-1-4614-1743-9openalex-snapshot
Analysis of Phylogenetics and Evolution with R
inferred← citeshttps://doi.org/10.1007/978-1-4939-7165-7_20openalex-snapshot
Phylogenetic and Evolutionary Analysis of Plant ARGONAUTES
inferred← citeshttps://doi.org/10.1007/978-1-62703-709-9_16openalex-snapshot
Phylogeny and Evolution of RNA Structure
inferred← citeshttps://doi.org/10.1007/978-94-011-4221-2_1openalex-snapshot
Evolution of genes and taxa: a primer
inferred← citeshttps://doi.org/10.1007/pl00006448openalex-snapshot
Variation in the Pattern of Nucleotide Substitution Across Sites
inferred← citeshttps://doi.org/10.1007/pl00006469openalex-snapshot
A Novel Approach to Phylogeny Reconstruction from Protein Sequences
inferred← citeshttps://doi.org/10.1007/pl00006470openalex-snapshot
Estimation of the Transition/Transversion Rate Bias and Species Sampling
inferred← citeshttps://doi.org/10.1007/pl00006484openalex-snapshot
Synonymous Nucleotide Divergence and Saturation: Effects of Site-Specific Variations in Codon Bias and Mutation Rates
inferred← citeshttps://doi.org/10.1007/pl00006584openalex-snapshot
Phylogenetic Analysis of Pseudomonas syringae Pathovars Suggests the Horizontal Gene Transfer of argK and the Evolutionary Stability of hrp Gene Cluster
inferred← citeshttps://doi.org/10.1007/s00239-001-0052-7openalex-snapshot
Modeling Mitochondrial Protein Evolution Using Structural Information
inferred← citeshttps://doi.org/10.1007/s00239-002-2311-7openalex-snapshot
Ribonucleotide Reductases: Divergent Evolution of an Ancient Enzyme
inferred← citeshttps://doi.org/10.1007/s00239-002-2392-3openalex-snapshot
Molecular Characterization of the Recent Intragenomic Spread of the Murine Endogenous Retrovirus MuERV-L
inferred← citeshttps://doi.org/10.1007/s00239-003-2520-8openalex-snapshot
Modeling DNA Base Substitution in Large Genomic Regions from Two Organisms
inferred← citeshttps://doi.org/10.1007/s00239-004-0089-5openalex-snapshot
Multiple Independent Losses of Photosynthesis and Differing EvolutionaryRates in the Genus Cryptomonas (Cryptophyceae): Combined Phylogenetic Analyses of DNA Sequences of the Nuclear and the Nucleomorph Ribosomal Operons
inferred← citeshttps://doi.org/10.1007/s00239-005-0021-7openalex-snapshot
Molecular Evolution of the Plant Virus Family Bromoviridae Based on RNA3-Encoded Proteins
inferred← citeshttps://doi.org/10.1007/s00239-009-9212-yopenalex-snapshot
Phylogenetic Inference with Weighted Codon Evolutionary Distances
inferred← citeshttps://doi.org/10.1007/s00239-012-9513-4openalex-snapshot
New Weighting Methods for Phylogenetic Tree Reconstruction Using Multiple Loci
inferred← citeshttps://doi.org/10.1007/s00239-013-9552-5openalex-snapshot
Molecular Phylogeny and Evolution of the Proteins Encoded by Coleoid (Cuttlefish, Octopus, and Squid) Posterior Venom Glands
inferred← citeshttps://doi.org/10.1007/s00239-015-9682-zopenalex-snapshot
A Proposal for the Evolution of Cathepsin and Silicatein in Sponges
inferred← citeshttps://doi.org/10.1007/s00239-020-09963-zopenalex-snapshot
mPartition: A Model-Based Method for Partitioning Alignments
inferred← citeshttps://doi.org/10.1007/s002390010105openalex-snapshot
Maximum Likelihood Estimation on Large Phylogenies and Analysis of Adaptive Evolution in Human Influenza Virus A
inferred← citeshttps://doi.org/10.1007/s002390010173openalex-snapshot
The Effect of Branch Length Variation on the Selection of Models of Molecular Evolution
inferred← citeshttps://doi.org/10.1007/s002390010234openalex-snapshot
Taking Variation of Evolutionary Rates Between Sites into Account in Inferring Phylogenies
inferred← citeshttps://doi.org/10.1007/s002390010239openalex-snapshot
Xanthine Dehydrogenase (XDH): Episodic Evolution of a ``Neutral'' Protein
inferred← citeshttps://doi.org/10.1007/s002399910001openalex-snapshot
Fluctuating Mutation Bias and the Evolution of Base Composition in Drosophila
inferred← citeshttps://doi.org/10.1007/s00436-015-4646-1openalex-snapshot
Molecular phylogenetics of eimeriid coccidia (Eimeriidae, Eimeriorina, Apicomplexa, Alveolata): A preliminary multi-gene and multi-genome approach
inferred← citeshttps://doi.org/10.1007/s00705-015-2744-0openalex-snapshot
Analysis of full-length genomes of porcine teschovirus (PTV) and the effect of purifying selection on phylogenetic trees
inferred← citeshttps://doi.org/10.1007/s10493-023-00881-5openalex-snapshot
Experimental transmission of a novel relapsing fever group Borrelia harbored by Ornithodoros octodontus (Ixodida: Argasidae) in Chile
inferred← citeshttps://doi.org/10.1007/s10531-016-1181-zopenalex-snapshot
Phylogenetic diversity and its conservation in the presence of phylogenetic uncertainty: a case study of cladoceran communities in urban waterbodies
inferred← citeshttps://doi.org/10.1007/s10592-006-9210-1openalex-snapshot
Conservation phylogenetics of the Asian box turtles (Geoemydidae, Cuora): mitochondrial introgression, numts, and inferences from multiple nuclear loci
inferred← citeshttps://doi.org/10.1007/s10914-006-9034-2openalex-snapshot
Molecular Phylogenetic Relationships Among Crested-tailed Mice (Genus Habromys)
inferred← citeshttps://doi.org/10.1007/s12041-013-0259-6openalex-snapshot
The first complete mitochondrial genome from Bostrychus genus (Bostrychus sinensis) and partitioned Bayesian analysis of Eleotridae fish phylogeny
inferred← citeshttps://doi.org/10.1016/0169-5347(96)10041-0openalex-snapshot
Among-site rate variation and its impact on phylogenetic analyses
inferred← citeshttps://doi.org/10.1016/b978-0-12-394290-6.00014-8openalex-snapshot
Structure–Function Analyses of Plant Type III Polyketide Synthases
inferred← citeshttps://doi.org/10.1016/j.compbiolchem.2011.04.001openalex-snapshot
On the evolution rate in mammalian mitochondrial genomes
inferred← citeshttps://doi.org/10.1016/j.crpvbd.2024.100193openalex-snapshot
Isolation and molecular characterization of a novel relapsing fever group Borrelia from the white-eared opossum Didelphis albiventris in Brazil
inferred← citeshttps://doi.org/10.1016/j.cub.2020.11.043openalex-snapshot
Systematic errors in phylogenetic trees
inferred← citeshttps://doi.org/10.1016/j.fgb.2018.04.005openalex-snapshot
Co-evolutionary interactions between host resistance and pathogen avirulence genes in rice-Magnaporthe oryzae pathosystem
inferred← citeshttps://doi.org/10.1016/j.gene.2008.04.002openalex-snapshot
A likelihood look at the supermatrix–supertree controversy
inferred← citeshttps://doi.org/10.1016/j.gene.2008.08.017openalex-snapshot
Branch-length estimation bias misleads molecular dating for a vertebrate mitochondrial phylogeny
inferred← citeshttps://doi.org/10.1016/j.gene.2012.12.096openalex-snapshot
High altitude adaptation of the schizothoracine fishes (Cyprinidae) revealed by the mitochondrial genome analyses
inferred← citeshttps://doi.org/10.1016/j.gene.2014.05.019openalex-snapshot
Signatures of natural selection in the mitochondrial genomes of Tachycineta swallows and their implications for latitudinal patterns of the ‘pace of life’
inferred← citeshttps://doi.org/10.1016/j.jbi.2005.08.003openalex-snapshot
Phylogenetics by likelihood: Evolutionary modeling as a tool for understanding the genome
inferred← citeshttps://doi.org/10.1016/j.jprot.2013.05.034openalex-snapshot
Dracula's children: Molecular evolution of vampire bat venom
inferred← citeshttps://doi.org/10.1016/j.mex.2019.09.025openalex-snapshot
Supergene validation: A model-based protocol for assessing the accuracy of non-model-based supergene methods
inferred← citeshttps://doi.org/10.1016/j.molbiopara.2008.12.010openalex-snapshot
Homology, paralogy and function of DGF-1, a highly dispersed Trypanosoma cruzi specific gene family and its implications for information entropy of its encoded proteins
inferred← citeshttps://doi.org/10.1016/j.prevetmed.2021.105312openalex-snapshot
The impact of porcine reproductive and respiratory syndrome virus (PRRSV) genotypes, established on the basis of ORF-5 nucleotide sequences, on three production parameters in Ontario sow farms
inferred← citeshttps://doi.org/10.1016/j.protis.2005.05.003openalex-snapshot
Improving the Analysis of Dinoflagellate Phylogeny based on rDNA
inferred← citeshttps://doi.org/10.1016/j.tig.2015.08.001openalex-snapshot
Dating Tips for Divergence-Time Estimation
inferred← citeshttps://doi.org/10.1016/j.virol.2013.12.023openalex-snapshot
Multiple reassortment events among highly pathogenic avian influenza A(H5N1) viruses detected in Bangladesh
inferred← citeshttps://doi.org/10.1016/j.ygeno.2008.01.006openalex-snapshot
Saturation and base composition bias explain phylogenomic conflict in Plasmodium
inferred← citeshttps://doi.org/10.1016/j.ympev.2003.08.005openalex-snapshot
Monophyly and relationships of wrens (Aves: Troglodytidae): a congruence analysis of heterogeneous mitochondrial and nuclear DNA sequence data
inferred← citeshttps://doi.org/10.1016/j.ympev.2003.10.002openalex-snapshot
Tempo of speciation in a butterfly genus from the Southeast Asian tropics, inferred from mitochondrial and nuclear DNA sequence data
inferred← citeshttps://doi.org/10.1016/j.ympev.2004.02.005openalex-snapshot
Relict snakes of North America and their relationships within Caenophidia, using likelihood-based Bayesian methods on mitochondrial sequences
inferred← citeshttps://doi.org/10.1016/j.ympev.2004.05.010openalex-snapshot
Phylogenetic relationships and biogeography of the desert plant genus Fagonia (Zygophyllaceae), inferred by parsimony and Bayesian model averaging
inferred← citeshttps://doi.org/10.1016/j.ympev.2004.08.017openalex-snapshot
Inferring the phylogenetic position of Boa constrictor among the Boinae
inferred← citeshttps://doi.org/10.1016/j.ympev.2004.12.013openalex-snapshot
New DNA data from a transthyretin nuclear intron suggest an Oligocene to Miocene diversification of living South America opossums (Marsupialia: Didelphidae)
inferred← citeshttps://doi.org/10.1016/j.ympev.2005.04.009openalex-snapshot
Phylogeny and molecular evolution of the Drosophila hydei subgroup (Drosophila repleta group) inferred from the Xanthine dehydrogenase gene
inferred← citeshttps://doi.org/10.1016/j.ympev.2005.05.013openalex-snapshot
Modeling nucleotide evolution at the mesoscale: The phylogeny of the Neotropical pitvipers of the Porthidium group (Viperidae: Crotalinae)
inferred← citeshttps://doi.org/10.1016/j.ympev.2005.08.001openalex-snapshot
Ancient origins of Indo-Pacific coral reef fish biodiversity: A case study of the leopard wrasses (Labridae: Macropharyngodon)
inferred← citeshttps://doi.org/10.1016/j.ympev.2005.08.005openalex-snapshot
Model type, implicit data weighting, and model averaging in phylogenetics
inferred← citeshttps://doi.org/10.1016/j.ympev.2005.12.014openalex-snapshot
Bayesian mixed models and the phylogeny of pitvipers (Viperidae: Serpentes)
inferred← citeshttps://doi.org/10.1016/j.ympev.2006.01.029openalex-snapshot
Basal relationships in the Drosophila melanogaster species group
inferred← citeshttps://doi.org/10.1016/j.ympev.2006.08.011openalex-snapshot
Phylogenetics of the woodrat genus Neotoma (Rodentia: Muridae): Implications for the evolution of phenotypic variation in male external genitalia
inferred← citeshttps://doi.org/10.1016/j.ympev.2006.11.026openalex-snapshot
Defining the limits of taxonomic conservatism in host–plant use for phytophagous insects: Molecular systematics and evolution of host–plant associations in the seed-beetle genus Bruchus Linnaeus (Coleoptera: Chrysomelidae: Bruchinae)
inferred← citeshttps://doi.org/10.1016/j.ympev.2006.12.021openalex-snapshot
On the phylogeny of the Drosophila hydei subgroup: New insights from combined analyses of nuclear and mitochondrial data
inferred← citeshttps://doi.org/10.1016/j.ympev.2007.09.008openalex-snapshot
Family-level relationships among the Australasian marsupial “herbivores” (Diprotodontia: Koala, wombats, kangaroos and possums)
inferred← citeshttps://doi.org/10.1016/j.ympev.2008.04.026openalex-snapshot
Molecular phylogenetics of cixiid planthoppers (Hemiptera: Fulgoromorpha): New insights from combined analyses of mitochondrial and nuclear genes
inferred← citeshttps://doi.org/10.1016/j.ympev.2009.06.003openalex-snapshot
Accounting for molecular stochasticity in systematic revisions: Species limits and phylogeny of Paroaria
inferred← citeshttps://doi.org/10.1016/j.ympev.2011.06.008openalex-snapshot
Bayesian relaxed clock estimation of divergence times in foraminifera
inferred← citeshttps://doi.org/10.1016/j.ympev.2011.08.008openalex-snapshot
Phylogeny, biogeography, and display evolution in the tree and brush lizard genus Urosaurus (Squamata: Phrynosomatidae)
inferred← citeshttps://doi.org/10.1016/j.ympev.2011.09.011openalex-snapshot
Supermatrices, supertrees and serendipitous scaffolding: Inferring a well-resolved, genus-level phylogeny of Styphelioideae (Ericaceae) despite missing data
inferred← citeshttps://doi.org/10.1016/j.ympev.2012.09.006openalex-snapshot
Empirical evaluation of partitioning schemes for phylogenetic analyses of mitogenomic data: An avian case study
inferred← citeshttps://doi.org/10.1016/j.ympev.2012.09.024openalex-snapshot
Remarkable phylogenetic resolution of the most complex clade of Cyprinidae (Teleostei: Cypriniformes): A proof of concept of homology assessment and partitioning sequence data integrated with mixed model Bayesian analyses
inferred← citeshttps://doi.org/10.1016/j.ympev.2021.107342openalex-snapshot
How challenging RADseq data turned out to favor coalescent-based species tree inference. A case study in Aichryson (Crassulaceae)
inferred← citeshttps://doi.org/10.1016/j.ympev.2026.108743openalex-snapshot
Hexacorallian UCEs and where to find them: genomic mapping and assessment of ultraconserved elements
inferred← citeshttps://doi.org/10.1016/s0065-308x(06)63001-7openalex-snapshot
Phylogenetic Analyses of Parasites in the New Millennium
inferred← citeshttps://doi.org/10.1016/s0168-9525(01)02272-7openalex-snapshot
Molecular phylogenetics: state-of-the-art methods for looking into the past
inferred← citeshttps://doi.org/10.1016/s0748-3007(03)00067-7openalex-snapshot
From basepairs to birdsongs: phylogenetic data in the age of genomics
inferred← citeshttps://doi.org/10.1016/s1055-7903(02)00022-2openalex-snapshot
A phylogenetic analysis of the Arecoid Line of palms based on plastid DNA sequence data
inferred← citeshttps://doi.org/10.1016/s1055-7903(02)00313-5openalex-snapshot
Xantusiid “night” lizards: a puzzling phylogenetic problem revisited using likelihood-based Bayesian methods on mtDNA sequences
inferred← citeshttps://doi.org/10.1016/s1055-7903(02)00326-3openalex-snapshot
An index of substitution saturation and its application
inferred← citeshttps://doi.org/10.1016/s1055-7903(02)00342-1openalex-snapshot
Dramatically elevated rate of mitochondrial substitution in lice (Insecta: Phthiraptera)
inferred← citeshttps://doi.org/10.1016/s1055-7903(03)00057-5openalex-snapshot
The root of the mammalian tree inferred from whole mitochondrial genomes
inferred← citeshttps://doi.org/10.1016/s1055-7903(03)00111-8openalex-snapshot
Molecular systematics of armadillos (Xenarthra, Dasypodidae): contribution of maximum likelihood and Bayesian analyses of mitochondrial and nuclear genes
inferred← citeshttps://doi.org/10.1017/cbo9780511819049.012openalex-snapshot
Selecting models of evolution
inferred← citeshttps://doi.org/10.1023/a:1006349518932openalex-snapshot
Evolution of genes and taxa: a primer
inferred← citeshttps://doi.org/10.1023/a:1009454515671openalex-snapshot
DNA Sequence Analysis of Familial Relationships Among Dasyuromorphian Marsupials
inferred← citeshttps://doi.org/10.1038/nature04336openalex-snapshot
Tunicates and not cephalochordates are the closest living relatives of vertebrates
inferred← citeshttps://doi.org/10.1038/nature22402openalex-snapshot
Zika virus evolution and spread in the Americas
inferred← citeshttps://doi.org/10.1038/nrg1603openalex-snapshot
Phylogenomics and the reconstruction of the tree of life
inferred← citeshttps://doi.org/10.1038/nrg3186openalex-snapshot
Molecular phylogenetics: principles and practice
inferred← citeshttps://doi.org/10.1038/s41576-020-0233-0openalex-snapshot
Phylogenetic tree building in the genomic age
inferred← citeshttps://doi.org/10.1038/s41598-018-37458-xopenalex-snapshot
Phylogeography of HIV-1 suggests that Ugandan fishing communities are a sink for, not a source of, virus from general populations
inferred← citeshttps://doi.org/10.1038/srep33465openalex-snapshot
Application of RNA-seq for mitogenome reconstruction, and reconsideration of long-branch artifacts in Hemiptera phylogeny
inferred← citeshttps://doi.org/10.1043/02-64.1openalex-snapshot
Paraphyly of Tarasa (Malvaceae) and Diverse Origins of the Polyploid Species
inferred← citeshttps://doi.org/10.1046/j.1463-6409.2000.00021.xopenalex-snapshot
Gastropod evolutionary rates and phylogenetic relationships assessed using partial 28S rDNA and histone H3 sequences
inferred← citeshttps://doi.org/10.1071/is02016openalex-snapshot
Systematics and biogeography of the family Scorpionidae (Chelicerata : Scorpiones), with a discussion on phylogenetic methods
inferred← citeshttps://doi.org/10.1071/is15018openalex-snapshot
Evidence from molecules and morphology expands Podonomopsis Brundin (Diptera : Chironomidae : Podonominae) to include ‘genus Chile’
inferred← citeshttps://doi.org/10.1071/is17033openalex-snapshot
Integrative systematics of clathrinid sponges: morphological, reproductive and phylogenetic characterisation of a new species of Leucetta from Antarctica (Porifera, Calcarea, Calcinea) with notes on the occurrence of flagellated sperm
inferred← citeshttps://doi.org/10.1073/pnas.032662799openalex-snapshot
The analysis of 100 genes supports the grouping of three highly divergent amoebae: Dictyostelium , Entamoeba , and Mastigamoeba
inferred← citeshttps://doi.org/10.1073/pnas.0408313102openalex-snapshot
Incorporating gene-specific variation when inferring and evaluating optimal evolutionary tree topologies from multilocus sequence data
inferred← citeshttps://doi.org/10.1073/pnas.0409652102openalex-snapshot
A monkey's tale: The origin of Plasmodium vivax as a human malaria parasite
inferred← citeshttps://doi.org/10.1073/pnas.0936469100openalex-snapshot
Tracing the origin and history of the HIV-2 epidemic
inferred← citeshttps://doi.org/10.1073/pnas.1309948110openalex-snapshot
A test of Darwin's naturalization hypothesis in the thistle tribe shows that close relatives make bad neighbors
inferred← citeshttps://doi.org/10.1074/mcp.m112.023135openalex-snapshot
Differential Evolution and Neofunctionalization of Snake Venom Metalloprotease Domains
inferred← citeshttps://doi.org/10.1080/10635150050207401openalex-snapshot
Phylogenetic Relationship Among Horseshoe Crab Species: Effect of Substitution Models on Phylogenetic Analyses
inferred← citeshttps://doi.org/10.1080/106351500750049734openalex-snapshot
Quantification of Homoplasy for Nucleotide Transitions and Transversions and a Reexamination of Assumptions in Weighted Phylogenetic Analysis
inferred← citeshttps://doi.org/10.1080/10635150116786openalex-snapshot
Exploring Among-Site Rate Variation Models in a Maximum Likelihood Framework Using Empirical Data: Effects of Model Assumptions on Estimates of Topology, Branch Lengths, and Bootstrap Support
inferred← citeshttps://doi.org/10.1080/10635150118268openalex-snapshot
Philosophy and Phylogenetic Inference: A Comparison of Likelihood and Parsimony Methods in the Context of Karl Popper's Writings on Corroboration
inferred← citeshttps://doi.org/10.1080/10635150118469openalex-snapshot
Selecting the Best-Fit Model of Nucleotide Substitution
inferred← citeshttps://doi.org/10.1080/10635150119747openalex-snapshot
A Conditional Probability of Reconstruction Measure for Internal Cladogram Branches
inferred← citeshttps://doi.org/10.1080/106351501753462821openalex-snapshot
Phylogeny of Saxifragales (Angiosperms, Eudicots): Analysis of a Rapid, Ancient Radiation
inferred← citeshttps://doi.org/10.1080/106351502753475844openalex-snapshot
Combined Data, Bayesian Phylogenetics, and the Origin of the New Zealand Cicada Genera
inferred← citeshttps://doi.org/10.1080/106351502753475853openalex-snapshot
Increased Congruence Does Not Necessarily Indicate Increased Phylogenetic Accuracy—The Behavior of the Incongruence Length Difference Test in Mixed-Model Analyses
inferred← citeshttps://doi.org/10.1080/10635150290069922openalex-snapshot
Model Misspecification and Probabilistic Tests of Topology: Evidence from Empirical Data Sets
inferred← citeshttps://doi.org/10.1080/10635150309324openalex-snapshot
Failed Refutations: Further Comments on Parsimony and Likelihood Methods and Their Relationship to Popper's Degree of Corroboration
inferred← citeshttps://doi.org/10.1080/10635150390192726openalex-snapshot
Molecular and Morphological Phylogenies of Ruminantia and the Alternative Position of the Moschidae
inferred← citeshttps://doi.org/10.1080/10635150390235403openalex-snapshot
Identifying Conflicting Signal in a Multigene Analysis Reveals a Highly Resolved Tree: The Phylogeny of Rodentia (Mammalia)
inferred← citeshttps://doi.org/10.1080/10635150390235557openalex-snapshot
Comparison of Likelihood and Bayesian Methods for Estimating Divergence Times Using Multiple Gene Loci and Calibration Points, with Application to a Radiation of Cute-Looking Mouse Lemur Species
inferred← citeshttps://doi.org/10.1080/10635150390238879openalex-snapshot
Hierarchical Phylogenetic Models for Analyzing Multipartite Sequence Data
inferred← citeshttps://doi.org/10.1080/10635150390258949openalex-snapshot
Least and Most Powerful Phylogenetic Tests to Elucidate the Origin of the Seed Plants in the Presence of Conflicting Signals under Misspecified Models
inferred← citeshttps://doi.org/10.1080/10635150490264699openalex-snapshot
Bayesian Phylogenetic Analysis of Combined Data
inferred← citeshttps://doi.org/10.1080/10635150490445779openalex-snapshot
Modeling Compositional Heterogeneity
inferred← citeshttps://doi.org/10.1080/10635150490445797openalex-snapshot
Data Partitions and Complex Models in Bayesian Analysis: The Phylogeny of Gymnophthalmid Lizards
inferred← citeshttps://doi.org/10.1080/10635150490468648openalex-snapshot
The Biasing Effect of Compositional Heterogeneity on Phylogenetic Estimates May be Underestimated
inferred← citeshttps://doi.org/10.1080/10635150490522304openalex-snapshot
Model Selection and Model Averaging in Phylogenetics: Advantages of Akaike Information Criterion and Bayesian Approaches Over Likelihood Ratio Tests
inferred← citeshttps://doi.org/10.1080/10635150500234609openalex-snapshot
An Empirical Assessment of Long-Branch Attraction Artefacts in Deep Eukaryotic Phylogenomics
inferred← citeshttps://doi.org/10.1080/10635150500354688openalex-snapshot
An Empirical Examination of the Utility of Codon-Substitution Models in Phylogeny Reconstruction
inferred← citeshttps://doi.org/10.1080/10635150500354829openalex-snapshot
Calculating the Evolutionary Rates of Different Genes: A Fast, Accurate Estimator with Applications to Maximum Likelihood Phylogenetic Analysis
inferred← citeshttps://doi.org/10.1080/10635150500481614openalex-snapshot
Combined Mitochondrial and Nuclear DNA Sequences Resolve the Interrelations of the Major Australasian Marsupial Radiations
inferred← citeshttps://doi.org/10.1080/10635150590945313openalex-snapshot
Branch-Length Prior Influences Bayesian Posterior Probability of Phylogeny
inferred← citeshttps://doi.org/10.1080/10635150590946808openalex-snapshot
Partitioned Bayesian Analyses, Partition Choice, and the Phylogenetic Relationships of Scincid Lizards
inferred← citeshttps://doi.org/10.1080/10635150600697283openalex-snapshot
Differentiating between Hypotheses of Lineage Sorting and Introgression in New Zealand Alpine Cicadas (Maoricicada Dugdale)
inferred← citeshttps://doi.org/10.1080/10635150600863109openalex-snapshot
Incorporating Allelic Variation for Reconstructing the Evolutionary History of Organisms from Multiple Genes: An Example from Rosa in North America
inferred← citeshttps://doi.org/10.1080/10635150600969872openalex-snapshot
SDM: A Fast Distance-Based Approach for (Super)Tree Building in Phylogenomics
inferred← citeshttps://doi.org/10.1080/10635150601087641openalex-snapshot
Accurate Branch Length Estimation in Partitioned Bayesian Analyses Requires Accommodation of Among-Partition Rate Variation and Attention to Branch Length Priors
inferred← citeshttps://doi.org/10.1080/10635150701291804openalex-snapshot
Accounting for Gene Rate Heterogeneity in Phylogenetic Inference
inferred← citeshttps://doi.org/10.1080/10635150701420643openalex-snapshot
Inferring Speciation Times under an Episodic Molecular Clock
inferred← citeshttps://doi.org/10.1080/10635150701499563openalex-snapshot
Experimental Design Criteria in Phylogenetics: Where to Add Taxa
inferred← citeshttps://doi.org/10.1080/10635150801910436openalex-snapshot
Testing Congruence in Phylogenomic Analysis
inferred← citeshttps://doi.org/10.1080/10635150801910451openalex-snapshot
The Limitations of Ancestral State Reconstruction and the Evolution of the Ascus in the Lecanorales (Lichenized Ascomycota)
inferred← citeshttps://doi.org/10.1080/10635150802206883openalex-snapshot
Optimal Data Partitioning and a Test Case for Ray-Finned Fishes (Actinopterygii) Based on Ten Nuclear Loci
inferred← citeshttps://doi.org/10.1080/106351598261058openalex-snapshot
Morphology, Molecules, and the Phylogenetics of Cetaceans
inferred← citeshttps://doi.org/10.1080/106351598261067openalex-snapshot
On the Best Evolutionary Rate for Phylogenetic Analysis
inferred← citeshttps://doi.org/10.1080/106351599260166openalex-snapshot
Sampling Confidence Envelopes of Phylogenetic Trees for Combinability Testing: A Reply to Rodrigo
inferred← citeshttps://doi.org/10.1080/106351599260292openalex-snapshot
Maximum Likelihood Analysis of Gene-Based and Structure-Based Process Partitions, Using Mammalian Mitochondrial Genomes
inferred← citeshttps://doi.org/10.1080/19440049.2013.794305openalex-snapshot
Utility of the phylotoxigenic relationships among trichothecene-producing Fusarium species for predicting their mycotoxin-producing potential
inferred← citeshttps://doi.org/10.1080/23144599.2019.1637046openalex-snapshot
Molecular pathogenic and host range determinants of reassortant Egyptian low pathogenic avian influenza H9N2 viruses from backyard chicken
inferred← citeshttps://doi.org/10.1086/377059openalex-snapshot
rbcL Phylogeny of the Fern Genus Trichomanes (Hymenophyllaceae), with Special Reference to Neotropical Taxa
inferred← citeshttps://doi.org/10.1089/cmb.2015.0146openalex-snapshot
Consequences of Common Topological Rearrangements for Partition Trees in Phylogenomic Inference
inferred← citeshttps://doi.org/10.1093/acprof:oso/9780198567028.001.0001openalex-snapshot
Computational Molecular Evolution
inferred← citeshttps://doi.org/10.1093/acprof:oso/9780198567028.002.0004openalex-snapshot
Copyright Page
inferred← citeshttps://doi.org/10.1093/acprof:oso/9780198567028.003.0001openalex-snapshot
Models of nucleotide substitution
inferred← citeshttps://doi.org/10.1093/acprof:oso/9780198567028.003.0002openalex-snapshot
Models of amino acid and codon substitution
inferred← citeshttps://doi.org/10.1093/acprof:oso/9780198567028.003.0003openalex-snapshot
Phylogeny reconstruction: overview
inferred← citeshttps://doi.org/10.1093/acprof:oso/9780198567028.003.0004openalex-snapshot
Maximum likelihood methods
inferred← citeshttps://doi.org/10.1093/acprof:oso/9780198567028.003.0005openalex-snapshot
Bayesian methods
inferred← citeshttps://doi.org/10.1093/acprof:oso/9780198567028.003.0006openalex-snapshot
Comparison of methods and tests on trees
inferred← citeshttps://doi.org/10.1093/acprof:oso/9780198567028.003.0007openalex-snapshot
Molecular clock and estimation of species divergence times
inferred← citeshttps://doi.org/10.1093/acprof:oso/9780198567028.003.0008openalex-snapshot
Neutral and adaptive protein evolution
inferred← citeshttps://doi.org/10.1093/acprof:oso/9780198567028.003.0009openalex-snapshot
Simulating molecular evolution
inferred← citeshttps://doi.org/10.1093/acprof:oso/9780198567028.003.0010openalex-snapshot
Perspectives
inferred← citeshttps://doi.org/10.1093/acprof:oso/9780199299188.003.0004openalex-snapshot
Probabilistic models and their impact on the accuracy of reconstructed ancestral protein sequences
inferred← citeshttps://doi.org/10.1093/acprof:oso/9780199602605.001.0001openalex-snapshot
Molecular Evolution
inferred← citeshttps://doi.org/10.1093/acprof:oso/9780199602605.002.0003openalex-snapshot
Copyright Page
inferred← citeshttps://doi.org/10.1093/acprof:oso/9780199602605.003.0001openalex-snapshot
Models of nucleotide substitution
inferred← citeshttps://doi.org/10.1093/acprof:oso/9780199602605.003.0002openalex-snapshot
Models of amino acid and codon substitution
inferred← citeshttps://doi.org/10.1093/acprof:oso/9780199602605.003.0003openalex-snapshot
Phylogeny reconstruction: overview
inferred← citeshttps://doi.org/10.1093/acprof:oso/9780199602605.003.0004openalex-snapshot
Maximum likelihood methods
inferred← citeshttps://doi.org/10.1093/acprof:oso/9780199602605.003.0005openalex-snapshot
Comparison of phylogenetic methods and tests on trees
inferred← citeshttps://doi.org/10.1093/acprof:oso/9780199602605.003.0006openalex-snapshot
Bayesian theory
inferred← citeshttps://doi.org/10.1093/acprof:oso/9780199602605.003.0007openalex-snapshot
Bayesian computation (MCMC)
inferred← citeshttps://doi.org/10.1093/acprof:oso/9780199602605.003.0008openalex-snapshot
Bayesian phylogenetics
inferred← citeshttps://doi.org/10.1093/acprof:oso/9780199602605.003.0009openalex-snapshot
Coalescent theory and species trees
inferred← citeshttps://doi.org/10.1093/acprof:oso/9780199602605.003.0010openalex-snapshot
Molecular clock and estimation of species divergence times
inferred← citeshttps://doi.org/10.1093/acprof:oso/9780199602605.003.0011openalex-snapshot
Neutral and adaptive protein evolution
showing the first 200 of 395 · page through all 395
Editorial review for independent work. ICSAC — the Institute for Complexity
Science and Advanced Computing — runs a structured editorial panel for researchers
publishing outside journals, and publishes on CiteStamp rails. Submission is free
and goes through ORCID: icsacinstitute.org/submit.