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Bootstrapping Phylogenetic Trees: Theory and Methods
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What this work says
Outgoing claims: the papers this work cites, builds on, or argues with.
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Geometry of the Space of Phylogenetic Trees
inferredcites →https://doi.org/10.1006/mpev.1995.1005openalex-snapshot
Estimation of Confidence in Phylogeny: The Complete-and-Partial Bootstrap Technique
inferredcites →https://doi.org/10.1007/978-1-4612-1023-8openalex-snapshot
Extremal Families and Systems of Sufficient Statistics
inferredcites →https://doi.org/10.1007/978-1-4899-4541-9openalex-snapshot
An Introduction to the Bootstrap
inferredcites →https://doi.org/10.1007/bf00160154openalex-snapshot
Maximum likelihood phylogenetic estimation from DNA sequences with variable rates over sites: Approximate methods
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The nonidentity of invariable positions in the cytochromes c of different species
inferredcites →https://doi.org/10.1007/bf00486096openalex-snapshot
An improved method for determining codon variability in a gene and its application to the rate of fixation of mutations in evolution
inferredcites →https://doi.org/10.1007/bf01659396openalex-snapshot
Rate of change of concomitantly variable codons
inferredcites →https://doi.org/10.1007/bf02293859openalex-snapshot
Confidence Regions for Multidimensional Scaling Analysis
inferredcites →https://doi.org/10.1007/bf02638451openalex-snapshot
Spectral analysis of phylogenetic data
inferredcites →https://doi.org/10.1016/0020-7519(93)90040-6openalex-snapshot
Calibrating the bootstrap test of monophyly
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On the existence of tests uniformly more powerful than the likelihood ratio test
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Biological sequence analysis
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Modeling the covarion hypothesis of nucleotide substitution
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Biological Sequence Analysis
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An empirical Bayes estimation problem
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Linear empirical Bayes estimation of means and variances.
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A discrete Fourier analysis for evolutionary trees.
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Bootstrap confidence levels for phylogenetic trees.
inferredcites →https://doi.org/10.1073/pnas.93.23.13429openalex-snapshot
Bootstrap confidence levels for phylogenetic trees
inferredcites →https://doi.org/10.1073/pnas.93.5.1930openalex-snapshot
Evolution of chlorophyll and bacteriochlorophyll: the problem of invariant sites in sequence analysis.
inferredcites →https://doi.org/10.1073/pnas.95.21.12390openalex-snapshot
The optimization principle in phylogenetic analysis tends to give incorrect topologies when the number of nucleotides or amino acids used is small
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Matchings and phylogenetic trees
inferredcites →https://doi.org/10.1080/01621459.1984.10477069openalex-snapshot
Bootstrapping a Regression Equation: Some Empirical Results
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Cross-Validation, the Jackknife, and the Bootstrap: Excess Error Estimation in Forward Logistic Regression
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Phylogenetic Tree Construction Using Markov Chain Monte Carlo
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Bootstrapping an Econometric Model: Some Empirical Results
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Seq-Gen: an application for the Monte Carlo simulation of DNA sequence evolution along phylogenetic trees
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On the Bootstrap and Likelihood-Based Confidence Regions
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Bootstrapping phylogenies: Large deviations and dispersion effects
inferredcites →https://doi.org/10.1093/genetics/153.1.485openalex-snapshot
Locating Regions of Differential Variability in DNA and Protein Sequences
inferredcites →https://doi.org/10.1093/molbev/13.7.999openalex-snapshot
On the Interpretation of Bootstrap Trees: Appropriate Threshold of Clade Selection and Induced Gain
inferredcites →https://doi.org/10.1093/oxfordjournals.molbev.a025575openalex-snapshot
A Hidden Markov Model approach to variation among sites in rate of evolution
inferredcites →https://doi.org/10.1093/oxfordjournals.molbev.a025811openalex-snapshot
Bayesian phylogenetic inference using DNA sequences: a Markov Chain Monte Carlo Method
inferredcites →https://doi.org/10.1093/oxfordjournals.molbev.a040725openalex-snapshot
The number of replications needed for accurate estimation of the bootstrap P value in phylogenetic studies.
inferredcites →https://doi.org/10.1093/sysbio/40.3.315openalex-snapshot
The Discovery and Importance of Multiple Islands of Most-Parsimonious Trees
inferredcites →https://doi.org/10.1093/sysbio/42.2.182openalex-snapshot
An Empirical Test of Bootstrapping as a Method for Assessing Confidence in Phylogenetic Analysis
inferredcites →https://doi.org/10.1093/sysbio/44.1.49openalex-snapshot
Statistical Tests of DNA Phylogenies
inferredcites →https://doi.org/10.1093/sysbio/44.3.299openalex-snapshot
Objections to Bootstrapping Phylogenies: A Critique
inferredcites →https://doi.org/10.1098/rspb.2000.1128openalex-snapshot
Predicted decline of protected whales based on molecular genetic monitoring of Japanese and Korean markets
inferredcites →https://doi.org/10.1111/j.0006-341x.1999.00001.xopenalex-snapshot
Bayesian Phylogenetic Inference via Markov Chain Monte Carlo Methods
inferredcites →https://doi.org/10.1111/j.1558-5646.1988.tb02497.xopenalex-snapshot
THE LIMITS OF AMINO ACID SEQUENCE DATA IN ANGIOSPERM PHYLOGENETIC RECONSTRUCTION
inferredcites →https://doi.org/10.1126/science.265.5178.1538openalex-snapshot
Which Whales Are Hunted? A Molecular Genetic Approach to Monitoring Whaling
inferredcites →https://doi.org/10.1126/science.275.5303.1109openalex-snapshot
Mass Survival of Birds Across the Cretaceous- Tertiary Boundary: Molecular Evidence
inferredcites →https://doi.org/10.1137/1.9781611970036openalex-snapshot
Robust Statistical Procedures
inferredcites →https://doi.org/10.1201/9780429246593openalex-snapshot
An Introduction to the Bootstrap
inferredcites →https://doi.org/10.1214/aos/1018031260openalex-snapshot
Multivariate analysis by data depth: descriptive statistics, graphics and inference, (with discussion and a rejoinder by Liu and Singh)
inferredcites →https://doi.org/10.1214/aos/1176346239openalex-snapshot
Some Thoughts on Empirical Bayes Estimation
inferredcites →https://doi.org/10.1214/aos/1176347251openalex-snapshot
A Generalization of Spectral Analysis with Application to Ranked Data
inferredcites →https://doi.org/10.1214/aos/1176347265openalex-snapshot
The Jackknife and the Bootstrap for General Stationary Observations
inferredcites →https://doi.org/10.1214/ejp.v7-105openalex-snapshot
Random Walks on Trees and Matchings
inferredcites →https://doi.org/10.1214/ss/998929474openalex-snapshot
Stochastic models and descriptive statistics for phylogenetic trees, from Yule to today
inferredcites →https://doi.org/10.2307/1269782openalex-snapshot
Robust Statistics: The Approach Based on Influence Functions
inferredcites →https://doi.org/10.2307/2992540openalex-snapshot
An Empirical Test of Bootstrapping as a Method for Assessing Confidence in Phylogenetic Analysis
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inferred← citeshttps://doi.org/10.1111/j.1096-0031.2009.00281.xopenalex-snapshot
Effects of data incompleteness on the relative performance of parsimony and Bayesian approaches in a supermatrix phylogenetic reconstruction of Mustelidae and Procyonidae (Carnivora)
inferred← citeshttps://doi.org/10.1111/j.1096-0031.2011.00354.xopenalex-snapshot
Repeatability and reality
inferred← citeshttps://doi.org/10.1111/j.1502-3931.2010.00256.xopenalex-snapshot
Quantitative biochronology of Devonian ammonoids from Morocco and proposals for a refined unitary association method
inferred← citeshttps://doi.org/10.1111/j.1600-0587.2010.06599.xopenalex-snapshot
Evaluating the stability of the classification of community data
inferred← citeshttps://doi.org/10.1111/j.1601-5223.2010.02176.xopenalex-snapshot
Genetic signals of ancient decline in Aleppo pine populations at the species’ southwestern margins in the Mediterranean Basin
inferred← citeshttps://doi.org/10.1111/j.1601-5223.2013.00027.xopenalex-snapshot
Range-wide genetic structure of maritime pine predates the last glacial maximum: evidence from nuclear DNA
inferred← citeshttps://doi.org/10.1111/zoj.12339openalex-snapshot
The cranial morphology of the temnospondylAustralerpeton cosgriffi(Tetrapoda: Stereospondyli) from the Middle-Late Permian of Paraná Basin and the phylogenetic relationships of Rhinesuchidae
inferred← citeshttps://doi.org/10.1115/imece2006-14516openalex-snapshot
Investigating the Accuracy of Subjective Clustering and Bootstrap Application to Subjective Clustering Using an Empirical Population
inferred← citeshttps://doi.org/10.1128/jvi.01066-20openalex-snapshot
Detection and Characterization of Swine Origin Influenza A(H1N1) Pandemic 2009 Viruses in Humans following Zoonotic Transmission
inferred← citeshttps://doi.org/10.1134/s199542552006013xopenalex-snapshot
Long-Chain Alkenones in Saline Meromictic Lakes of the North Minusinsk Depression (Southern Siberia): First Knowledge and Possible Correlation with Water-Level Dynamics
inferred← citeshttps://doi.org/10.1142/9789812838780_0012openalex-snapshot
Phylogenetic Tree Building Methods
inferred← citeshttps://doi.org/10.1145/3491102.3501942openalex-snapshot
Gesture Elicitation as a Computational Optimization Problem
inferred← citeshttps://doi.org/10.1145/3584371.3612996openalex-snapshot
Phylogenomics using Compression Distances: Incorporating Rate Heterogeneity and Amino Acid Properties
inferred← citeshttps://doi.org/10.1146/annurev.ecolsys.37.091305.110021openalex-snapshot
The Posterior and the Prior in Bayesian Phylogenetics
inferred← citeshttps://doi.org/10.1155/2023/2806034openalex-snapshot
Evaluation of Pathogenicity of Entomopathogenic Oomycetes Lagenidium giganteum and L. ajelloi against Anopheles Mosquito Larvae
inferred← citeshttps://doi.org/10.11606/t.59.2013.tde-12032013-092125openalex-snapshot
Revisão filogenética de Mesoeucrocodylia: irradiação basal e principais controvérsias
inferred← citeshttps://doi.org/10.11646/zootaxa.3435.1.2openalex-snapshot
The limits of understanding in biological systematics
inferred← citeshttps://doi.org/10.1186/1471-2105-11-428openalex-snapshot
Clustering of protein families into functional subtypes using Relative Complexity Measure with reduced amino acid alphabets
inferred← citeshttps://doi.org/10.1186/1471-2105-12-111openalex-snapshot
MixtureTree: a program for constructing phylogeny
inferred← citeshttps://doi.org/10.1186/1471-2105-14-94openalex-snapshot
An inferential framework for biological network hypothesis tests
inferred← citeshttps://doi.org/10.1186/1471-2148-5-58openalex-snapshot
The efficiency of different search strategies in estimating parsimony jackknife, bootstrap, and Bremer support
inferred← citeshttps://doi.org/10.1186/1742-9994-6-29openalex-snapshot
Filling the gap - COI barcode resolution in eastern Palearctic birds
inferred← citeshttps://doi.org/10.1186/1743-422x-9-65openalex-snapshot
Phylogenetic comparison of exonic US4, US7 and UL44 regions of clinical herpes simplex virus type 1 isolates showed lack of association between their anatomic sites of infection and genotypic/sub genotypic classification
inferred← citeshttps://doi.org/10.1186/1748-7188-7-21openalex-snapshot
Bootstrapping phylogenies inferred from rearrangement data
inferred← citeshttps://doi.org/10.1186/s12906-023-04083-9openalex-snapshot
The structural characterization and bioactivity assessment of nonspecific lipid transfer protein 1 (nsLTP1) from caraway (Carum carvi) seeds
inferred← citeshttps://doi.org/10.1186/s41938-018-0033-4openalex-snapshot
Strain-specific identification of Beauveria bassiana isolated from a novel habitat, using rDNA-based sequence analogy
inferred← citeshttps://doi.org/10.1214/ejp.v18-2201openalex-snapshot
Central limit theorems for Fréchet means in the space of phylogenetic trees
inferred← citeshttps://doi.org/10.1287/opre.1030.0095openalex-snapshot
Bioinformatics and Management Science: Some Common Tools and Techniques
inferred← citeshttps://doi.org/10.13057/biodiv/d211241openalex-snapshot
The detection of plantaricin-encoding genes and their amino acid profiles in Lactobacillus plantarum AKK30 isolated from Indonesian native chicken
inferred← citeshttps://doi.org/10.13057/biodiv/d220703openalex-snapshot
Diversity of lactic acid bacteria isolated during fermentation of indigenous cassava obtained from Sumba, East Nusa Tenggara, Indonesia
inferred← citeshttps://doi.org/10.1371/journal.pone.0061217openalex-snapshot
phyloseq: An R Package for Reproducible Interactive Analysis and Graphics of Microbiome Census Data
inferred← citeshttps://doi.org/10.15578/iaj.10.2.2015.137-142openalex-snapshot
IDENTIFICATION OF A LOCAL PROBIOTIC BACTERIUM USING 16S rRNA GENE SEQUENCE THAT WAS USED FOR FIELD TRIAL TO ENHANCED WHITELEG SHRIMP (Litopenaeus vannamei) SURVIVAL
inferred← citeshttps://doi.org/10.1600/036364414x682634openalex-snapshot
A plastid phylogeny of the African rattans (Ancistrophyllinae, Arecaceae)
inferred← citeshttps://doi.org/10.17129/botsci.3751openalex-snapshot
Flowers from Tzimol Quarry, Chiapas: Evidence of labile merism during the Late Cretaceous
inferred← citeshttps://doi.org/10.17615/40jf-4g75openalex-snapshot
Sparse PCA Asymptotics and Analysis of Tree Data
inferred← citeshttps://doi.org/10.17615/qwx2-d308openalex-snapshot
Object Oriented Data Analysis of Cell Images and Analysis of Elastic Functions
inferred← citeshttps://doi.org/10.20956/jal.v8i16.2980openalex-snapshot
Isolasidan Karakterisasi Morfologi Aktinomiset Indigenus Asal Tanah Gambut
inferred← citeshttps://doi.org/10.2108/zsj.23.125openalex-snapshot
Evidence from Nuclear DNA Sequences Sheds Light on the Phylogenetic Relationships of Pinnipedia: Single Origin with Affinity to Musteloidea
inferred← citeshttps://doi.org/10.2147/oams.s52288openalex-snapshot
Genomic aggregation effects and Simpson's paradox
inferred← citeshttps://doi.org/10.22146/jtbb.74133openalex-snapshot
DNA Authentication of Indonesian Leaffish Pristolepis grooti from Kelekar River and Ogan River in South Sumatra Based on Cytochrome C Oxidase Subunit I (COI) Gene
inferred← citeshttps://doi.org/10.25047/agropross.2023.491openalex-snapshot
Deteksi Molekuler Bakteri Patogen pada Makanan Fermentasi Tempe Dage berdasarkan marka gen 16S rRNA
inferred← citeshttps://doi.org/10.25772/vykh-kx58openalex-snapshot
An Inferential Framework for Network Hypothesis Tests: With Applications to Biological Networks
inferred← citeshttps://doi.org/10.3390/foods10112619openalex-snapshot
Antifungal and Aflatoxin-Reducing Activity of β-Glucan Isolated from Pichia norvegensis Grown on Tofu Wastewater
inferred← citeshttps://doi.org/10.3390/microorganisms13112473openalex-snapshot
Genomic Drivers of Biofilm Formation in Salmonella Enteritidis and S. Kentucky from Poultry Production
inferred← citeshttps://doi.org/10.3390/pathogens12050663openalex-snapshot
New Insights on the Neglected Avian Nematode Hystrichis tricolor: Hystrichiosis-Induced Proventriculitis in Synanthropic Egyptian Geese (Alopochen aegyptiaca Linnaeus, 1766) in Germany
inferred← citeshttps://doi.org/10.35495/ajab.2023.333openalex-snapshot
DNA barcoding reveals arthropod diversity and unveils seasonal patterns of variation in Quetta region, Pakistan
inferred← citeshttps://doi.org/10.35537/10915/119072openalex-snapshot
Selección y caracterización de microorganismos con capacidad antifúngica y fertilizante aislados de la rizosfera de plantas de yerba mate de la provincia de Misiones para su aplicación como promotores del crecimiento vegetal
inferred← citeshttps://doi.org/10.35537/10915/53685openalex-snapshot
Estudio de peptidasas aspárticas de flores de Asteraceae con potencial aplicación biotecnológica
inferred← citeshttps://doi.org/10.48550/arxiv.1006.1328openalex-snapshot
Uncovering the Riffled Independence Structure of Rankings
inferred← citeshttps://doi.org/10.48550/arxiv.1303.4767openalex-snapshot
Object Oriented Data Analysis of Cell-Well Structured Data
inferred← citeshttps://doi.org/10.48550/arxiv.1607.07503openalex-snapshot
Genomic data analysis in tree spaces
inferred← citeshttps://doi.org/10.48550/arxiv.2111.12989openalex-snapshot
SPAGETI: Stabilizing Phylogenetic Assessment with Gene Evolutionary Tree Indices
inferred← citeshttps://doi.org/10.5061/dryad.fj6q573rxopenalex-snapshot
Assessing confidence in root placement on phylogenies: an empirical study using non-reversible models for Mammals
inferred← citeshttps://doi.org/10.5075/epfl-thesis-5435openalex-snapshot
Models and Algorithms for Whole-Genome Evolution and their Use in Phylogenetic Inference
inferred← citeshttps://doi.org/10.53846/goediss-849openalex-snapshot
Untersuchung möglicher Zusammenhänge zwischen Phänotyp, Zellwandkomposition und Genotyp in dem humanpathogenen Hefepilz Candida glabrata
inferred← citeshttps://doi.org/10.5454/mi.3.2.3openalex-snapshot
Identification and Phylogenetic Analysis of Bacterial Isolates from Litopenaeus vannamei Shrimp Culture System and Gut Environment Based on 16SrRNA Gene Sequence Data
inferred← citeshttps://doi.org/10.5897/ajb2010.000-3207openalex-snapshot
Current trends in chloroplast genome research
inferred← citeshttps://doi.org/10.64898/2026.01.27.701834openalex-snapshot
SCANBIT facilitates identification of tumor cell populations in scRNAseq data using pseudobulked SNV calls
inferred← citeshttps://doi.org/10.70675/5d2d918bzcf89z4a5az88dcz64e9026e3975openalex-snapshot
Feature extraction and supervised learning on fMRI : from practice to theory
inferred← citeshttps://doi.org/10.7287/peerj.11993v0.1/reviews/1openalex-snapshot
Peer Review #1 of "Who’s who in Magelona: phylogenetic hypotheses under Magelonidae Cunningham & Ramage, 1888 (Annelida: Polychaeta) (v0.1)"
inferred← citeshttps://doi.org/10.7287/peerj.11993v0.1/reviews/2openalex-snapshot
Peer Review #2 of "Who’s who in Magelona: phylogenetic hypotheses under Magelonidae Cunningham & Ramage, 1888 (Annelida: Polychaeta) (v0.1)"
inferred← citeshttps://doi.org/10.7287/peerj.11993v0.1/reviews/3openalex-snapshot
Peer Review #3 of "Who’s who in Magelona: phylogenetic hypotheses under Magelonidae Cunningham & Ramage, 1888 (Annelida: Polychaeta) (v0.1)"
inferred← citeshttps://doi.org/10.7717/peerj.11993openalex-snapshot
Who’s who in Magelona: phylogenetic hypotheses under Magelonidae Cunningham & Ramage, 1888 (Annelida: Polychaeta)
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.