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Phylo-MCOA: A Fast and Efficient Method to Detect Outlier Genes and Species in Phylogenomics Using Multiple Co-inertia Analysis
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What this work says
Outgoing claims: the papers this work cites, builds on, or argues with.
inferredcites →https://doi.org/10.1002/jez.b.21026openalex-snapshot
Inferring species phylogenies from multiple genes: Concatenated sequence tree versus consensus gene tree
inferredcites →https://doi.org/10.1006/tpbi.2001.1568openalex-snapshot
The Probability of Topological Concordance of Gene Trees and Species Trees
inferredcites →https://doi.org/10.1007/bf01894195openalex-snapshot
Consensus supertrees: The synthesis of rooted trees containing overlapping sets of labeled leaves
inferredcites →https://doi.org/10.1007/bf01896809openalex-snapshot
Metric and Euclidean properties of dissimilarity coefficients
inferredcites →https://doi.org/10.1016/j.crvi.2003.10.007openalex-snapshot
Multiple co-inertia analysis: a tool for assessing synchrony in the temporal variability of aquatic communities
inferredcites →https://doi.org/10.1016/s0168-9525(01)02522-7openalex-snapshot
Eubacterial phylogeny based on translational apparatus proteins
inferredcites →https://doi.org/10.1016/s0169-5347(97)01242-1openalex-snapshot
Phylogenetic supertrees: Assembling the trees of life
inferredcites →https://doi.org/10.1051/gse:2007021openalex-snapshot
Consensus genetic structuring and typological value of markers using multiple co-inertia analysis
inferredcites →https://doi.org/10.1073/pnas.0607004104openalex-snapshot
High-resolution species trees without concatenation
inferredcites →https://doi.org/10.1080/10635150590946961openalex-snapshot
Analysis and Visualization of Tree Space
inferredcites →https://doi.org/10.1080/10635150701397643openalex-snapshot
Detecting and Overcoming Systematic Errors in Genome-Scale Phylogenies
inferredcites →https://doi.org/10.1080/10635150701485091openalex-snapshot
Summarizing a Posterior Distribution of Trees Using Agreement Subtrees
inferredcites →https://doi.org/10.1080/10635150801910436openalex-snapshot
Testing Congruence in Phylogenomic Analysis
inferredcites →https://doi.org/10.1080/10635150802306527openalex-snapshot
Assessing the Performance of Single-Copy Genes for Recovering Robust Phylogenies
inferredcites →https://doi.org/10.1093/bioinformatics/btg412openalex-snapshot
APE: Analyses of Phylogenetics and Evolution in R language
inferredcites →https://doi.org/10.1093/bioinformatics/btl446openalex-snapshot
RAxML-VI-HPC: maximum likelihood-based phylogenetic analyses with thousands of taxa and mixed models
inferredcites →https://doi.org/10.1093/molbev/msj030openalex-snapshot
Application of Phylogenetic Networks in Evolutionary Studies
inferredcites →https://doi.org/10.1093/molbev/msj113openalex-snapshot
Visualizing and Assessing Phylogenetic Congruence of Core Gene Sets: A Case Study of the γ-Proteobacteria
inferredcites →https://doi.org/10.1093/molbev/msl170openalex-snapshot
Bayesian Estimation of Concordance among Gene Trees
inferredcites →https://doi.org/10.1093/molbev/msm139openalex-snapshot
Treeness Triangles: Visualizing the Loss of Phylogenetic Signal
inferredcites →https://doi.org/10.1093/molbev/msr110openalex-snapshot
Let Them Fall Where They May: Congruence Analysis in Massive Phylogenetically Messy Data Sets
inferredcites →https://doi.org/10.1093/nar/gkr087openalex-snapshot
TreeKO: a duplication-aware algorithm for the comparison of phylogenetic trees
inferredcites →https://doi.org/10.1093/sysbio/syr066openalex-snapshot
Euclidean Nature of Phylogenetic Distance Matrices
inferredcites →https://doi.org/10.1111/j.1365-2052.2008.01703.xopenalex-snapshot
Using molecular markers and multivariate methods to study the genetic diversity of local European and Asian chicken breeds
inferredcites →https://doi.org/10.1111/j.1365-2435.2005.01026.xopenalex-snapshot
Specific functional signature in soil macro‐invertebrate biostructures
inferredcites →https://doi.org/10.1111/j.1558-5646.1985.tb00420.xopenalex-snapshot
CONFIDENCE LIMITS ON PHYLOGENIES: AN APPROACH USING THE BOOTSTRAP
inferredcites →https://doi.org/10.1186/1471-2105-9-456openalex-snapshot
FUNYBASE: a FUNgal phYlogenomic dataBASE
inferredcites →https://doi.org/10.1186/1471-2148-7-s1-s2openalex-snapshot
SCaFoS: a tool for Selection, Concatenation and Fusion of Sequences for phylogenomics
inferredcites →https://doi.org/10.1198/016214503000000558openalex-snapshot
Evolutionary Similarity Among Genes
inferredcites →https://doi.org/10.1371/journal.pbio.1000020openalex-snapshot
Concatenated Analysis Sheds Light on Early Metazoan Evolution and Fuels a Modern “Urmetazoon” Hypothesis
inferredcites →https://doi.org/10.1371/journal.pbio.1000602openalex-snapshot
Resolving Difficult Phylogenetic Questions: Why More Sequences Are Not Enough
inferredcites →https://doi.org/10.1371/journal.pgen.0020068openalex-snapshot
Discordance of Species Trees with Their Most Likely Gene Trees
inferredcites →https://doi.org/10.1534/genetics.103.025692openalex-snapshot
Stochastic Models for Horizontal Gene Transfer
inferredcites →https://doi.org/10.2307/2291702openalex-snapshot
Multivariate Statistical Methods: A Primer.
What points at this work
Incoming claims: where this work appears in other papers’ reference lists and arguments.
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Sources of Error and Incongruence in Phylogenomic Analyses
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Taxonomic assignment of uncultured prokaryotes with long range PCR targeting the spectinomycin operon
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Current analysis of host–parasite interactions with a focus on next generation sequencing data
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inferred← citeshttps://doi.org/10.1038/s41576-020-0233-0openalex-snapshot
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inferred← citeshttps://doi.org/10.1093/gbe/evt027openalex-snapshot
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inferred← citeshttps://doi.org/10.1093/gbe/evz155openalex-snapshot
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inferred← citeshttps://doi.org/10.1093/isd/ixz016openalex-snapshot
Understanding UCEs: A Comprehensive Primer on Using Ultraconserved Elements for Arthropod Phylogenomics
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Branch Length Transforms using Optimal Tree Metric Matching
inferred← citeshttps://doi.org/10.1093/sysbio/syv070openalex-snapshot
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The impact of incongruence and exogenous gene fragments on estimates of the eukaryote root
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inferred← citeshttps://doi.org/10.1101/517995openalex-snapshot
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inferred← citeshttps://doi.org/10.1109/bibm66473.2025.11357096openalex-snapshot
Missing Data Imputation Method for Phylogenetic Trees Based on Singular Value Decomposition and Denoising Autoencoder
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Detection of Genome Sequence Outliers Across Pan-Genomes
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TAPER: Pinpointing errors in multiple sequence alignments despite varying rates of evolution
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inferred← citeshttps://doi.org/10.48550/arxiv.1605.01039openalex-snapshot
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inferred← citeshttps://doi.org/10.7287/peerj.11019v0.1/reviews/1openalex-snapshot
Peer Review #1 of "New alignment-based sequence extraction software (ALiBaSeq) and its utility for deep level phylogenetics (v0.1)"
inferred← citeshttps://doi.org/10.7287/peerj.11019v0.1/reviews/2openalex-snapshot
Peer Review #2 of "New alignment-based sequence extraction software (ALiBaSeq) and its utility for deep level phylogenetics (v0.1)"
inferred← citeshttps://doi.org/10.7287/peerj.11019v0.1/reviews/3openalex-snapshot
Peer Review #3 of "New alignment-based sequence extraction software (ALiBaSeq) and its utility for deep level phylogenetics (v0.1)"
inferred← citeshttps://doi.org/10.7287/peerj.11019v0.2/reviews/1openalex-snapshot
Peer Review #1 of "New alignment-based sequence extraction software (ALiBaSeq) and its utility for deep level phylogenetics (v0.2)"
inferred← citeshttps://doi.org/10.7287/peerj.11019v0.2/reviews/2openalex-snapshot
Peer Review #2 of "New alignment-based sequence extraction software (ALiBaSeq) and its utility for deep level phylogenetics (v0.2)"
inferred← citeshttps://doi.org/10.7287/peerj.12418v0.1/reviews/1openalex-snapshot
Peer Review #1 of "Phylogeny of Crataegus (Rosaceae) based on 257 nuclear loci and chloroplast genomes: evaluating the impact of hybridization (v0.1)"
inferred← citeshttps://doi.org/10.7287/peerj.12418v0.1/reviews/2openalex-snapshot
Peer Review #2 of "Phylogeny of Crataegus (Rosaceae) based on 257 nuclear loci and chloroplast genomes: evaluating the impact of hybridization (v0.1)"
inferred← citeshttps://doi.org/10.7287/peerj.12418v0.2/reviews/1openalex-snapshot
Peer Review #1 of "Phylogeny of Crataegus (Rosaceae) based on 257 nuclear loci and chloroplast genomes: evaluating the impact of hybridization (v0.2)"
inferred← citeshttps://doi.org/10.7287/peerj.6399v0.1/reviews/1openalex-snapshot
Peer Review #1 of "Embracing heterogeneity: coalescing the Tree of Life and the future of phylogenomics (v0.1)"
inferred← citeshttps://doi.org/10.7287/peerj.6399v0.1/reviews/2openalex-snapshot
Peer Review #2 of "Embracing heterogeneity: coalescing the Tree of Life and the future of phylogenomics (v0.1)"
inferred← citeshttps://doi.org/10.7287/peerj.6399v0.1/reviews/3openalex-snapshot
Peer Review #3 of "Embracing heterogeneity: coalescing the Tree of Life and the future of phylogenomics (v0.1)"
inferred← citeshttps://doi.org/10.7287/peerj.6399v0.2/reviews/1openalex-snapshot
Peer Review #1 of "Embracing heterogeneity: coalescing the Tree of Life and the future of phylogenomics (v0.2)"
inferred← citeshttps://doi.org/10.7287/peerj.6399v0.2/reviews/3openalex-snapshot
Peer Review #3 of "Embracing heterogeneity: coalescing the Tree of Life and the future of phylogenomics (v0.2)"
inferred← citeshttps://doi.org/10.7717/peerj.11019openalex-snapshot
New alignment-based sequence extraction software (ALiBaSeq) and its utility for deep level phylogenetics
inferred← citeshttps://doi.org/10.7717/peerj.12418openalex-snapshot
Phylogeny of Crataegus (Rosaceae) based on 257 nuclear loci and chloroplast genomes: evaluating the impact of hybridization
inferred← citeshttps://doi.org/10.7717/peerj.6399openalex-snapshot
Embracing heterogeneity: coalescing the Tree of Life and the future of phylogenomics
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