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Trait Evolution on Phylogenetic Networks

https://doi.org/10.1101/023986
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What this work says

Outgoing claims: the papers this work cites, builds on, or argues with.

inferredcites →https://doi.org/10.1007/978-0-387-09760-2_7openalex-snapshot
Evolutionary Phylogenetic Networks: Models and Issues
inferredcites →https://doi.org/10.1007/978-3-642-37195-0_29openalex-snapshot
An Algorithm for Constructing Parsimonious Hybridization Networks with Multiple Phylogenetic Trees
inferredcites →https://doi.org/10.1007/b97636openalex-snapshot
Model Selection and Multimodel Inference
inferredcites →https://doi.org/10.1007/s00239-004-0017-8openalex-snapshot
Evolutionary Relationships of the Limnochromini, a Tribe of Benthic Deepwater Cichlid Fish Endemic to Lake Tanganyika, East Africa
inferredcites →https://doi.org/10.1007/s10530-008-9383-2openalex-snapshot
Hybridization, polyploidy and invasion: lessons from Spartina (Poaceae)
inferredcites →https://doi.org/10.1007/s11538-013-9872-zopenalex-snapshot
Reconstruction of Certain Phylogenetic Networks from Their Tree-Average Distances
inferredcites →https://doi.org/10.1016/j.gene.2013.06.036openalex-snapshot
BIMLR: A method for constructing rooted phylogenetic networks from rooted phylogenetic trees
inferredcites →https://doi.org/10.1016/j.tpb.2008.10.004openalex-snapshot
Detecting hybrid speciation in the presence of incomplete lineage sorting using gene tree incongruence: A model
inferredcites →https://doi.org/10.1016/j.tree.2005.02.010openalex-snapshot
Hybridization as an invasion of the genome
inferredcites →https://doi.org/10.1017/cbo9780511974076openalex-snapshot
Phylogenetic Networks
inferredcites →https://doi.org/10.1023/a:1004058832561openalex-snapshot
Comparative study of the Nicotiana species with respect to water deficit tolerance during early growth
inferredcites →https://doi.org/10.1038/sj.hdy.6886170openalex-snapshot
Transgressive segregation, adaptation and speciation
inferredcites →https://doi.org/10.1073/pnas.0510541103openalex-snapshot
Latent extinction risk and the future battlegrounds of mammal conservation
inferredcites →https://doi.org/10.1080/10635150701607033openalex-snapshot
Estimating a Binary Character's Effect on Speciation and Extinction
inferredcites →https://doi.org/10.1080/10635159950127321openalex-snapshot
Testing Hybridization Hypotheses Based on Incongruent Gene Trees
inferredcites →https://doi.org/10.1086/284325openalex-snapshot
Phylogenies and the Comparative Method
inferredcites →https://doi.org/10.1086/285763openalex-snapshot
Testing Hypotheses About Evolutionary Change on Single Branches of a Phylogeny Using Evolutionary Contrasts
inferredcites →https://doi.org/10.1086/286013openalex-snapshot
Phylogenies and the Comparative Method: A General Approach to Incorporating Phylogenetic Information into the Analysis of Interspecific Data
inferredcites →https://doi.org/10.1086/426002openalex-snapshot
Phylogenetic Comparative Analysis: A Modeling Approach for Adaptive Evolution
inferredcites →https://doi.org/10.1086/587525openalex-snapshot
Comparative Methods with Sampling Error and Within‐Species Variation: Contrasts Revisited and Revised
inferredcites →https://doi.org/10.1086/588078openalex-snapshot
On the Analysis of Evolutionary Change along Single Branches in a Phylogeny
inferredcites →https://doi.org/10.1086/600082openalex-snapshot
A Statistical Approach for Distinguishing Hybridization and Incomplete Lineage Sorting
inferredcites →https://doi.org/10.1089/cmb.2013.0072openalex-snapshot
An Algorithm for Constructing Parsimonious Hybridization Networks with Multiple Phylogenetic Trees
inferredcites →https://doi.org/10.1093/aob/mcg087openalex-snapshot
Molecular Systematics, GISH and the Origin of Hybrid Taxa in Nicotiana (Solanaceae)
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/btm538openalex-snapshot
GEIGER: investigating evolutionary radiations
inferredcites →https://doi.org/10.1093/molbev/msh018openalex-snapshot
Neighbor-Net: An Agglomerative Method for the Construction of Phylogenetic Networks
inferredcites →https://doi.org/10.1093/molbev/msj030openalex-snapshot
Application of Phylogenetic Networks in Evolutionary Studies
inferredcites →https://doi.org/10.1093/molbev/mst010openalex-snapshot
MAFFT Multiple Sequence Alignment Software Version 7: Improvements in Performance and Usability
inferredcites →https://doi.org/10.1093/nar/gni032openalex-snapshot
A high-throughput screening of genes that encode proteins transported into the endoplasmic reticulum in mammalian cells
inferredcites →https://doi.org/10.1093/oso/9780195099744.003.0006openalex-snapshot
Natural hybridization: Outcomes
inferredcites →https://doi.org/10.1093/sysbio/syp055openalex-snapshot
Identifying Hybridization Events in the Presence of Coalescence via Model Selection
inferredcites →https://doi.org/10.1093/sysbio/syu005openalex-snapshot
A Linear-Time Algorithm for Gaussian and Non-Gaussian Trait Evolution Models
inferredcites →https://doi.org/10.1093/sysbio/syu026openalex-snapshot
Is the Tree of Life the Best Metaphor, Model, or Heuristic for Phylogenetics?
inferredcites →https://doi.org/10.1097/00010694-195509000-00012openalex-snapshot
The Genus Nicotiana
inferredcites →https://doi.org/10.1098/rstb.1989.0106openalex-snapshot
The phylogenetic regression
inferredcites →https://doi.org/10.1109/tcbb.2004.10openalex-snapshot
Phylogenetic networks: modeling, reconstructibility, and accuracy
inferredcites →https://doi.org/10.1111/j.0014-3820.2006.tb01171.xopenalex-snapshot
TESTING FOR DIFFERENT RATES OF CONTINUOUS TRAIT EVOLUTION USING LIKELIHOOD
inferredcites →https://doi.org/10.1111/j.1095-8649.2012.03464.xopenalex-snapshot
rfishbase: exploring, manipulating and visualizing FishBase data from R
inferredcites →https://doi.org/10.1111/j.1469-8137.2005.01480.xopenalex-snapshot
Long‐term genome diploidization in allopolyploidNicotianasectionRepandae(Solanaceae)
inferredcites →https://doi.org/10.1111/j.1558-5646.1996.tb03914.xopenalex-snapshot
TRANSLATING BETWEEN MICROEVOLUTIONARY PROCESS AND MACROEVOLUTIONARY PATTERNS: THE CORRELATION STRUCTURE OF INTERSPECIFIC DATA
inferredcites →https://doi.org/10.1111/j.1558-5646.1997.tb01457.xopenalex-snapshot
STABILIZING SELECTION AND THE COMPARATIVE ANALYSIS OF ADAPTATION
inferredcites →https://doi.org/10.1111/j.1558-5646.1997.tb05095.xopenalex-snapshot
LIKELIHOOD OF ANCESTOR STATES IN ADAPTIVE RADIATION
inferredcites →https://doi.org/10.1111/j.1558-5646.2012.01619.xopenalex-snapshot
MODELING STABILIZING SELECTION: EXPANDING THE ORNSTEIN-UHLENBECK MODEL OF ADAPTIVE EVOLUTION
inferredcites →https://doi.org/10.1111/j.2041-210x.2011.00169.xopenalex-snapshot
phytools: an R package for phylogenetic comparative biology (and other things)
inferredcites →https://doi.org/10.1126/science.284.5423.2124openalex-snapshot
Phylogenetic Classification and the Universal Tree
inferredcites →https://doi.org/10.1146/annurev.ecolsys.27.1.83openalex-snapshot
EXTINCTION BY HYBRIDIZATION AND INTROGRESSION
inferredcites →https://doi.org/10.1146/annurev.genet.34.1.401openalex-snapshot
POLYPLOID INCIDENCE AND EVOLUTION
inferredcites →https://doi.org/10.1159/000213581openalex-snapshot
Growth in Fishes
inferredcites →https://doi.org/10.1186/1471-2105-14-16openalex-snapshot
The taxonomic name resolution service: an online tool for automated standardization of plant names
inferredcites →https://doi.org/10.1186/1471-2148-7-7openalex-snapshot
Reticulate phylogeny of gastropod-shell-breeding cichlids from Lake Tanganyika – the result of repeated introgressive hybridization
inferredcites →https://doi.org/10.1198/tech.2003.s146openalex-snapshot
Model Selection and Multimodel Inference
inferredcites →https://doi.org/10.18637/jss.v022.i04openalex-snapshot
The ade4 Package: Implementing the Duality Diagram for Ecologists
inferredcites →https://doi.org/10.1890/10-1264.1openalex-snapshot
Generalized linear mixed models for phylogenetic analyses of community structure
inferredcites →https://doi.org/10.2307/2410878openalex-snapshot
Translating Between Microevolutionary Process and Macroevolutionary Patterns: The Correlation Structure of Interspecific Data
inferredcites →https://doi.org/10.2307/2532282openalex-snapshot
Likelihood, Expanded Edition.
inferredcites →https://doi.org/10.2307/2992183openalex-snapshot
Adaptation: Statistics and a Null Model for Estimating Phylogenetic Effects
inferredcites →https://doi.org/10.3417/0026-6493(2006)93[34:hsiws]2.0.co;2openalex-snapshot
HYBRID SPECIATION IN WILD SUNFLOWERS1
inferredcites →https://doi.org/10.3732/ajb.89.3.472openalex-snapshot
Habitat divergence between a homoploid hybrid sunflower species, Helianthus paradoxus (Asteraceae), and its progenitors
inferredcites →https://doi.org/10.3732/ajb.91.10.1700openalex-snapshot
Reconstructing patterns of reticulate evolution in plants
inferredcites →https://doi.org/10.5860/choice.35-0883openalex-snapshot
Natural hybridization and evolution

What points at this work

Incoming claims: where this work appears in other papers’ reference lists and arguments.

inferred← citeshttps://doi.org/10.1016/j.jtbi.2017.06.011openalex-snapshot
Using the Ornstein–Uhlenbeck process to model the evolution of interacting populations
inferred← citeshttps://doi.org/10.1016/j.ydbio.2017.09.015openalex-snapshot
Furcation and fusion: The phylogenetics of evolutionary novelty
inferred← citeshttps://doi.org/10.1093/sysbio/syab009openalex-snapshot
Of Traits and Trees: Probabilistic Distances under Continuous Trait Models for Dissecting the Interplay among Phylogeny, Model, and Data
inferred← citeshttps://doi.org/10.1093/sysbio/syab089openalex-snapshot
Interspecific Gene Flow and Mitochondrial Genome Capture during the Radiation of Jamaican Anolis Lizards (Squamata; Iguanidae)
inferred← citeshttps://doi.org/10.1093/sysbio/syag045openalex-snapshot
Evolving View on Phylogenetic Networks
inferred← citeshttps://doi.org/10.1093/sysbio/syy033openalex-snapshot
Phylogenetic Comparative Methods on Phylogenetic Networks with Reticulations
inferred← citeshttps://doi.org/10.1093/sysbio/syz082openalex-snapshot
Interdependent Phenotypic and Biogeographic Evolution Driven by Biotic Interactions
inferred← citeshttps://doi.org/10.1098/rstb.2023.0310openalex-snapshot
Leveraging graphical model techniques to study evolution on phylogenetic networks
inferred← citeshttps://doi.org/10.1101/121806openalex-snapshot
Scope for sympatric giant-dwarf speciation driven by cannibalism in South-American annual killifish ( Austrolebias )
inferred← citeshttps://doi.org/10.1101/2020.09.04.283093openalex-snapshot
Inferring Patterns of Hybridization and Polyploidy in the Plant Genus Penstemon (Plantaginaceae)
inferred← citeshttps://doi.org/10.1101/276642openalex-snapshot
Evolutionary inferences about quantitative traits are affected by underlying genealogical discordance
inferred← citeshttps://doi.org/10.1111/evo.12832openalex-snapshot
Irrational exuberance for resolved species trees
inferred← citeshttps://doi.org/10.1111/nph.15099openalex-snapshot
Phylogenomic analyses reveal a deep history of hybridization and polyploidy in the Neotropical genus Lachemilla (Rosaceae)
inferred← citeshttps://doi.org/10.1177/1176934320901721openalex-snapshot
On the Matrix Condition of Phylogenetic Tree
inferred← citeshttps://doi.org/10.1371/journal.pgen.1009701openalex-snapshot
Phylogenomic assessment of the role of hybridization and introgression in trait evolution
inferred← citeshttps://doi.org/10.1534/genetics.117.300489openalex-snapshot
Detecting Polygenic Adaptation in Admixture Graphs
inferred← citeshttps://doi.org/10.3390/math13030361openalex-snapshot
A Literature Review of Stochastic Modeling for Phylogenetic Comparative Analysis in Trait Evolution
inferred← citeshttps://doi.org/10.3390/stats6010028openalex-snapshot
A Phylogenetic Regression Model for Studying Trait Evolution on Network
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/10.7554/elife.36482openalex-snapshot
A multispecies coalescent model for quantitative traits
inferred← citeshttps://doi.org/10.7717/peerj.6399openalex-snapshot
Embracing heterogeneity: coalescing the Tree of Life and the future of phylogenomics
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.