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D GEN : A Test Statistic for Detection of General Introgression Scenarios

https://doi.org/10.1101/348649
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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/bies.201500149openalex-snapshot
How reticulated are species?
inferredcites →https://doi.org/10.1016/b978-1-4832-3210-2.50006-6openalex-snapshot
Mammalian Protein Metabolism
inferredcites →https://doi.org/10.1016/b978-1-4832-3211-9.50009-7openalex-snapshot
Evolution of Protein Molecules
inferredcites →https://doi.org/10.1016/j.tree.2009.01.009openalex-snapshot
Gene tree discordance, phylogenetic inference and the multispecies coalescent
inferredcites →https://doi.org/10.1038/nature05706openalex-snapshot
Hybrid speciation
inferredcites →https://doi.org/10.1038/nrg3936openalex-snapshot
Evidence for archaic adaptive introgression in humans
inferredcites →https://doi.org/10.1046/j.1365-294x.2001.01216.xopenalex-snapshot
The role of hybridization in evolution
inferredcites →https://doi.org/10.1073/pnas.1407950111openalex-snapshot
Maximum likelihood inference of reticulate evolutionary histories
inferredcites →https://doi.org/10.1093/bioinformatics/13.3.235openalex-snapshot
Seq-Gen: an application for the Monte Carlo simulation of DNA sequence evolution along phylogenetic trees
inferredcites →https://doi.org/10.1093/bioinformatics/18.2.337openalex-snapshot
Generating samples under a Wright–Fisher neutral model of genetic variation
inferredcites →https://doi.org/10.1093/bioinformatics/bty295openalex-snapshot
Inference of species phylogenies from bi-allelic markers using pseudo-likelihood
inferredcites →https://doi.org/10.1093/genetics/122.4.957openalex-snapshot
Gene genealogy in three related populations: consistency probability between gene and population trees.
inferredcites →https://doi.org/10.1093/molbev/msr048openalex-snapshot
Testing for Ancient Admixture between Closely Related Populations
inferredcites →https://doi.org/10.1093/molbev/msx307openalex-snapshot
Bayesian Inference of Species Networks from Multilocus Sequence Data
inferredcites →https://doi.org/10.1093/oso/9780195099744.001.0001openalex-snapshot
Natural Hybridization and Evolution
inferredcites →https://doi.org/10.1093/sysbio/syv023openalex-snapshot
Detection and Polarization of Introgression in a Five-Taxon Phylogeny
inferredcites →https://doi.org/10.1093/sysbio/syx085openalex-snapshot
Coestimating Reticulate Phylogenies and Gene Trees from Multilocus Sequence Data
inferredcites →https://doi.org/10.1093/sysbio/syy023openalex-snapshot
HyDe: A Python Package for Genome-Scale Hybridization Detection
inferredcites →https://doi.org/10.1101/034348openalex-snapshot
An Invariants-based Method for Efficient Identification of Hybrid Species From Large-scale Genomic Data
inferredcites →https://doi.org/10.1111/j.1558-5646.1983.tb05528.xopenalex-snapshot
TESTING THE CONSTANT-RATE NEUTRAL ALLELE MODEL WITH PROTEIN SEQUENCE DATA
inferredcites →https://doi.org/10.1111/mec.13544openalex-snapshot
Reticulate evolutionary history and extensive introgression in mosquito species revealed by phylogenetic network analysis
inferredcites →https://doi.org/10.1126/science.1086949openalex-snapshot
Major Ecological Transitions in Wild Sunflowers Facilitated by Hybridization
inferredcites →https://doi.org/10.1126/science.1188021openalex-snapshot
A Draft Sequence of the Neandertal Genome
inferredcites →https://doi.org/10.1126/science.1258524openalex-snapshot
Extensive introgression in a malaria vector species complex revealed by phylogenomics
inferredcites →https://doi.org/10.1146/annurev.ecolsys.28.1.359openalex-snapshot
Hybrid Origins of Plant Species
inferredcites →https://doi.org/10.1186/1471-2164-16-s10-s10openalex-snapshot
A maximum pseudo-likelihood approach for phylogenetic networks
inferredcites →https://doi.org/10.1371/journal.pcbi.1005932openalex-snapshot
Bayesian inference of phylogenetic networks from bi-allelic genetic markers
inferredcites →https://doi.org/10.1371/journal.pgen.1002660openalex-snapshot
The Probability of a Gene Tree Topology within a Phylogenetic Network with Applications to Hybridization Detection
inferredcites →https://doi.org/10.1371/journal.pgen.1005896openalex-snapshot
Inferring Phylogenetic Networks with Maximum Pseudolikelihood under Incomplete Lineage Sorting
inferredcites →https://doi.org/10.1371/journal.pgen.1006006openalex-snapshot
Bayesian Inference of Reticulate Phylogenies under the Multispecies Network Coalescent
inferredcites →https://doi.org/10.1554/04-385openalex-snapshot
GENE TREE DISTRIBUTIONS UNDER THE COALESCENT PROCESS

What points at this work

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

inferred← citeshttps://doi.org/10.1002/aps3.70061openalex-snapshot
Detecting introgression from phylogenetic invariant site patterns using machine learning
inferred← citeshttps://doi.org/10.1007/978-1-0716-4836-0_4openalex-snapshot
Impact of Data Error on Phylogenetic Network Inference from Gene Trees Under the Multispecies Network Coalescent
inferred← citeshttps://doi.org/10.1007/978-3-030-00834-5_9openalex-snapshot
Detecting Introgression in Anopheles Mosquito Genomes Using a Reconciliation-Based Approach
inferred← citeshttps://doi.org/10.1007/978-3-030-10837-3_13openalex-snapshot
Advances in Computational Methods for Phylogenetic Networks in the Presence of Hybridization
inferred← citeshttps://doi.org/10.1093/molbev/msae198openalex-snapshot
Five-leaf Generalizations of the D-statistic Reveal the Directionality of Admixture
inferred← citeshttps://doi.org/10.1093/molbev/msz178openalex-snapshot
A Three-Sample Test for Introgression
inferred← citeshttps://doi.org/10.1093/sysbio/syaa066openalex-snapshot
Disentangling Sources of Gene Tree Discordance in Phylogenomic Data Sets: Testing Ancient Hybridizations in Amaranthaceae s.l
inferred← citeshttps://doi.org/10.1093/sysbio/syaa092openalex-snapshot
Comparative Performance of Popular Methods for Hybrid Detection using Genomic Data
inferred← citeshttps://doi.org/10.1093/sysbio/syac011openalex-snapshot
Ghost Lineages Highly Influence the Interpretation of Introgression Tests
inferred← citeshttps://doi.org/10.1093/sysbio/syaf016openalex-snapshot
Phylogenomics of Marine Angelfishes: Diagnosing Sources of Systematic Discordance for an Iconic Reef Fish Family (F: Pomacanthidae)
inferred← citeshttps://doi.org/10.1111/1755-0998.13355openalex-snapshot
Chromosome‐scale inference of hybrid speciation and admixture with convolutional neural networks
inferred← citeshttps://doi.org/10.1146/annurev-ecolsys-012121-095340openalex-snapshot
Multispecies Coalescent: Theory and Applications in Phylogenetics
inferred← citeshttps://doi.org/10.1186/s12915-022-01297-0openalex-snapshot
Phylogenomic approaches untangle early divergences and complex diversifications of the olive plant family
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