Cophylogeny Reconstruction Allowing for Multiple Associations Through Approximate Bayesian Computation

Tree Reconciliation Methods for Host-Symbiont Cophylogenetic Analyses

(2022) Ran Libeskind-Hadas   Life-Basel

Cophylogenetic Methods to Untangle the Evolutionary History of Ecological Interactions

(2022) Wade Dismukes et al.   Annual Review of Ecology Evolution and Systematics

Phylogenetic reconciliation

(2022) Hugo Menet et al.   PLoS Computational Biology

Bayesian Inference of Ancestral Host-parasite Interactions under a Phylogenetic Model of Host Repertoire Evolution

(2020) Mariana P Braga et al.   SYSTEMATIC BIOLOGY

Rates and Rocks: Strengths and Weaknesses of Molecular Dating Methods

(2020) Stéphane Guindon   Frontiers in Genetics

Six Impossible Things before Breakfast: Assumptions, Models, and Belief in Molecular Dating

(2019) Lindell Bromham   TRENDS IN ECOLOGY & EVOLUTION

Inferring processes of coevolutionary diversification in a community of Panamanian strangler figs and associated pollinating wasps

(2019) Jordan D. Satler et al.   EVOLUTION

RANGER-DTL 2.0: rigorous reconstruction of gene-family evolution by duplication, transfer and loss

(2018) Mukul S Bansal et al.   BIOINFORMATICS

EUCALYPT: efficient tree reconciliation enumerator

(2015) Beatrice Donati et al.   Algorithms for Molecular Biology

Cophylogeny Reconstruction via an Approximate Bayesian Computation

(2014) C. Baudet et al.   SYSTEMATIC BIOLOGY

Testing for coevolutionary diversification: linking pattern with process

(2013) David M. Althoff et al.   TRENDS IN ECOLOGY & EVOLUTION

Efficient algorithms for the reconciliation problem with gene duplication, horizontal transfer and loss

(2012) Mukul S. Bansal et al.   BIOINFORMATICS

Inferring duplications, losses, transfers and incomplete lineage sorting with nonbinary species trees

(2012) Maureen Stolzer et al.   BIOINFORMATICS

Phylogenetic modeling of lateral gene transfer reconstructs the pattern and relative timing of speciations

(2012) G. J. Szollosi et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

An Efficient Method for Exploring the Space of Gene Tree/Species Tree Reconciliations in a Probabilistic Framework

(2011) J.-P Doyon et al.   IEEE-ACM Transactions on Computational Biology and Bioinformatics

A parameter-adaptive dynamic programming approach for inferring cophylogenies

(2010) Daniel Merkle et al.   BMC BIOINFORMATICS

Simultaneous Identification of Duplications and Lateral Gene Transfers

(2010) A Tofigh et al.   IEEE-ACM Transactions on Computational Biology and Bioinformatics

Neotropical mutualism between Acacia and Pseudomyrmex: Phylogeny and divergence times

(2010) Sandra Gómez-Acevedo et al.   MOLECULAR PHYLOGENETICS AND EVOLUTION

Cophylogeny of the anther smut fungi and their caryophyllaceous hosts: Prevalence of host shifts and importance of delimiting parasite species for inferring cospeciation

(2008) Guislaine Refrégier et al.   BMC EVOLUTIONARY BIOLOGY