Results 11 to 20 of about 101,371 (270)
VIRI: a visualization tool for tree reconciliations [PDF]
BMC BioinformaticsBackground Cophylogeny reconciliation is a powerful method for analyzing host-symbiont coevolution. The cophylogeny problem consists of mapping the phylogenetic tree of the symbionts into the one of the hosts, including events such as duplications, co ...
Maurizio Patrignani +3 more
doaj +5 more sources
Gene tree correction for reconciliation and species tree inference [PDF]
Algorithms for Molecular Biology, 2012 Background Reconciliation is the commonly used method for inferring the evolutionary scenario for a gene family. It consists in “embedding” inferred gene trees into a known species tree, revealing the evolution of the gene family by duplications and ...
Swenson Krister M +2 more
doaj +3 more sources
Unifying Parsimonious Tree Reconciliation [PDF]
, 2013 Evolution is a process that is influenced by various environmental factors, e.g. the interactions between different species, genes, and biogeographical properties.
A.C. Berglund-Sonnhammer +28 more
core +2 more sources
Exact median-tree inference for unrooted reconciliation costs [PDF]
BMC Evolutionary Biology, 2020 Background Solving median tree problems under tree reconciliation costs is a classic and well-studied approach for inferring species trees from collections of discordant gene trees.
Paweł Górecki +2 more
doaj +3 more sources
Biologically feasible gene trees, reconciliation maps and informative triples [PDF]
Algorithms for Molecular Biology, 2017 Background The history of gene families—which are equivalent to event-labeled gene trees—can be reconstructed from empirically estimated evolutionary event-relations containing pairs of orthologous, paralogous or xenologous genes.
Marc Hellmuth
doaj +4 more sources
Exact reconciliation of undated trees [PDF]
, 2014 Reconciliation methods aim at recovering macro evolutionary events and at localizing them in the species history, by observing discrepancies between gene family trees and species trees.
Kelk, Steven +2 more
core +3 more sources
Efficient error correction algorithms for gene tree reconciliation based on duplication, duplication and loss, and deep coalescence [PDF]
BMC Bioinformatics, 2012 Background Gene tree - species tree reconciliation problems infer the patterns and processes of gene evolution within a species tree. Gene tree parsimony approaches seek the evolutionary scenario that implies the fewest gene duplications, duplications ...
Chaudhary Ruchi +2 more
doaj +2 more sources
Geometric medians in reconciliation spaces [PDF]
Information Processing Letters, 2017 In evolutionary biology, it is common to study how various entities evolve together, for example, how parasites coevolve with their host, or genes with their species.
Huber, Katharina T. +3 more
core +9 more sources
The path-label reconciliation (PLR) dissimilarity measure for gene trees [PDF]
Algorithms for Molecular BiologyBackground In this study, we investigate the problem of comparing gene trees reconciled with the same species tree using a novel semi-metric, called the Path-Label Reconciliation (PLR) dissimilarity measure.
Alitzel López Sánchez +4 more
doaj +2 more sources
Gene tree and species tree reconciliation with endosymbiotic gene transfer. [PDF]
Bioinformatics, 2021 Abstract Motivation It is largely established that all extant mitochondria originated from a unique endosymbiotic event integrating an α−proteobacterial genome into an eukaryotic cell. Subsequently, eukaryote evolution has been marked by episodes of gene transfer, mainly from the mitochondria to the ...
Anselmetti Y +3 more
europepmc +4 more sources