Results 21 to 30 of about 14,419 (248)
Assessing the robustness of parsimonious predictions for gene neighborhoods from reconciled phylogenies [PDF]
, 2015 The availability of a large number of assembled genomes opens the way to study the evolution of syntenic character within a phylogenetic context. The DeCo algorithm, recently introduced by B{\'e}rard et al.
Chauve, Cedric +2 more
core +5 more sources
IEEE/ACM Transactions on Computational Biology & Bioinformatics, 2019 Maximum parsimony reconciliation is a fundamental technique for studying the evolutionary histories of pairs of entities such as genes and species, parasites and hosts, and species and their biogeographical habitats.
Melissa Grueter +3 more
semanticscholar +1 more source
The inference of gene trees with species trees [PDF]
, 2013 Molecular phylogeny has focused mainly on improving models for the reconstruction of gene trees based on sequence alignments. Yet, most phylogeneticists seek to reveal the history of species. Although the histories of genes and species are tightly linked,
Bastien Boussau +4 more
core +5 more sources
BMC Bioinformatics, 2017 Maximum parsimony phylogenetic tree reconciliation is an important technique for reconstructing the evolutionary histories of hosts and parasites, genes and species, and other interdependent pairs. Since the problem of finding temporally feasible maximum
Weiyun Ma +2 more
semanticscholar +1 more source
Joint amalgamation of most parsimonious reconciled gene trees. [PDF]
, 2014 MOTIVATION Traditionally, gene phylogenies have been reconstructed solely on the basis of molecular sequences; this, however, often does not provide enough information to distinguish between statistically equivalent relationships.
Jacox, Edwin +2 more
core +3 more sources
EUCALYPT: efficient tree reconciliation enumerator
Algorithms for Molecular Biology, 2015 Phylogenetic tree reconciliation is the approach of choice for investigating the coevolution of sets of organisms such as hosts and parasites. It consists in a mapping between the parasite tree and the host tree using event-based maximum parsimony. Given
Beatrice Donati +4 more
semanticscholar +1 more source
bioRxiv, 2021 Phylogenetics has been foundational to SARS-CoV-2 research and public health policy, assisting in genomic surveillance, contact tracing, and assessing emergence and spread of new variants. However, phylogenetic analyses of SARS-CoV-2 have often relied on
Bryan Thornlow +7 more
semanticscholar +1 more source
DNA sequence evidence for speciation, paraphyly and a Mesozoic dispersal of cancellothyridid articulate brachiopods [PDF]
, 2002 Because the classification of extant and fossil articulate brachiopods is based largely upon shell characters observable in fossils, it identifies morphotaxa whose biological status can, in practice, best be inferred from estimates of genetic divergence.
Cohen, B.L., Luter, C.
core +1 more source
HGTree: database of horizontally transferred genes determined by tree reconciliation
Nucleic Acids Res., 2015 The HGTree database provides putative genome-wide horizontal gene transfer (HGT) information for 2472 completely sequenced prokaryotic genomes. This task is accomplished by reconstructing approximate maximum likelihood phylogenetic trees for each ...
Hyeonsoo Jeong +8 more
semanticscholar +1 more source
Parsimonious Inference of Hybridization in the Presence of Incomplete Lineage Sorting [PDF]
, 2013 Hybridization plays an important evolutionary role in several groups of organisms. A phylogenetic approach to detect hybridization entails sequencing multiple loci across the genomes of a group of species of interest, reconstructing their gene trees, and
Arnold +51 more
core +1 more source