Results 21 to 30 of about 898,857 (281)
A polynomial time algorithm for calculating the probability of a ranked gene tree given a species tree [PDF]
, 2012 In this paper, we provide a polynomial time algorithm to calculate the probability of a {\it ranked} gene tree topology for a given species tree, where a ranked tree topology is a tree topology with the internal vertices being ordered. The probability of
Degnan, James H., Stadler, Tanja
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Gene trees and species trees: irreconcilable differences [PDF]
BMC Bioinformatics, 2012 Reconciliation is the classical method for inferring a duplication and loss history from a set of extant genes. It is based upon the notion of embedding the gene tree into the species tree, the incongruence between the two indicating evidence for duplication and loss.
Swenson Krister M, El-Mabrouk Nadia
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Axiomatic opportunities and obstacles for inferring a species tree from gene trees [PDF]
, 2014 The reconstruction of a central tendency `species tree' from a large number of conflicting gene trees is a central problem in systematic biology. Moreover, it becomes particularly problematic when taxon coverage is patchy, so that not all taxa are ...
Steel, Mike, Velasco, Joel D.
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Progress in Mass Spectrometry-based Metabolomics Data Analysis Techniques
Guangdong nongye kexue, 2022 Metabolomics technique, as an important part of systems biology, aims to identify and quantify all endogenous small molecule metabolites in organisms at certain condition.
Wenjie HUANG +4 more
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The complete mitochondrial genome of an endangered tree: Malania oleifera
Mitochondrial DNA. Part B. Resources, 2020 Malania oleifera is an endangered species found in restricted areas in Karst areas in Southwestern China and is also with significant economic and ecological values. Here, complete mitochondrial genome of M. oleifera was characterized, which is the first
Hang Luo +4 more
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Efficient Exploration of the Space of Reconciled Gene Trees [PDF]
, 2013 Gene trees record the combination of gene level events, such as duplication, transfer and loss, and species level events, such as speciation and extinction.
Boussau, Bastien +4 more
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Inferring Species Trees from Incongruent Multi-Copy Gene Trees Using the Robinson-Foulds Distance [PDF]
, 2012 We present a new method for inferring species trees from multi-copy gene trees. Our method is based on a generalization of the Robinson-Foulds (RF) distance to multi-labeled trees (mul-trees), i.e., gene trees in which multiple leaves can have the same ...
Burleigh, J. Gordon +2 more
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Anomalous Unrooted Gene Trees [PDF]
Systematic Biology, 2013 The coalescent and multispecies coalescent model rooted genealogies backward through time. Often, the direction of time is unknown in trees estimated from molecular sequences due to reversible mutation models, absence of an appropriate outgroup, and the absence of the molecular clock.
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Fragmentary Gene Sequences Negatively Impact Gene Tree and Species Tree Reconstruction [PDF]
Molecular Biology and Evolution, 2017 Species tree reconstruction from genome-wide data is increasingly being attempted, in most cases using a two-step approach of first estimating individual gene trees and then summarizing them to obtain a species tree. The accuracy of this approach, which promises to account for gene tree discordance, depends on the quality of the inferred gene trees. At
Erfan, Sayyari +2 more
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Chromosome-level genome assembly of a parent species of widely cultivated azaleas
Nature Communications, 2020 Azaleas are one of the most diverse ornamental plants and have cultural and economic importance. Here, the authors report a chromosome-scale genome assembly for the primary ancestor of the azalea cultivar Rhododendro simsi and identify transcription ...
Fu-Sheng Yang +20 more
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