Results 51 to 60 of about 484,263 (305)
Visualizing phylogenetic tree landscapes [PDF]
BMC Bioinformatics, 2017 Genomic-scale sequence alignments are increasingly used to infer phylogenies in order to better understand the processes and patterns of evolution. Different partitions within these new alignments (e.g., genes, codon positions, and structural features) often favor hundreds if not thousands of competing phylogenies. Summarizing and comparing phylogenies
James C. Wilgenbusch +4 more
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Whole Genome Phylogenetic Tree Reconstruction Using Colored de Bruijn Graphs
, 2017 We present kleuren, a novel assembly-free method to reconstruct phylogenetic trees using the Colored de Bruijn Graph. kleuren works by constructing the Colored de Bruijn Graph and then traversing it, finding bubble structures in the graph that provide ...
Bodily, Paul M. +7 more
core +1 more source
Phylogenetic trees and Euclidean embeddings [PDF]
Journal of Mathematical Biology, 2016 It was recently observed by de Vienne et al. that a simple square root transformation of distances between taxa on a phylogenetic tree allowed for an embedding of the taxa into Euclidean space. While the justification for this was based on a diffusion model of continuous character evolution along the tree, here we give a direct and elementary ...
Mark Layer, John A. Rhodes
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Darwintree: A Molecular Data Analysis and Application Environment for Phylogenetic Study
Data Science Journal, 2015 DarwinTree (http://www.darwintree.cn) provides an integrated bioinformatics platform that supports all phases of the analytical pathway for phylogenetic study from data collections, phylogenetic tree constructions, visualization of the tree of life, and ...
Zhen Meng +6 more
doaj +1 more source
Multipolar Consensus for Phylogenetic Trees [PDF]
Systematic Biology, 2006 Collections of phylogenetic trees are usually summarized using consensus methods. These methods build a single tree, supposed to be representative of the collection. However, in the case of heterogeneous collections of trees, the resulting consensus may be poorly resolved (strict consensus, majority-rule consensus, ...), or may perform arbitrary ...
Bonnard, Cécile +2 more
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Advanced Biology, EarlyView.The prodrug strategy used in this study offers new promise for cancer metabolism‐based therapies. JHU083, a prodrug that, when cleaved by protease in the tumor microenvironment, yields the glutamine antagonist DON. JHU083 inhibits tumor growth by targeting glutamine‐addicted cancer cells and suppressing glutamine‐dependent M2 macrophages, leading to a ...
Tianhe Li +10 more
wiley +1 more source
Operads and Phylogenetic Trees
, 2015 We construct an operad $\mathrm{Phyl}$ whose operations are the edge-labelled trees used in phylogenetics. This operad is the coproduct of $\mathrm{Com}$, the operad for commutative semigroups, and $[0,\infty)$, the operad with unary operations corresponding to nonnegative real numbers, where composition is addition.
Baez, JC, Otter, N
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Ancestral Protein‐Based Lighting
Advanced Materials, EarlyView.The ancestral sequence reconstruction (ASR) method applied to a large dataset of modern fluorescent proteins (FPs) led to a bright ancestral‐like FP suitable for photon down‐conversion in bio‐hybrid light‐emitting diodes (Bio‐HLEDs). Abstract Protein‐optoelectronics is a paradigm toward eco‐designed and sustainable technologies.
Stephanie Willeit +7 more
wiley +1 more source
Aegilops tauschii Coss. molecular phylogeny in comparison with proteins electrophoretic polymorphism
Acta Biologica Sibirica, 2023 In the case of Aegilops tauschii the comparison of intraspecies molecular phylogeny based on DNA sequences of nuclear gene Got2 with electrophoretic polymorphism of allozymes and hystone H1 proteins is actually a comparison of the one detailed ...
Alexander J. Dudnikov
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On Tree-Based Phylogenetic Networks [PDF]
Journal of Computational Biology, 2016 A large class of phylogenetic networks can be obtained from trees by the addition of horizontal edges between the tree edges. These networks are called tree based networks. Reticulation-visible networks and child-sibling networks are all tree based. In this work, we present a simply necessary and sufficient condition for tree-based networks and prove ...
openaire +4 more sources