Results 61 to 70 of about 1,097,195 (292)
BMC Bioinformatics, 2008 Background Due to recent progress in genome sequencing, more and more data for phylogenetic reconstruction based on rearrangement distances between genomes become available. However, this phylogenetic reconstruction is a very challenging task.
Abouelhoda Mohamed I +2 more
doaj +1 more source
On Symmetries in Phylogenetic Trees
The Electronic Journal of Combinatorics, 2016 Billey et al. [arXiv:1507.04976] have recently discovered a surprisingly simple formula for the number $a_n(\sigma)$ of leaf-labelled rooted non-embedded binary trees (also known as phylogenetic trees) with $n\geq 1$ leaves, fixed (for the relabelling action) by a given permutation $\sigma\in\frak{S}_n$.
openaire +3 more sources
Reconstructing enzyme evolution by protein engineering
FEBS Letters, EarlyView.Natural enzyme evolution can be retraced by protein engineering methods such as directed evolution, rational design, and ancestral sequence reconstruction. These approaches reveal how enzymes emerged from ligand‐binding scaffolds, developed varying substrate preferences, formed oligomeric complexes, adapted to environmental changes, and evolved novel ...
Lukas Drexler +2 more
wiley +1 more source
Addressing the shortcomings of three recent bayesian methods for detecting interspecific recombination in DNA sequence alignments [PDF]
, 2008 We address a potential shortcoming of three probabilistic models for detecting interspecific recombination in DNA sequence alignments: the multiple change-point model (MCP) of Suchard et al. (2003), the dual multiple change-point model (DMCP) of Minin et
Mantzaris, Alexander Vassilios +1 more
core +4 more sources
Generating normal networks via leaf insertion and nearest neighbor interchange
BMC Bioinformatics, 2019 Background Galled trees are studied as a recombination model in theoretical population genetics. This class of phylogenetic networks has been generalized to tree-child networks and other network classes by relaxing a structural condition imposed on ...
Louxin Zhang
doaj +1 more source
A Stochastic Model for Phylogenetic Trees [PDF]
Journal of Applied Probability, 2009 We propose the following simple stochastic model for phylogenetic trees. New types are born and die according to a birth and death chain. At each birth we associate a fitness to the new type sampled from a fixed distribution. At each death the type with the smallest fitness is killed. We show that if the birth (i.e.
Liggett, Thomas M., Schinazi, Rinaldo B.
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Molecular Oncology, EarlyView.Single‐cell DNA methylation (scDNAme) profiling maps epimutational clonal evolution, revealing mechanisms of malignancy and therapeutic resistance across diverse cancer types. By providing a high‐resolution landscape of intratumoral heterogeneity, these technologies empower precise patient stratification, guide the development of enhanced ...
Ik Soo Kim
wiley +1 more source
Molecular Oncology, EarlyView.Tumour heterogeneity and clonal evolution of metastatic salivary gland cancer were evaluated in two patients with adenoid carcinoma and one patient with myoepithelial carcinoma. Radiology‐guided autopsy enabled multi‐region sampling (total samples n = 149), followed by whole‐genome sequencing and phylogenetic reconstruction (17 tumour samples, 4–7 per ...
Gerben Lassche +10 more
wiley +1 more source
Uncertainty in Phylogenetic Tree Estimates [PDF]
Journal of Computational and Graphical Statistics, 2018 Estimating phylogenetic trees is an important problem in evolutionary biology, environmental policy, and medicine. Although trees are estimated, their uncertainties are generally discarded in statistical models for tree-valued data. Here, we explicitly model the multivariate uncertainty of tree estimates.
Willis, Amy D., Bell, Rayna C.
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