Improving phylogenetic analyses by incorporating additional information from genetic sequence databases

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Improving phylogenetic analyses by incorporating additional information from genetic sequence databases

MOTIVATION Statistical analyses of phylogenetic data culminate in uncertain estimates of underlying model parameters. Lack of additional data hinders the ability to reduce this uncertainty, as the original phylogenetic dataset is often complete, containing the entire gene or genome information available for the given set of taxa. Informative priors in a Bayesian analysis can reduce posterior un...

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Given discrete event data, we wish to produce a probability density that can model the relative probability of events occurring in a spatial region. Common methods of density estimation, such as Kernel Density Estimation, do not incorporate geographical information. Using these methods could result in nonnegligible portions of the support of the density in unrealistic geographic locations. For ...

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Obtaining maximal concatenated phylogenetic data sets from large sequence databases.

To improve the accuracy of tree reconstruction, phylogeneticists are extracting increasingly large multigene data sets from sequence databases. Determining whether a database contains at least k genes sampled from at least m species is an NP-complete problem. However, the skewed distribution of sequences in these databases permits all such data sets to be obtained in reasonable computing times ...

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ژورنال

عنوان ژورنال: Bioinformatics

سال: 2009

ISSN: 1460-2059,1367-4803

DOI: 10.1093/bioinformatics/btp473