Speciation & Extinction Rate Estimation from Phylogenetic Trees

Update: 2011-06-27

Description

Recently there has been an increasing interest in trying to estimate rates of evolution (in particular speciation and extinction rates) from phylogenetic tree data. However, this is currently still a difficult problem. We use a method based on lineage survival probabilities and actual speciation times to infer speciation and exitinction rates from (simulated) phylogenetic trees. Our results show that large trees (several hundred species) are necessary to get statistically significant results. This work is still ongoing, and we are investigating how to get more accurate and reliable results on smaller trees, and whether this is possible at all given the statistical nature of the problem.

Comments

In Channel

Estimating ultra-large phylogenies and alignments

2011-06-2856:13

The combinatorics of distance-based tree inference

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Assessing the limits of phylogenomics: can too much data be a bad thing?

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Stochastic Errors vs. Modeling Errors in Distance Based Phylogenetic Reconstructions

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Integrative analysis if environmental sequences

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A generalization of Stirling numbers and distribution of phylogenetic trees

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A Lie algebraic classification of continuous-time Markov models

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Tree reconciliations: beyond the LCA mapping

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Coalescent-based Species Tree Inference from Gene Tree Topologies Under Incomplete Lineage Sorting by Maximum Likelihood

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Speciation & Extinction Rate Estimation from Phylogenetic Trees

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Trees as representations of evolutionary information worth keeping

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Are there alternatives to handling site-to-site rate variation in evolutionary characters

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An empirical study of the effect of sequence alignment on phylogenetic analysis

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Modelling protein evolution

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Sequence Classification using Reference Taxonomies

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Phylodynamic inference - accounting for the interaction of evolutionary and ecological processes

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New methods of identifying fast-evolving sites in aligned sequence data

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Speciation & Extinction Rate Estimation from Phylogenetic Trees

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Speciation & Extinction Rate Estimation from Phylogenetic Trees

Steve Greenham

Speciation & Extinction Rate Estimation from Phylogenetic Trees