TIC Seminar - Full Reconstruction of Non-Stationary Strand-Symmetric Models on Rooted Phylogenies

Benjamin Kaehler, Research School of Biology

Understanding the evolutionary relationship between species is of fundamental importance to the biological sciences. The location of the root in any phylogenetic tree is critical as it gives an order to evolutionary events. None of the popular models of nucleotide evolution used in likelihood or Bayesian methods are able to infer the location of the root without exogenous information. It is known that the most general Markov models of nucleotide substitution can also not identify the location of the root nor be fitted to multiple sequence alignments with less than three sequences. We prove that the location of the root and the full model can be identified and statistically consistently estimated for a non-stationary, strand-symmetric substitution model given a multiple sequence alignment with two or more sequences. We also generalise earlier work to provide a practical means of overcoming the computationally intractable problem of labelling hidden states in a phylogenetic model.


Bioinformatic Drop-In
EBL Meeting Room, RN Robertson (#46)
2.30pm to 3.30pm

Date & time

3.30–4.30pm 4 November 2016


RSB Slatyer Seminar Room, DA Brown Bldg, RSB


 Marcin Adamski

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