Journal
IEEE-ACM TRANSACTIONS ON COMPUTATIONAL BIOLOGY AND BIOINFORMATICS
Volume 8, Issue 6, Pages 1667-1670Publisher
IEEE COMPUTER SOC
DOI: 10.1109/TCBB.2010.124
Keywords
Markov models; models of molecular evolution; co-evolution; phylogenetic reconstruction
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Funding
- EU [PIRG04-GA-2008-239317]
- US National Science Foundation (NSF) [DMS 0548249]
- Israel Science Foundation [1300/08]
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Markov models are extensively used in the analysis of molecular evolution. A recent line of research suggests that pairs of proteins with functional and physical interactions co-evolve with each other. Here, by analyzing hundreds of orthologous sets of three fungi and their co-evolutionary relations, we demonstrate that co-evolutionary assumption may violate the Markov assumption. Our results encourage developing alternative probabilistic models for the cases of extreme co-evolution.
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