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Mol Biol Evol. 2015 Oct;32(10):2784-97. doi: 10.1093/molbev/msv142. Epub 2015 Jun 20.

Aberrant Time to Most Recent Common Ancestor as a Signature of Natural Selection.

Author information

1
Department of Biological Statistics and Computational Biology, Cornell University hsh37@cornell.edu.
2
Department of Molecular Biology and Genetics, Cornell University.

Abstract

Natural selection inference methods often target one mode of selection of a particular age and strength. However, detecting multiple modes simultaneously, or with atypical representations, would be advantageous for understanding a population's evolutionary history. We have developed an anomaly detection algorithm using distributions of pairwise time to most recent common ancestor (TMRCA) to simultaneously detect multiple modes of natural selection in whole-genome sequences. As natural selection distorts local genealogies in distinct ways, the method uses pairwise TMRCA distributions, which approximate genealogies at a nonrecombining locus, to detect distortions without targeting a specific mode of selection. We evaluate the performance of our method, TSel, for both positive and balancing selection over different time-scales and selection strengths and compare TSel's performance with that of other methods. We then apply TSel to the Complete Genomics diversity panel, a set of human whole-genome sequences, and recover loci previously inferred to be under positive or balancing selection.

KEYWORDS:

anomaly detection; natural selection; time to most recent common ancestor

PMID:
26093129
PMCID:
PMC4654765
DOI:
10.1093/molbev/msv142
[Indexed for MEDLINE]
Free PMC Article

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