Shared Information between Residues Is Sufficient to Detect Pairwise Epistasis in a Protein

Crona finds that p0 [asymptotically =] 0.998 in equilibrium, leading to [epsilon]BC [asymptotically =] 0.191, which is nonvanishing. [...]the positive shared entropy between those loci is indeed sufficient to determine nonvanishing pairwise epistasis between them. [...]the assertion in [1] that dete...

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Bibliographic Details
Published inPLoS genetics Vol. 12; no. 12; p. e1006471
Main Authors Gupta, Aditi, Adami, Christoph
Format Journal Article
LanguageEnglish
Published United States Public Library of Science 01.12.2016
Public Library of Science (PLoS)
Subjects
Biology and Life Sciences
Colleges & universities
Entropy
Epistasis, Genetic
Formal Comment
Funding
Genomes
Models, Genetic
Mutation
Physical Sciences
Population
Proteins
Quantitative Trait Loci
East Lansing Michigan
Michigan
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Summary:Crona finds that p0 [asymptotically =] 0.998 in equilibrium, leading to [epsilon]BC [asymptotically =] 0.191, which is nonvanishing. [...]the positive shared entropy between those loci is indeed sufficient to determine nonvanishing pairwise epistasis between them. [...]the assertion in [1] that detecting epistasis via shared entropy gives false positives for epistasis is based on a calculation of conditional epistasis, a concept that is ambiguous at best as it depends on the allelic state of all the other loci on the genome and could take on arbitrary values.
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Conceptualization: AG CA.Formal analysis: AG CA.Funding acquisition: AG CA.Methodology: AG CA.Supervision: CA.Validation: AG CA.Writing – original draft: AG CA.Writing – review & editing: AG CA.
The authors have declared that no competing interests exist.
ISSN:1553-7404
1553-7390
1553-7404
DOI:10.1371/journal.pgen.1006471