ArticleMolecular biology and evolution2013
A phylogenetic model for the detection of epistatic interactions.
Article in Molecular biology and evolution, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 9 papers.
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Who cites it
9 citing papers in PubMed, 12 citations in OpenAlex.
- Unraveling Epistatic Interactions Between Sites Under Drug-Dependent Selection in the Mycobacterium tuberculosis Genome.Molecular biology and evolution · 2025Article
- Robustness of Phylogenetic Inference to Model Misspecification Caused by Pairwise Epistasis.Molecular biology and evolution · 2021Article
- Simultaneous Bayesian inference of phylogeny and molecular coevolution.Proceedings of the National Academy of Sciences of the United States of America · 2019Article
- Widespread Historical Contingency in Influenza Viruses.Genetics · 2017Article
- Article
- Contingency and entrenchment in protein evolution under purifying selection.Proceedings of the National Academy of Sciences of the United States of America · 2015Article
- Origin and proliferation of multiple-drug resistance in bacterial pathogens.Microbiology and molecular biology reviews : MMBR · 2015Review
- Urzymology: experimental access to a key transition in the appearance of enzymes.The Journal of biological chemistry · 2014Review
- The Rodin-Ohno hypothesis that two enzyme superfamilies descended from one ancestral gene: an unlikely scenario for the origins of translation that will not be dismissed.Biology direct · 2014Article
Corrections and comments
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Authors and funding
2 authors at 2 institutions in 2 countries.
Funding
Abstract
Paired epistatic interactions, such as those in the stem regions of RNA, play an important role in many biological processes. However, unlike protein-coding regions, paired epistatic interactions have lacked the appropriate statistical tools for the detection of departures from selective neutrality. Here, a model is presented for the analysis of paired epistatic regions that draws upon the population genetics of the compensatory substitution process to detect the relative strength of natural selection acting against deleterious combinations of alleles. The method is based upon the relative rates of double and single substitution, and can differentiate between nonindependent interactions and negatively epistatic ones. The model is implemented in a fully Bayesian framework for parameter estimation and is demonstrated using a 5S rRNA data set. In addition to the detection of selection, modeling the double and single substitution processes in this manner inherently accounts for a substantial proportion of rate variation among stem positions.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.