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Epistasis and Shapes of Fitness Landscapes

Beerenwinkel, Niko and Pachter, Lior and Sturmfels, Bernd (2007) Epistasis and Shapes of Fitness Landscapes. Statistica Sinica, 17 (4). pp. 1317-1342. ISSN 1017-0405. https://resolver.caltech.edu/CaltechAUTHORS:20170307-094958898

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Abstract

The relationship between the shape of a fitness landscape and the underlying gene interactions, or epistasis, has been extensively studied in the two-locus case. Gene interactions among multiple loci are usually reduced to two-way interactions. We present a geometric theory of shapes of fitness landscapes for multiple loci. A central concept is the genotope, which is the convex hull of all possible allele frequencies in populations. Triangulations of the genotope correspond to different shapes of fitness landscapes and reveal all the gene interactions. The theory is applied to fitness data from HIV and Drosophila melanogaster. In both cases, our findings refine earlier analyses and reveal previously undetected gene interactions.


Item Type:Article
Related URLs:
URLURL TypeDescription
http://www3.stat.sinica.edu.tw/statistica/J17N4/J17N43/J17N43.htmlPublisherArticle
https://arxiv.org/abs/q-bio/0603034arXivDiscussion Paper
ORCID:
AuthorORCID
Pachter, Lior0000-0002-9164-6231
Additional Information:© 2007 Institute of Statistical Science, Academia Sinica. (Received April 2006; accepted August 2006) This paper was inspired by the DARPA workshop on Fitness Landscapes held at Berkeley in February 2006. We thank Sebastian Bonhoeffer, Richard Lenski and Sally Otto for helpful discussions. N.B. was supported by the Deutsche Forschungsgemeinschaft (BE 3217/1-1). L.P. and B.S. were supported by the DARPA program “Fundamental Laws in Biology” (HR0011-05-1-0057).
Funders:
Funding AgencyGrant Number
Deutsche Forschungsgemeinschaft (DFG)BE 3217/1-1
Defense Advanced Research Projects Agency (DARPA)HR0011-05-1-0057
Issue or Number:4
Record Number:CaltechAUTHORS:20170307-094958898
Persistent URL:https://resolver.caltech.edu/CaltechAUTHORS:20170307-094958898
Usage Policy:No commercial reproduction, distribution, display or performance rights in this work are provided.
ID Code:74835
Collection:CaltechAUTHORS
Deposited By: Tony Diaz
Deposited On:07 Mar 2017 17:55
Last Modified:24 Feb 2020 10:30

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