Evolution on distributive lattices

DOI10.1016/J.JTBI.2006.03.013MaRDI QIDQ2201887zbMATH OpenOpenAlexWikidataFDO

Authors Niko Beerenwinkel, Nicholas Eriksson, Bernd Sturmfels

Publication date 17 September 2020

Published in Journal of Theoretical Biology (Search for Journal in Brave)

Full work available at URL https://arxiv.org/abs/q-bio/0511039

zbMATH Keywords

Bayesian networkfitness landscapedistributive latticeHIV drug resistancedirected evolutionchain polynomialmutagenetic treerisk polynomial

Mathematics Subject Classification ID

Problems related to evolution (92D15)

Abstract: We consider the directed evolution of a population after an intervention that has significantly altered the underlying fitness landscape. We model the space of genotypes as a distributive lattice; the fitness landscape is a real-valued function on that lattice. The risk of escape from intervention, i.e., the probability that the population develops an escape mutant before extinction, is encoded in the risk polynomial. Tools from algebraic combinatorics are applied to compute the risk polynomial in terms of the fitness landscape. In an application to the development of drug resistance in HIV, we study the risk of viral escape from treatment with the protease inhibitors ritonavir and indinavir.

Recommendations

• Learning monotonic genotype-phenotype maps
• Dynamics of escape mutants
• Evolutionary escape on complex genotype-phenotype networks
• Surviving evolutionary escape on complex genotype-phenotype networks
• Bayesian hierarchical modeling of the HIV evolutionary response to therapy

Cites work

• scientific article; zbMATH DE number 1033382 (Why is no real title available?)
• scientific article; zbMATH DE number 1134987 (Why is no real title available?)
• scientific article; zbMATH DE number 2038872 (Why is no real title available?)
• scientific article; zbMATH DE number 3410334 (Why is no real title available?)
• A matrix for counting paths in acyclic digraphs
• Algebraic geometry of Bayesian networks
• An algorithm to generate all topological sorting arrangements
• Combinatorial Commutative Algebra
• Combinatorial landscapes
• Counting linear extensions
• Evolutionary dynamics of invasion and escape
• Generating Linear Extensions Fast
• Mutagenetic Tree Models
• On posets and Hopf algebras

Cited in

(3)

• Commutative algebra of statistical ranking
• Latent conjunctive Bayesian network: unify attribute hierarchy and Bayesian network for cognitive diagnosis
• Discrete max-linear Bayesian networks

Describes a project that uses

Uses Software

• geno2pheno
• Mtreemix

This page was built for publication: Evolution on distributive lattices

Report a bug (only for logged in users!)Click here to report a bug for this page (MaRDI item Q2201887)