Literature DB >> 29948882

Cover-Encodings of Fitness Landscapes.

Konstantin Klemm1, Anita Mehta2, Peter F Stadler3,4,5.   

Abstract

The traditional way of tackling discrete optimization problems is by using local search on suitably defined cost or fitness landscapes. Such approaches are however limited by the slowing down that occurs when the local minima that are a feature of the typically rugged landscapes encountered arrest the progress of the search process. Another way of tackling optimization problems is by the use of heuristic approximations to estimate a global cost minimum. Here, we present a combination of these two approaches by using cover-encoding maps which map processes from a larger search space to subsets of the original search space. The key idea is to construct cover-encoding maps with the help of suitable heuristics that single out near-optimal solutions and result in landscapes on the larger search space that no longer exhibit trapping local minima. We present cover-encoding maps for the problems of the traveling salesman, number partitioning, maximum matching and maximum clique; the practical feasibility of our method is demonstrated by simulations of adaptive walks on the corresponding encoded landscapes which find the global minima for these problems.

Entities:  

Keywords:  Adaptive walk; Coarse-graining; Combinatorial optimization; Genotype–phenotype map; Oracle function

Mesh:

Year:  2018        PMID: 29948882      PMCID: PMC6061522          DOI: 10.1007/s11538-018-0451-1

Source DB:  PubMed          Journal:  Bull Math Biol        ISSN: 0092-8240            Impact factor:   1.758


  10 in total

1.  Redundant representations in evolutionary computation.

Authors:  Franz Rothlauf; David E Goldberg
Journal:  Evol Comput       Date:  2003       Impact factor: 3.277

2.  Robustness, evolvability, and neutrality.

Authors:  Andreas Wagner
Journal:  FEBS Lett       Date:  2005-03-21       Impact factor: 4.124

3.  Neutral fitness landscapes in signalling networks.

Authors:  Pau Fernández; Ricard V Solé
Journal:  J R Soc Interface       Date:  2007-02-22       Impact factor: 4.118

4.  Innovation and robustness in complex regulatory gene networks.

Authors:  S Ciliberti; O C Martin; A Wagner
Journal:  Proc Natl Acad Sci U S A       Date:  2007-08-09       Impact factor: 11.205

5.  From sequences to shapes and back: a case study in RNA secondary structures.

Authors:  P Schuster; W Fontana; P F Stadler; I L Hofacker
Journal:  Proc Biol Sci       Date:  1994-03-22       Impact factor: 5.349

6.  Continuity in evolution: on the nature of transitions.

Authors:  W Fontana; P Schuster
Journal:  Science       Date:  1998-05-29       Impact factor: 47.728

7.  Metabolic flux and fitness.

Authors:  D E Dykhuizen; A M Dean; D L Hartl
Journal:  Genetics       Date:  1987-01       Impact factor: 4.562

8.  "Surfaces" of selective value.

Authors:  S Wright
Journal:  Proc Natl Acad Sci U S A       Date:  1967-07       Impact factor: 11.205

9.  Landscape encodings enhance optimization.

Authors:  Konstantin Klemm; Anita Mehta; Peter F Stadler
Journal:  PLoS One       Date:  2012-04-09       Impact factor: 3.240

10.  On the accessibility of adaptive phenotypes of a bacterial metabolic network.

Authors:  Wilfred Ndifon; Joshua B Plotkin; Jonathan Dushoff
Journal:  PLoS Comput Biol       Date:  2009-08-21       Impact factor: 4.475

  10 in total

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