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Discrete Applied Mathematics
Volume 137, Issue 1, 27 February 2004, Pages 47-67
 
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doi:10.1016/S0166-218X(03)00188-4    How to Cite or Link Using DOI (Opens New Window)
Copyright © 2003 Elsevier B.V. All rights reserved.

Approximate location of relevant variables under the crossover distribution*1

Peter DamaschkeE-mail The Corresponding Author

Computing Sciences, Chalmers University, 41296, Göteborg, Sweden

Received 28 November 2001; 
revised 13 June 2002; 
accepted 15 October 2002. ;
Available online 28 August 2003.

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Abstract

Searching for genes involved in traits (e.g. diseases), based on genetic data, is considered from a computational learning perspective. This leads to the problem of learning relevant variables of probabilistic Boolean functions by function value queries for many assignments. These assignments are sampled from a certain class of distributions that generalizes the uniform distribution, and is motivated by the mechanism of inheritance of genetic material. The Fourier transform of Boolean functions is applied to translate the problem into a conceptually simpler one: searching for local extrema of certain functions of observables. We work out the combinatorial structure of this approach and illustrate its potential use.

Author Keywords: Learning from samples; Probabilistic concepts; Relevance; Boolean functions; Fourier transform; Crossover distribution; Genetics; Local extrema

Article Outline

1. Introduction
1.1. Gene hunting in the case of complex traits
1.2. Relevant variables
1.3. Contributions and organization of the paper
1.4. Literature
1.5. Statement of our learning problem
1.6. From genetic data to probabilistic Boolean functions
2. Relevance and Fourier transform
2.1. Learning via Fourier transform
2.2. Special Boolean functions
3. Relevance and crossover distribution
3.1. Linkage
3.2. Generalizing the Fourier learning algorithm—the first steps
3.3. Expressing the observables
4. Design and use of guide functions
4.1. Let one variable move
4.2. Learning a local extremum of a real-valued function
4.3. Guide functions from singleton test sets
4.4. Guide functions from two-element test sets
4.5. Guide functions for affected siblings
Acknowledgements
References

Discrete Applied Mathematics
Volume 137, Issue 1, 27 February 2004, Pages 47-67
 
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