GENERATING FUZZY RULES FOR PROTEIN CLASSIFICATION

Document Type : Research Paper

Authors

1 COMPUTER SCIENCE AND ENGINEERING DEPARTMENT, COLLEGE OF ENGINEERING, SHIRAZ UNIVERSITY, SHIRAZ, IRAN

2 BIOLOGY DEPARTMENT, COLLEGE OF SCIENCE, SHIRAZ UNIVERSITY, SHIRAZ, IRAN

Abstract

This paper considers the generation of some interpretable fuzzy rules
for assigning an amino acid sequence into the appropriate protein superfamily.
Since the main objective of this classifier is the interpretability of rules, we have
used the distribution of amino acids in the sequences of proteins as features.
These features are the occurrence probabilities of six exchange groups in the
sequences. To generate the fuzzy rules, we have used some modified versions of
a common approach. The generated rules are simple and understandable,
especially for biologists. To evaluate our fuzzy classifiers, we have used four
protein superfamilies from UniProt database. Experimental results show the
comprehensibility of generated fuzzy rules with comparable classification
accuracy.

Keywords

References

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Iranian Journal of Fuzzy Systems
Volume 5, Issue 2 - Serial Number 2
May and June 2008
Pages 21-33

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