DNA sequence analysis using fuzzy grammars

We propose to use fuzzy context-free grammars for the analysis of DNA sequences by using the Cocke-Younger-Kasami algorithm to estimate membership grades of a DNA sequence against the language of a fuzzy grammar. As a first example of the application of the proposed method we prove that is possible...

Full description

Saved in:
Bibliographic Details
Main Authors: Molina-Lozano, H., Vallejo-Clemente, E.E., Morett-Sanchez, J.E.
Format: Conference Proceeding
Language:English
Subjects:
Conferences
Fuzzy systems
Online Access:Request full text
Tags: Add Tag
No Tags, Be the first to tag this record!
Description
Summary:We propose to use fuzzy context-free grammars for the analysis of DNA sequences by using the Cocke-Younger-Kasami algorithm to estimate membership grades of a DNA sequence against the language of a fuzzy grammar. As a first example of the application of the proposed method we prove that is possible to determine a fuzzy grammar of a prototype DNA sequence and then found the membership grade of any arbitrary sequence against the specific pattern. As a second example, we formulate a fuzzy grammar from an alignment of promoters by a logo sequence of Escherichia Coli K12 then show how the proposed method can be used for the discovery of regulatory motifs.
ISSN:1098-7584
DOI:10.1109/FUZZY.2008.4630631