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Enhanced HMM for the Recognition of Sigma70 Promoters in Escherichia coli

Cai, Jinhai (2008) Enhanced HMM for the Recognition of Sigma70 Promoters in Escherichia coli. In Digital Image Computing: Techniques and Applications (DICTA) 2008, 1-3 Dec 2008, Canberra, Australia.

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Abstract

In this paper, we propose an enhanced HMM for the recognition of sigma70 promoters in E. coli. HMMs for -10 and -35 boxes have been proposed to model the positional dependency of motifs which is lost in methods based on weight matrices. We also propose to use a set of spacer states sharing the observation densities to achieve the desired spacer duration probability functions. We have conducted two sets of experiments on recognizing promoters and locating DNA binding sites and the proposed method has achieved very promising results in comparison with earlier neural network approaches.

Impact and interest:

1 citations in Scopus
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ID Code: 16760
Item Type: Conference Paper
Keywords: hidden Markov model, Sigma70 Promoter, Lattice-HMM, Bioinformatics
DOI: 10.1109/DICTA.2008.79
ISBN: 9780769534565
Subjects: Australian and New Zealand Standard Research Classification > INFORMATION AND COMPUTING SCIENCES (080000) > ARTIFICIAL INTELLIGENCE AND IMAGE PROCESSING (080100) > Pattern Recognition and Data Mining (080109)
Divisions: Past > QUT Faculties & Divisions > Faculty of Built Environment and Engineering
Past > Schools > School of Engineering Systems
Copyright Owner: Copyright 2008 IEEE
Copyright Statement: Personal use of this material is permitted. However, permission to reprint/republish this material for advertising or promotional purposes or for creating new collective works for resale or redistribution to servers or lists, or to reuse any copyrighted component of this work in other works must be obtained from the IEEE.
Deposited On: 10 Dec 2008 10:07
Last Modified: 09 Jun 2010 23:13

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