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Received: 2004-10-08

Revision Accepted: 2005-03-07

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Journal of Zhejiang University SCIENCE B 2005 Vol.6 No.5 P.401~407

http://doi.org/10.1631/jzus.2005.B0401


A hybrid neural network system for prediction and recognition of promoter regions in human genome


Author(s):  CHEN Chuan-bo, LI Tao

Affiliation(s):  School of Computer Science & Technology, Huazhong University of Science & Technology, Wuhan 430074, China

Corresponding email(s):   chuanboc@163.com, ljrlt@public.wh.hb.cn

Key Words:  Hybrid neural network, Promoter prediction, Compositional features, CpG islands


CHEN Chuan-bo, LI Tao. A hybrid neural network system for prediction and recognition of promoter regions in human genome[J]. Journal of Zhejiang University Science B, 2005, 6(5): 401~407.

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author="CHEN Chuan-bo, LI Tao",
journal="Journal of Zhejiang University Science B",
volume="6",
number="5",
pages="401~407",
year="2005",
publisher="Zhejiang University Press & Springer",
doi="10.1631/jzus.2005.B0401"
}

%0 Journal Article
%T A hybrid neural network system for prediction and recognition of promoter regions in human genome
%A CHEN Chuan-bo
%A LI Tao
%J Journal of Zhejiang University SCIENCE B
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%P 401~407
%@ 1673-1581
%D 2005
%I Zhejiang University Press & Springer
%DOI 10.1631/jzus.2005.B0401

TY - JOUR
T1 - A hybrid neural network system for prediction and recognition of promoter regions in human genome
A1 - CHEN Chuan-bo
A1 - LI Tao
J0 - Journal of Zhejiang University Science B
VL - 6
IS - 5
SP - 401
EP - 407
%@ 1673-1581
Y1 - 2005
PB - Zhejiang University Press & Springer
ER -
DOI - 10.1631/jzus.2005.B0401


Abstract: 
This paper proposes a high specificity and sensitivity algorithm called PromPredictor for recognizing promoter regions in the human genome. PromPredictor extracts compositional features and cpG islands information from genomic sequence, feeding these features as input for a hybrid neural network system (HNN) and then applies the HNN for prediction. It combines a novel promoter recognition model, coding theory, feature selection and dimensionality reduction with machine learning algorithm. Evaluation on Human chromosome 22 was ~66% in sensitivity and ~48% in specificity. Comparison with two other systems revealed that our method had superior sensitivity and specificity in predicting promoter regions. PromPredictor is written in MATLAB and requires Matlab to run. PromPredictor is freely available at http://www.whtelecom.com/Prompredictor.htm.

Darkslateblue:Affiliate; Royal Blue:Author; Turquoise:Article

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