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Bioinformatics Advance Access originally published online on July 27, 2007
Bioinformatics 2007 23(23):3249-3250; doi:10.1093/bioinformatics/btm368
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© 2007 The Author(s)
This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/2.0/uk/) which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited.

BLISS 2.0: a web-based tool for predicting conserved regulatory modules in distantly-related orthologous sequences

Hailong Meng 1,2, Arunava Banerjee 1 and Lei Zhou 2,*

1Department of Computer and Information Science and Engineering, College of Engineering, UFL, Gainesville, FL 32611 and 2Department of Molecular Genetics and Microbiology & UF Shands Cancer Center, College of Medicine, UFL, Gainesville, FL 32610, USA

*To whom correspondence should be addressed.


  Abstract

Summary: BLISS 2.0 is a web-based application for identifying conserved regulatory modules in distantly related orthologous sequences. Unlike existing approaches, it performs the cross-genome comparison at the binding site level. Experimental results on simulated and real world data indicate that BLISS 2.0 can identify conserved regulatory modules from sequences with little overall similarity at the DNA sequence level.

Availability: http://www.blisstool.org/

Contact: leizhou{at}ufl.edu

Associate Editor: Olga Troyanskaya

Received on April 3, 2007; revised on June 23, 2007; accepted on July 9, 2007

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