A steganalysis-based approach to comprehensive identification and characterization of functional regulatory elements

The comprehensive identification of cis-regulatory elements on a genome scale is a challenging problem. We develop a novel, steganalysis-based approach for genome-wide motif finding, called WordSpy, by viewing regulatory regions as a stegoscript with cis-elements embedded in 'background' s...

Descripción completa

Detalles Bibliográficos
Autores principales: Wang, Guandong, Zhang, Weixiong
Formato: Texto
Lenguaje:English
Publicado: BioMed Central 2006
Materias:
Method
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC1779545/
https://www.ncbi.nlm.nih.gov/pubmed/16787547
http://dx.doi.org/10.1186/gb-2006-7-6-r49
_version_ 1782131799916281856
author Wang, Guandong
Zhang, Weixiong
author_facet Wang, Guandong
Zhang, Weixiong
author_sort Wang, Guandong
collection PubMed
description The comprehensive identification of cis-regulatory elements on a genome scale is a challenging problem. We develop a novel, steganalysis-based approach for genome-wide motif finding, called WordSpy, by viewing regulatory regions as a stegoscript with cis-elements embedded in 'background' sequences. We apply WordSpy to the promoters of cell-cycle-related genes of Saccharomyces cerevisiae and Arabidopsis thaliana, identifying all known cell-cycle motifs with high ranking. WordSpy can discover a complete set of cis-elements and facilitate the systematic study of regulatory networks.
format Text
id pubmed-1779545
institution National Center for Biotechnology Information
language English
publishDate 2006
publisher BioMed Central
record_format MEDLINE/PubMed
spelling pubmed-17795452007-01-19 A steganalysis-based approach to comprehensive identification and characterization of functional regulatory elements Wang, Guandong Zhang, Weixiong Genome Biol Method The comprehensive identification of cis-regulatory elements on a genome scale is a challenging problem. We develop a novel, steganalysis-based approach for genome-wide motif finding, called WordSpy, by viewing regulatory regions as a stegoscript with cis-elements embedded in 'background' sequences. We apply WordSpy to the promoters of cell-cycle-related genes of Saccharomyces cerevisiae and Arabidopsis thaliana, identifying all known cell-cycle motifs with high ranking. WordSpy can discover a complete set of cis-elements and facilitate the systematic study of regulatory networks. BioMed Central 2006 2006-06-20 /pmc/articles/PMC1779545/ /pubmed/16787547 http://dx.doi.org/10.1186/gb-2006-7-6-r49 Text en Copyright © 2006 Wang and Zhang; licensee BioMed Central Ltd. http://creativecommons.org/licenses/by/2.0 This is an open access article distributed under the terms of the Creative Commons Attribution License ( (http://creativecommons.org/licenses/by/2.0) ), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.
spellingShingle Method
Wang, Guandong
Zhang, Weixiong
A steganalysis-based approach to comprehensive identification and characterization of functional regulatory elements
title A steganalysis-based approach to comprehensive identification and characterization of functional regulatory elements
title_full A steganalysis-based approach to comprehensive identification and characterization of functional regulatory elements
title_fullStr A steganalysis-based approach to comprehensive identification and characterization of functional regulatory elements
title_full_unstemmed A steganalysis-based approach to comprehensive identification and characterization of functional regulatory elements
title_short A steganalysis-based approach to comprehensive identification and characterization of functional regulatory elements
title_sort steganalysis-based approach to comprehensive identification and characterization of functional regulatory elements
topic Method
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC1779545/
https://www.ncbi.nlm.nih.gov/pubmed/16787547
http://dx.doi.org/10.1186/gb-2006-7-6-r49
work_keys_str_mv AT wangguandong asteganalysisbasedapproachtocomprehensiveidentificationandcharacterizationoffunctionalregulatoryelements
AT zhangweixiong asteganalysisbasedapproachtocomprehensiveidentificationandcharacterizationoffunctionalregulatoryelements
AT wangguandong steganalysisbasedapproachtocomprehensiveidentificationandcharacterizationoffunctionalregulatoryelements
AT zhangweixiong steganalysisbasedapproachtocomprehensiveidentificationandcharacterizationoffunctionalregulatoryelements

Ejemplares similares