Skip Navigation

Nucleic Acids Research 2004 32(Web Server Issue):W257-W260; doi:10.1093/nar/gkh396
This Article
Right arrow Full Text Freely available
Right arrow Print PDF (236K) Freely available
Right arrow Alert me when this article is cited
Right arrow Alert me if a correction is posted
Services
Right arrow Email this article to a friend
Right arrow Similar articles in this journal
Right arrow Similar articles in PubMed
Right arrow Alert me to new issues of the journal
Right arrow Add to My Personal Archive
Right arrow Download to citation manager
Right arrow Commercial Re-use Guidelines
for Open Access NAR Content
Google Scholar
Right arrow Articles by Vega, V. B.
Right arrow Articles by Lin, C.-Y.
Right arrow Search for Related Content
PubMed
Right arrow PubMed Citation
Right arrow Articles by Vega, V. B.
Right arrow Articles by Lin, C.-Y.
Social Bookmarking
Add to CiteULike   Add to Connotea   Add to Del.icio.us  
What's this?

© 2004, the authors
Nucleic Acids Research, Vol. 32, Web Server issue © Oxford University Press 2004; all rights reserved

BEARR: Batch Extraction and Analysis of cis-Regulatory Regions

Vinsensius B. Vega*, Dhinoth Kumar Bangarusamy, Lance D. Miller, Edison T. Liu and Chin-Yo Lin

Genome Institute of Singapore, 60 Biopolis Street, #02-01, Singapore 138672

* To whom correspondence should be addressed. Tel: +65 6478 8041; Fax: +65 6478 9058; Email: vegav{at}gis.a-star.edu.sg
The authors wish it to be known that, in their opinion, the first two authors should be regarded as joint First Authors

Received February 9, 2004; Revised and Accepted March 24, 2004

Transcription factors play important roles in regulating biological and disease processes. Microarray technology has enabled researchers to simultaneously monitor changes in the expression of thousands of transcripts. By identifying specific transcription factor binding sites in the cis-regulatory regions of differentially expressed genes, it is then possible to identify direct targets of transcription factors, model transcriptional regulatory networks and mine the dataset for relevant targets for experimental and clinical manipulation. We have developed web-based software to assist biologists in efficiently carrying out the analysis of microarray data from studies of specific transcription factors. Batch Extraction and Analysis of cis-Regulatory Regions, or BEARR, accepts gene identifier lists from microarray data analysis tools and facilitates identification, extraction and analysis of regulatory regions from the large amount of data that is typically generated in these types of studies. The software is publicly available at http://giscompute.gis.a-star.edu.sg/~vega/BEARR1.0/.

The online version of this article has been published under an open access model. Users are entitled to use, reproduce, disseminate, or display the open access version of this article provided that: the original authorship is properly and fully attributed; the Journal and Oxford University Press are attributed as the original place of publication with the correct citation details given; if an article is subsequently reproduced or disseminated not in its entirety but only in part or as a derivative work this must be clearly indicated.


Add to CiteULike CiteULike   Add to Connotea Connotea   Add to Del.icio.us Del.icio.us    What's this?


This article has been cited by other articles:


Home page
 Nucleic Acids ResHome page
I. J. Donaldson and B. Gottgens
TFBScluster web server for the identification of mammalian composite regulatory elements.
Nucleic Acids Res., July 1, 2006; 34(Web Server issue): W524 - W528.
[Abstract] [Full Text] [PDF]


Disclaimer: Please note that abstracts for content published before 1996 were created through digital scanning and may therefore not exactly replicate the text of the original print issues. All efforts have been made to ensure accuracy, but the Publisher will not be held responsible for any remaining inaccuracies. If you require any further clarification, please contact our Customer Services Department.