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Nucleic Acids Research 2006 34(Web Server issue):W683-W685; doi:10.1093/nar/gkl299
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© The Author 2006. Published by Oxford University Press. All rights reserved
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 for non-commercial purposes 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. For commercial re-use, please contact journals.permissions@oxfordjournals.org

Article

Quadfinder: server for identification and analysis of quadruplex-forming motifs in nucleotide sequences

Vinod Scaria, Manoj Hariharan, Amit Arora1 and Souvik Maiti1,*

GN Ramachandran Knowledge Center for Genome Informatics 1 Proteomics and Structural Biology Unit, Institute of Genomics and Integrative Biology CSIR, Mall Road, Delhi 110 007, India

*To whom correspondence should be addressed. Tel: +91 011 27666156; Fax: +91 011 27667471; Email: souvik{at}igib.res.in

Received February 14, 2006. Revised March 10, 2006. Accepted April 6, 2006.

G-quadruplex secondary structures, which play a structural role in repetitive DNA such as telomeres, may also play a functional role at other genomic locations as targetable regulatory elements which control gene expression. The recent interest in application of quadruplexes in biological systems prompted us to develop a tool for the identification and analysis of quadruplex-forming nucleotide sequences especially in the RNA. Here we present Quadfinder, an online server for prediction and bioinformatics of uni-molecular quadruplex-forming nucleotide sequences. The server is designed to be user-friendly and needs minimal intervention by the user, while providing flexibility of defining the variants of the motif. The server is freely available at URL http://miracle.igib.res.in/quadfinder/.


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