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Nucleic Acids Research 2005 33(9):2901-2907; doi:10.1093/nar/gki553
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Published online 24 May 2005

© The Author 2005. 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{at}oupjournals.org

Article

Highly prevalent putative quadruplex sequence motifs in human DNA

Alan K. Todd, Matthew Johnston and Stephen Neidle*

CRUK Biomolecular Structure Group, The School of Pharmacy, University of London 29–39 Brunswick Square, London WC1N 1AX, UK

*To whom correspondence should be addressed. Tel: +44 020 7753 5969; Fax: +44 020 7753 5970; Email: stephen.neidle{at}ulsop.ac.uk

Received February 8, 2005. Revised March 29, 2005. Accepted April 16, 2005.

We report here the results of a systematic search for the existence and prevalence of potential intramolecular G-quadruplex forming sequences in the human genome. We have also examined the tendency for particular sequences of ‘loop’ regions to occur in particular positions with respect to the G-tracts in a quadruplex. Using arithmetic ratio and probability techniques we have discovered frequent and systematic occurrence of certain sequence types, the most prominent being a potential quadruplex containing CCTGT in the first ‘loop’ position. Being able to highlight types of potential quadruplex sequences in G-rich regions is an important step in searching for biologically relevant sequences and finding their function.


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