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Nucleic Acids Research Advance Access originally published online on November 5, 2007
Nucleic Acids Research 2008 36(Database issue):D820-D824; doi:10.1093/nar/gkm904
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Nucleic Acids Research, 2008, Vol. 36, Database issue D820-D824
© 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.

This article appears in the following Nucleic Acids Research issue: Database issue [View the issue table of contents]

Articles

F-SNP: computationally predicted functional SNPs for disease association studies

Phil Hyoun Lee* and Hagit Shatkay

Computational Biology and Machine Learning Lab, School of Computing, Queen's University, Kingston, ON, Canada

*To whom correspondence should be addressed. Tel: +1 613 533 6000 (74659); Fax: +1 613 533 6513; Email: lee{at}cs.queensu.ca

Received August 17, 2007. Revised October 4, 2007. Accepted October 5, 2007.

The Functional Single Nucleotide Polymorphism (F-SNP) database integrates information obtained from 16 bioinformatics tools and databases about the functional effects of SNPs. These effects are predicted and indicated at the splicing, transcriptional, translational and post-translational level. As such, the database helps identify and focus on SNPs with potential deleterious effect to human health. In particular, users can retrieve SNPs that disrupt genomic regions known to be functional, including splice sites and transcriptional regulatory regions. Users can also identify non-synonymous SNPs that may have deleterious effects on protein structure or function, interfere with protein translation or impede post-translational modification. A web interface enables easy navigation for obtaining information through multiple starting points and exploration routes (e.g. starting from SNP identifier, genomic region, gene or target disease). The F-SNP database is available at http://compbio.cs.queensu.ca/F-SNP/.


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[Abstract] [Full Text] [PDF]


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