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Bioinformatics Advance Access originally published online on November 22, 2006
Bioinformatics 2007 23(3):397-399; doi:10.1093/bioinformatics/btl593
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© 2006 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.

SNP2NMD: A database of human single nucleotide polymorphisms causing nonsense-mediated mRNA decay

Areum Han 1,{dagger}, Woo-Yeon Kim 1,{dagger} and Seong-Min Park 1,2,*

1 Korean Bioinformation Center, KRIBB Daejeon 305-806, Korea
2 Functional Genomics Research Center, KRIBB Daejeon 305-806, Korea

*To whom correspondence should be addressed.


  Abstract

Summary: Elucidating the effects of genetic polymorphisms on genes and gene networks is an important step in disease association studies. We developed the SNP2NMD database for human SNPs (single nucleotide polymorphisms) that result in PTCs (premature termination codons) and trigger nonsense-mediated mRNA decay (NMD). The SNP2NMD Web interfaces provide extensive genetic information on and graphical views of the queried SNP, gene, and disease terms.

Availability: SNP2NMD is available from http://variome.net, or directly from http://bioportal.kobic.re.kr/SNP2NMD

Contact: kimplove{at}kribb.re.kr, lastmhc{at}kribb.re.kr

Supplementary information: http://bioportal.kobic.re.kr/SNP2NMD/Wiki.jsp?page=Statistics

{dagger}The authors wish it to be known that, in their opinion, the first two authors should be regarded as joint First Authors.

Associate Editor: Joaquin Dopazo

Received on September 21, 2006; revised on November 18, 2006; accepted on November 18, 2006

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