Nucleic Acids Research, 2003, Vol. 31, No. 13 3812-3814
© 2003 Oxford University Press
SIFT: predicting amino acid changes that affect protein function
Fred Hutchinson Cancer Research Center, 1100 Fairview Avenue N A1-162, Seattle, WA 98109, USA
*To whom correspondence should be addressed. Tel: +1 2066674515; Fax: +1 2066675889; Email: steveh{at}fhcrc.org
Single nucleotide polymorphism (SNP) studies and random mutagenesis projects identify amino acid substitutions in protein-coding regions. Each substitution has the potential to affect protein function. SIFT (Sorting Intolerant From Tolerant) is a program that predicts whether an amino acid substitution affects protein function so that users can prioritize substitutions for further study. We have shown that SIFT can distinguish between functionally neutral and deleterious amino acid changes in mutagenesis studies and on human polymorphisms. SIFT is available at http://blocks.fhcrc.org/sift/SIFT.html.
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M. F. Rudd, R. D. Williams, E. L. Webb, S. Schmidt, G. S. Sellick, and R. S. Houlston The Predicted Impact of Coding Single Nucleotide Polymorphisms Database Cancer Epidemiol. Biomarkers Prev., November 1, 2005; 14(11): 2598 - 2604. [Abstract] [Full Text] [PDF]
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B. Yalcin, J. Flint, and R. Mott Using Progenitor Strain Information to Identify Quantitative Trait Nucleotides in Outbred Mice Genetics, October 1, 2005; 171(2): 673 - 681. [Abstract] [Full Text] [PDF]
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J. Dantzer, C. Moad, R. Heiland, and S. Mooney MutDB services: interactive structural analysis of mutation data Nucleic Acids Res., July 1, 2005; 33(suppl_2): W311 - W314. [Abstract] [Full Text] [PDF]
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L. Bao, M. Zhou, and Y. Cui nsSNPAnalyzer: identifying disease-associated nonsynonymous single nucleotide polymorphisms Nucleic Acids Res., July 1, 2005; 33(suppl_2): W480 - W482. [Abstract] [Full Text] [PDF]
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H. Chen and H.-X. Zhou Prediction of solvent accessibility and sites of deleterious mutations from protein sequence Nucleic Acids Res., June 3, 2005; 33(10): 3193 - 3199. [Abstract] [Full Text] [PDF]
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L. Bao and Y. Cui Prediction of the phenotypic effects of non-synonymous single nucleotide polymorphisms using structural and evolutionary information Bioinformatics, May 15, 2005; 21(10): 2185 - 2190. [Abstract] [Full Text] [PDF]
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F. Zhang and Z. Zhao SNPNB: analyzing neighboring-nucleotide biases on single nucleotide polymorphisms (SNPs) Bioinformatics, May 15, 2005; 21(10): 2517 - 2519. [Abstract] [Full Text] [PDF]
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M. M. Johnson, J. Houck, and C. Chen Screening for Deleterious Nonsynonymous Single-Nucleotide Polymorphisms in Genes Involved in Steroid Hormone Metabolism and Response Cancer Epidemiol. Biomarkers Prev., May 1, 2005; 14(5): 1326 - 1329. [Abstract] [Full Text] [PDF]
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D. C. Thomas The Need for a Systematic Approach to Complex Pathways in Molecular Epidemiology Cancer Epidemiol. Biomarkers Prev., March 1, 2005; 14(3): 557 - 559. [Full Text] [PDF]
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A. Pavlicek, V. N. Noskov, N. Kouprina, J. C. Barrett, J. Jurka, and V. Larionov Evolution of the tumor suppressor BRCA1 locus in primates: implications for cancer predisposition Hum. Mol. Genet., November 15, 2004; 13(22): 2737 - 2751. [Abstract] [Full Text] [PDF]
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 T. Lang, K. Klein, T. Richter, A. Zibat, R. Kerb, M. Eichelbaum, M. Schwab, and U. M. Zanger Multiple Novel Nonsynonymous CYP2B6 Gene Polymorphisms in Caucasians: Demonstration of Phenotypic Null Alleles J. Pharmacol. Exp. Ther., October 1, 2004; 311(1): 34 - 43. [Abstract] [Full Text] [PDF]
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R. J. Livingston, A. von Niederhausern, A. G. Jegga, D. C. Crawford, C. S. Carlson, M. J. Rieder, S. Gowrisankar, B. J. Aronow, R. B. Weiss, and D. A. Nickerson Pattern of Sequence Variation Across 213 Environmental Response Genes Genome Res., October 1, 2004; 14(10a): 1821 - 1831. [Abstract] [Full Text] [PDF]
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V. Guryev, E. Berezikov, R. Malik, R. H.A. Plasterk, and E. Cuppen Single Nucleotide Polymorphisms Associated With Rat Expressed Sequences Genome Res., July 1, 2004; 14(7): 1438 - 1443. [Abstract] [Full Text] [PDF]
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