| SIFT predicts whether an amino acid substitution affects protein function based on sequence homology and the physical properties of amino acids. SIFT can be applied to naturally occurring nonsynonymous polymorphisms and laboratory-induced missense mutations. |
| Genome Tools | Single Protein Tools |
1.
 Restrict to coding variants |
SIFT BLink
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SIFT nonsynonymous single nucleotide variants (genome-scale)
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SIFT Sequence
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| 2b.
Classify coding indels (Insertion/Deletions)
New! Prediction on frameshifting indel |
SIFT Related Sequence
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| SIFT Aligned Sequences |
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| Batch Tools | |
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SIFT Batch Protein
Updated! |
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SIFT dbSNP 132
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SIFT for in-house use (version 4.0.5, released November, 2011)New!
Run SIFT on the Amazon Cloud New!
Source code & executables (Sun, Linux)
New! March 20/2012
SIFT database for SIFT version 5.0.0 New! March 20/2012
Please download the following database as well if you are using SIFT frameshifting indel tool
SIFT Coding Info database for SIFT version 5.0.0 New! March 20/2012
Test sets for initial training of SIFT algorithm
Literature
Referencing SIFT
Referencing SIFT
- Predicting Deleterious Amino Acid Substitutions, Genome Res. 2001 May; 11(5): 863.874.
(Link)
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Accounting for Human Polymorphisms Predicted to Affect Protein Function, Genome Res. 2002 December; 436-446
(Link)
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SIFT: predicting amino acid changes that affect protein function, Nucleic Acids Research, 2003, Vol. 31, No. 13 3812-3814
(Link)
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Predicting the effects of coding non-synonymous variants on protein function using the SIFT algorithm, Nature Protocols 4, - 1073 - 1081 (2009)
(Link)
Other Similar Prediction Tools
This website is maintained by the group of
Pauline Ng, creator of SIFT. Pauline developed and maintained the SIFT website
at Fred Hutchinson Cancer Researcher Center from 2001-2008, then the J. Craig Venter Institute from 2008-2010, and she is
now at the Genome Institute of Singapore. Server support is provided by Georg Schneider, creator of protein function prediction tool ANNIE.
at Fred Hutchinson Cancer Researcher Center from 2001-2008, then the J. Craig Venter Institute from 2008-2010, and she is
now at the Genome Institute of Singapore. Server support is provided by Georg Schneider, creator of protein function prediction tool ANNIE.
Recent changes to SIFT
March 2012
June 2011
- SIFT v5.0.0 standalone + database released, includes frameshifting indel prediction algorithm.
- SIFT Batch Protein allows more input types (various protein ids and positions) and updated to dbSNP 135
- SIFT nsSNVs tool updated to dbSNP 135
- Fixed strand issues for some dbSNP rs ids
- Reference allele predictions provided
- New SIFT frameshifting indel prediction tool
- Analysis of JCVI Aug 2011 databases available
- SIFT tool for nsSNVs in genome now includes RefSeq, UCSC, and CCDS annotations in addition to Ensemble
June 2011
- Made SIFT available on AWS cloud. Please see instructions.
- Restrict coding tool now accepts the following formats: PileUp, VCF4.0, MAQ, SOAP, GFF3, CASAVA, cg as well as SIFT' own comma-delimited format.
- Optimized SIFT Indel tool for speed.
- SIFT Indel tool provides option to check presence in 1000 genome.
- Upgraded database to dbSNP build 132
- Added HCB, JPT and YRI allele frequencies
- Included presence in 1000 Genomes (1000 Genome July 2010 data release)
- Fixed issues pertaining to inexact dbSNP matches. Previously, only checked coordinate positions. Now, also checking allele.
- Fixed issues pertaining to wrong coordinates in Y chromosome, data regenerated from using information from UCSC.