Evidence map›Paper›PMID 22689647›Full record

ArticleNucleic acids research2012

SIFT web server: predicting effects of amino acid substitutions on proteins.

Ngak-Leng Sim, Prateek Kumar, Jing Hu, Steven Henikoff, Georg Schneider, Pauline C Ng

Open access · goldAbstract read
In one paragraph

Article in Nucleic acids research, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 1,425 papers, 3 of them syntheses that pooled it.

0numbers the graph read from it
0cells of the map it votes in
1,425citing papers in PubMed, 3 pooled it
37.8field-weighted citation impact, top 1% of its field
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

1,425 citing papers in PubMed, 3 syntheses or guidelines pooled it, 2,439 citations in OpenAlex.

  1. Pooled it
  2. Pooled it
  3. Guideline
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1,365 more citing papers are in PubMed but not listed here.

4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

6 authors at 5 institutions in 3 countries.

Ngak-Leng SimComputational and Systems Biology, Genome Institute of Singapore, Singapore.
Prateek Kumar
Jing Hu
Steven Henikoff
Georg Schneider
Pauline C Ng
J. Craig Venter Institute · USBioinformatics Institute · SGFranklin & Marshall College · USGenome Institute of Singapore · SGHutchinson (United Kingdom) · GB

Funding

Genome-wide prediction and analysis of coding variantsR01HG004701 · NHGRI · J. CRAIG VENTER INSTITUTE, INC. · PI CHAN, AGNES · 2008 to 2011
$1.2M
Maintenance of blocks-based tools for functional genomicR01GM068488 · NIGMS · FRED HUTCHINSON CANCER RESEARCH CENTER · PI HENIKOFF, STEVEN · 2003 to 2006
$1.0M
NHGRI NIH HHS R01 HG004701NIGMS NIH HHS R01 GM068488
6 · The paper itself

Abstract

The Sorting Intolerant from Tolerant (SIFT) algorithm predicts the effect of coding variants on protein function. It was first introduced in 2001, with a corresponding website that provides users with predictions on their variants. Since its release, SIFT has become one of the standard tools for characterizing missense variation. We have updated SIFT's genome-wide prediction tool since our last publication in 2009, and added new features to the insertion/deletion (indel) tool. We also show accuracy metrics on independent data sets. The original developers have hosted the SIFT web server at FHCRC, JCVI and the web server is currently located at BII. The URL is http://sift-dna.org (24 May 2012, date last accessed).

Indexed as

Amino Acid SubstitutionSoftwareAlgorithmsGenetic VariationHumansINDEL MutationInternetProteinsSequence Analysis, ProteinProteins

Identifiers

PMID22689647
PMCPMC3394338
OpenAlexW2137886330

What OpenQuestion holds

Textmetadata
LicenceCC BY-NC
Read underepoch 390

Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.