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SNPs3D specifications

Information


Unique identifier OMICS_00163
Name SNPs3D
Interface Web user interface
Restrictions to use None
Computer skills Basic
Stability Stable
Maintained Yes

Publication for SNPs3D

SNPs3D citations

 (48)
library_books

Genetic variants of ALDH2 rs671 and CYP2E1 rs2031920 contributed to risk of hepatocellular carcinoma susceptibility in a Chinese population

2018
PMCID: 5942392
PMID: 29765251
DOI: 10.2147/CMAR.S162105

[…] mal splicing changes are thought to contribute to cancer onset and progression.– These splicing changes induce a nonsynonymous mutation at the rs671 site. The protein coding tools PolyPhen, SIFT, and SNPs3D predicted probable damaging effects to the rs671 site. Therefore, we hypothesized that mutation to the rs671 site would induce changes in splicing and protein coding that may serve as potential […]

library_books

Spatial distribution of disease associated variants in three dimensional structures of protein complexes

2017
Oncogenesis
PMCID: 5623905
PMID: 28945216
DOI: 10.1038/oncsis.2017.79

[…] rying performance, with methods developed specifically for cancer not outperforming general-purpose tools. In an analysis of mutations in two somatic cancer samples, one of the general-purpose tools, SNPs3D, has predicted a majority of mutations to have a high functional impact. The same tool has been recently applied to interpret potential high-risk alleles in complex human disorders in loci iden […]

library_books

Interleukin 27 polymorphisms are associated with premature coronary artery disease and metabolic parameters in the Mexican population: the genetics of atherosclerotic disease (GEA) Mexican study

2017
Oncotarget
PMCID: 5610017
PMID: 28969085
DOI: 10.18632/oncotarget.16223

[…] e nucleotide polymorphisms (SNPs) was sought using bioinformatics tools including FastSNP, SplicePort: An Interactive Splice Site Analysis Tool (http://spliceport.cbcb.umd.edu/SplicingAnalyser.html), SNPs3D (http://www.snps3d.org/), PESX: Putative Exonic Splicing enharcers/Silencers (http://cubweb.biology.columbia.edu/pesx/), and ESEfinder release 3.0 (http://rulai.cshl.edu/cgi-bin/tools/ESE3/esef […]

call_split

Interleukin 35 Polymorphisms Are Associated with Decreased Risk of Premature Coronary Artery Disease, Metabolic Parameters, and IL 35 Levels: The Genetics of Atherosclerotic Disease (GEA) Study

2017
PMCID: 5340958
PMID: 28321150
DOI: 10.1155/2017/6012795
call_split See protocol

[…] An Interactive Splice Site Analysis Tool (http://spliceport.cbcb.umd.edu/SplicingAnalyser.html), ESE finder (http://rulai.cshl.edu/cgi-bin/tools/ESE3/esefinder.cgi), HSF (http://www.umd.be/HSF/), and SNPs3D (http://www.snps3d.org/). […]

library_books

Whole genome sequencing of an African American family highlights toll like receptor 6 variants in Kawasaki disease susceptibility

2017
PLoS One
PMCID: 5289527
PMID: 28151979
DOI: 10.1371/journal.pone.0170977

[…] gion predicted to be involved with ligand binding, which could influence ligand-binding affinity (). 3D proteomic structure modeling of the two non-synonymous mutations was computationally predicted (SNPs3D: http://www.snps3d.org/modules.php?name=SnpAnalysis&locus_ac=10333). p.Leu194Pro is predicted to be deleterious due to loss of an intramolecular hydrogen bond and p.Arg247Lys is a variant class […]

call_split

The rs7044343 Polymorphism of the Interleukin 33 Gene Is Associated with Decreased Risk of Developing Premature Coronary Artery Disease and Central Obesity, and Could Be Involved in Regulating the Production of IL 33

2017
PLoS One
PMCID: 5207498
PMID: 28045954
DOI: 10.1371/journal.pone.0168828
call_split See protocol

[…] Interactive Splice Site Analysis Tool (http://www.spliceport.cs.umd.edu/SplicingAnalyser2.html), ESE finder (http://rulai.cshl.edu/cgi-bin/tools/ESE3/esefinder.cgi), HSF (http://www.umd.be/HSF/), and SNPs3D (http://www.snps3d.org/). […]

Citations

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SNPs3D institution(s)
Center for Advanced Research in Biotechnology, University of Maryland Biotechnology Institute, Chinakville, MD, USA
SNPs3D funding source(s)
This work was supported in part by NLM grant R01 LM07174.

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