SNPnexus protocols

SNPnexus specifications

Information


Unique identifier OMICS_00188
Name SNPnexus
Interface Web user interface
Restrictions to use None
Computer skills Basic
Stability Stable
Maintained Yes

Taxon


  • Primates
    • Homo sapiens

Maintainer


  • person_outline Claude Chelala <>

Additional information


http://snp-nexus.org/guide.html

Publications for SNPnexus

SNPnexus IN pipelines

 (3)
2016
PMCID: 5037665
PMID: 27589735
DOI: 10.3390/ijms17091385

[…] tested with hapmap; (3) functional consequences; and (4) few or no studies on the role of the snp in mitral valve calcification. the national center for biotechnology information dbsnp, snpinfo, and snpnexus databases were utilized for the snp selection [20,21]. in total, we selected 50 snps within 24 genes (table 5)., the procedures of dna extraction and genotyping were the same as previously […]

2015
PMCID: 4350913
PMID: 25745553
DOI: 10.1186/s13229-015-0009-0

[…] the functional roles of genetic variants; the genetic association database [42] gives information about genetic studies which previously identified association between the snps we analysed and asc; snpnexus [43] is an online database which was used to define regulatory elements and conserved regions; the university of california santa cruz (ucsc) genome browser [44] permits to validate […]

2013
PMCID: 3558451
PMID: 23302499
DOI: 10.1186/1479-5876-11-12

[…] by race/ethnicity. pairwise ld values (r2) and ld plots were generated by race/ethnic group using haploview [17]. we predicted in silico functional consequences of the ivs5-13insc variant using snpnexus [18] and esefinder 3.0 [19]., we identified 446 incident type 2 diabetes cases over a mean 2.8 years of follow-up and genotyped an additional 1329 prevalent type 2 diabetes cases […]

SNPnexus institution(s)
Bioinformatics Unit, Centre for Molecular Oncology, Barts Cancer Institute, Queen Mary University of London, London, UK; Centre for Molecular Oncology, Barts Cancer Institute, Queen Mary University of London, London, UK; Centre for Computational Biology, Life Sciences Initiative, Queen Mary University of London, London, UK
SNPnexus funding source(s)
Supported by Barts and The London Charity Strategic Research Large Project Grant [MGU0344] and by Pancreatic Cancer Research Fund Tissue Bank Grant.

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