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SNiPhunter: A SNP-Based Search Engine

South African National Bioinformatics Institute, University of the Western Cape, Bellville 7535, South Africa
Author to whom correspondence should be addressed.
Academic Editor: Vanathi Gopalakrishnan
Received: 10 June 2016 / Revised: 30 August 2016 / Accepted: 25 September 2016 / Published: 29 September 2016
(This article belongs to the Special Issue Biomedical Informatics)
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Procuring biomedical literature is a time-consuming process. The genomic sciences software solution described here indexes literature from Pubmed Central’s open access initiative, and makes it available as a web application and through an application programming interface (API). The purpose of this tertiary data artifact—called SNiPhunter—is to assist researchers in finding articles relevant to a reference single nucleotide polymorphism (SNP) identifier of interest. A novel feature of this NoSQL (not only structured query language) database search engine is that it returns results to the user ordered according to the amount of times a refSNP has appeared in an article, thereby allowing the user to make a quantitative estimate as to the relevance of an article. Queries can also be launched using author-defined keywords. Additional features include a variant call format (VCF) file parser and a multiple query file upload service. Software implementation in this project relied on Python and the NodeJS interpreter, as well as third party libraries retrieved from Github. View Full-Text
Keywords: search engine; reference SNP identifier; PMC-OAI; NoSQL; VCF search engine; reference SNP identifier; PMC-OAI; NoSQL; VCF

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This is an open access article distributed under the Creative Commons Attribution License which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited. (CC BY 4.0).

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Veldsman, W.P.; Christoffels, A. SNiPhunter: A SNP-Based Search Engine. Data 2016, 1, 17.

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