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Bioinformatics - miRdSNP

MiRdSNP

Screenshot of detailed options available for viewing in miRdSNP

Published June 19, 2014

Database explores effect of SNPs on micro-RNA binding in relation to human disease

“miRdSNP aims to enable researchers to further explore the effects of SNPs on micro-RNA binding in relation to human diseases”

miRdSNP is a custom database developed in house at The Center for Computational Research that includes data from computationally predicted micro-RNA target sites and manually curated disease-associated SNPs (dSNPs).  The current release includes 786 dSNP-disease associations for 630 unique dSNPs and 204 disease types.  A robust web interface is also provided that allows users to perform proximity searches between miRNA target sites and dSNPs by gene name, miRbase ID, target prediction algorithm, disease, and any nucleotide distance between dSNPs and miRNA target sites.  The web interface displays detailed sequence views showing the relationship between dSNPs, miRNA target sites, and SNPs.  An interactive visualization tool shows the chromosomal distribution of dSNPs, miRNA target sites (from TargetScan), and SNPs.

Micro-RNAs are predicted to regulate up to 30% of all genes and are known to target sequences in the 3' untranslated region (3'UTR).  Polymorphisms in the 3'UTR have been associated with differential gene expression and interfere with micro-RNA function.  miRdSNP aims to enable researchers to further explore the effects of SNPs on micro-RNA binding in relation to human diseases by providing a database of manually curated disease-associated SNPs from the available literature.  Additionally, miRdSNP provides a comprehensive and searchable index of nucleotide distances between miRNA binding sites and SNPs.

miRdSNP is freely available at http://mirdsnp.ccr.buffalo.edu/

PI: Dr. Zihua Hu, CCR

Database & Web Programmer: Andrew E. Bruno, CCR