MicroRNAs (miRs) are a large family of short 20-25-nt single-stranded noncoding RNAs recently identified in many eukaryotes, from nematode to human, and believed to play important roles in gene regulation. Single nucleotide polymorphisms (SNPs) are the most common genetic variants in the human genome, and serves as a valuable tool for localizing and identifying disease susceptibility genes.

SNP Database for micorRNA-mRNA Interaction (miR-SNPDB) is a novel database for SNPs that may affect the interaction between miRNAs and their targets genes based on the SNP's ability to alter the Minimum Free Energy (MFE) of the miR-mRNA duplex, thereby either creating or destroying target sites according as the MFE decreases or increases. miR-SNPDB integrates information on such SNP's, miR's, and the target genes. In the current version of miR-SNPDB (1.0), we have collected the data based on the analysis of 12,297,237 SNPs from dbSNP (126) database. 2% of these lie inside the human trascripts. Of these SNPs, 40% are inside the 3' UTR region, 13% are inside the 5' UTR region, and the rest overlap with gene exons.

miR-SNPDB serves as a portal for genome-wide miRNA-mRNA interaction analysis and can be searched by using dbSNP ID (e.g. rs36017265), Gene Symbol (e.g. Bax), Gene ID (e.g. 581) and miRNA ID (e.g. hsa-miR-623).