dbSMR: a novel resource of genome-wide SNPs affecting microRNA mediated regulation

BMC Bioinformatics

Table 1 Overview of predicted effect of SNPs on miRNA target binding

Intramolecular Structure at miRNA binding region	Category	DSNP	TSNP	USNP	TOTAL
Significant Change	Loss	139	68	108	315
Significant Change	Gain	62	55	90	207
Moderate Change	Loss	1230	638	1215	3083
Moderate Change	Gain	1187	726	1147	3060
No Change	-	15573	1396	13968	30937
Total	-	18191	2883	16528	37602

The table gives the number of cases where a SNP is present either at the miRNA binding site (TSNP), upstream (USNP) or downstream (DSNP) of the miRNA binding site in the 3' UTR of the target transcript. The polymorphism may alter the intramolecular structure at the miRNA binding site either significantly (where 30% or more bases change their binding modalities to create a structured region closed (Gain) or a closed region getting opened up (Loss) resulting in gain or loss of the miRNA binding respectively), moderately if less than 30% bases alter their binding modalities or no effect on local intramolecular structure at all with the wild and polymorphic allele.

ISSN: 1471-2105