Effects of GWAS-Associated Genetic Variants on lncRNAs within IBD and T1D Candidate Loci
Figure 3
Structure disruption of lncRNA NONHSAG044354-associated with BACH2 (implicated in both IBD and T1D) by GWAS SNPs rs3757247 and rs597325.
The structure-disruptive effects of SNPs rs3757247 (A) and rs597325 (B) located in lncRNA NONHSAG044354 associated with candidate gene BACH2. (a) UCSC genome browser view showing the location of the predicted local region disrupted by the SNP. The color of predicted local region (green in this case) is based on the RNAsnp p-value (0.129 and 0.120 for rs3757247 and rs597325 respectively). (b) Minimum free energy structures (MFE) of the global wild-type and mutant sequences displaying the secondary structure and the local region affected by the SNP position, colored green (wild-type) and red (mutant) (c) Dot plot representing the base pair probabilities of wild type and mutant RNA sequences corresponding to the predicted local region by RNAsnp. The upper and lower triangle of the matrix represents the base pair probabilities of wild-type (green) and mutant (red), respectively.