Fig. 2: Characterisation of A3B-mediated DVRs. | Oncogene

Fig. 2: Characterisation of A3B-mediated DVRs.

From: Characterisation of APOBEC3B-Mediated RNA editing in breast cancer cells reveals regulatory roles of NEAT1 and MALAT1 lncRNAs

Fig. 2

A RNA folding minimum free energy predicted by RNAfold for A > G genomic DNA SNVs, known RNA A > I sites and A > G(I) DVRs identified in this study. B RNA folding minimum free energy predicted for C > T genomic DNA SNVs, known A3B-mediated genomic DNA C > U editing sites and C > U DVRs identified in this study. Random sampling was applied for SNVs from dbSNP database (n = 100,000) and A > I sites (n = 10,000) from REDIportal. C Fraction of indicated types of DVRs or control sites within loop structure predicted by RNAfold. For random control, n = 10,000 random sites with RNA-seq read depth of greater than 10 in T-47D transcriptome were sampled. Error bars denote SD. * denote p < 0.05 using Z-test. D Consensus sequence logo plots for sequences centred at editing sites were generated by WebLogo3.

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