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Fig. 4 | BMC Biology

Fig. 4

From: Characterizing RNA stability genome-wide through combined analysis of PRO-seq and RNA-seq data

Fig. 4

DNA-sequence, methylation, and RNA-binding-protein correlates of RNA stability near the TSS. a Distribution of G+C content (y-axis) for the 20% most (red) and least (blue) stable TUs, according to our estimated half-life (T1/2PR), in enhancer RNAs (eRNA, stable: n = 510; unstable: n = 510), lincRNAs (stable: n = 91; unstable: n = 198), and mRNAs (stable: n = 919; unstable: n = 2146). b, c Two of the most significantly enriched DNA sequence motifs in stable (b) and unstable (c) mRNAs. d Signal for MeDIP-measured DNA methylation for low-, medium-, and high-stability mRNAs (see the “Methods” section) as a function of distance from the TSS. Solid line represents mean signal and lighter shading represents standard error and 95% confidence interval. e Distribution of sequence stability index (SSI) based on U1 and polyadenylation sites (see the “Methods” section) for eRNAs (n = 1020), lincRNAs (n = 989), and mRNAs (n = 10,728). Separate plots are shown for eRNAs with low (n = 510) and high (n = 510) CAGE support, suggesting low and high stability, respectively. Significance of comparisons in a and e (from Mann–Whitney U test): *p < 0.01; **p < 0.001; ***p < 0.0001; N.S., not significant

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