Resolution:
standard / ## Figure 4.
Schematic representation of metrics used to compute pSDC (predicted Structural Disruption
Coefficients) based on RNA structure predictions for WT (black) and mutant (magenta).
The data here are for the WT, and hyperferritinemia cataract syndrome associated U22G
mutant of the FTL 5’ UTR. A.) SHAPE experimental data for the WT and U22G mutant UTRs
revealing a significant effect of the U22G mutation on the structure of the RNA. An
eSDC value of 2.3 is computed for this data. B.) sFold Minimum Free Energy (MFE) probability
of base-pairing for the WT (black) and U22G (magenta) containing sequence, one corresponds
to not-base-paired and zero paired. We see that the program correctly predicts changes
in the 40-60 range as measured by SHAPE. C.) Probability of base-pairing computed
as the sum of the rows or columns of the partition function [64]. In this case the partition function is computed using sFold Boltzmann suboptimal
sampling and computing the observed frequency of base-pairing [51]. D.) Z Centroid simplification of the partition function and probability of pairing
computed by summing the rows or column [51]. E.) Probability of pairing assessed as the cluster centroid structure of the most
populated cluster of suboptimal structures, in this case using sFold and k-means clustering
as previously described [51].
Ritz |