RBP crosslinking sites share global structural characteristics. (a) Mean unpaired probability scores for Ts ranked and binned by CLSs. Control lines represent mean unpaired probability of randomly ranked and binned Ts with no CLS. Pearson correlation coefficients: 5' UTR R2 = 0.933, CDS R2 = 0.976, 3' UTR R2 = 0.986. (b) Crosslinking site pairedness visualized as a heatmap. Columns represent nucleotide positions within crosslinking sites. Rows represent average unpaired probability for 100 crosslinking sites in that bin. Select secondary structure predictions from low, middle, and high CLS regions are indicated with the crosslinking site colored. (c) Percentage of Ts ranked and binned by CLSs in conserved secondary structural elements as defined by RNAz [43,44]. Control lines represent percentage of randomly ranked and binned Ts with no CLS in conserved secondary structural elements.
Freeberg et al. Genome Biology 2013 14:R13 doi:10.1186/gb-2013-14-2-r13