Consistency of HuR binding preferences with coCLIP under arsenite stress. (A) HuR peak proportions under mock and arsenite stress conditions for nuclear or cytoplasmic CLIP derived from classical fractionation or in situ labeling with coCLIP. (B) HuR peak proportions for ncRNAs as in A. (C) Venn diagrams depicting the overlap of peaks between fraction CLIP and coCLIP during mock and arsenite stress conditions for each compartment. (D–G) Scatterplots comparing nuclear to cytoplasmic ratios of HuR mRNA binding in coCLIP and fractionation CLIP during mock (D) and arsenite (E) stress conditions. Side histograms depict the relative density of each feature and are scaled for comparison within each feature and across mock and arsenite stress. (F,G) Similar scatterplots as in D,E for HuR binding on ncRNAs during mock (F) or arsenite (G) stress conditions. See also Supplemental Figure S4.
