File S1 - A Model-Based Approach to Identify Binding Sites in CLIP-Seq Data

Supplementary data includes: Figures S1–S5, Table S1 and Text S1–S2. Table S1. The number of predicted binding sites per cluster for all CLIP clusters identified to have at least one reliable binding site in the AGO HITS-CLIP dataset. Figure S1. Distribution of tag counts and mutation ratios in each state. Figure S2. Tag pileup of a “flat” cluster from the AGO HITS-CLIP dataset. Figure S3. Target genes identified by MiClip, PARalyzer, wavClusteR and the ad hoc method in the EWSR1 experiment. Figure S4. Numbers of mutant genomic sites with the specified substitutions and in the two RSF intervals. Figure S5. The workflow of the MiClip Galaxy server. (PDF)