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. 2018 Aug 1;32(15-16):1060–1074. doi: 10.1101/gad.316034.118

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© 2018 Lee et al.; Published by Cold Spring Harbor Laboratory Press

This article is distributed exclusively by Cold Spring Harbor Laboratory Press for the first six months after the full-issue publication date (see http://genesdev.cshlp.org/site/misc/terms.xhtml). After six months, it is available under a Creative Commons License (Attribution-NonCommercial 4.0 International), as described at http://creativecommons.org/licenses/by-nc/4.0/.

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Figure 3. — Nuclear eCLIP-seq (eCLIP combined with high-throughput sequencing) for hnRNPA1 and DDX5 reveals thousands of protein-binding sites on the human transcriptome. (A,B) Pie charts showing the differential distribution of hnRNPA1- and DDX5-binding sites within different categories of genomic regions. hnRNPA1 nuclear eCLIP generated 11,025 high-confidence clusters (FDR, P < 0.05) over 1338 targets. DDX5 nuclear eCLIP generated 2532 high-confidence clusters (FDR, P < 0.05) over 547 targets. k-mer enrichment motif analysis of the eCLIP clusters is shown for hnRNPA1 (C) and DDX5 (D). Motifs were generated by extracting k-mers from reads after comparing with control data sets with reads randomly distributed over the same genomic features.