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. 2020 Jun 12;21:139. doi: 10.1186/s13059-020-02039-7

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© The Author(s) 2020

Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons licence, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons licence, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons licence and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this licence, visit http://creativecommons.org/licenses/by/4.0/. The Creative Commons Public Domain Dedication waiver (http://creativecommons.org/publicdomain/zero/1.0/) applies to the data made available in this article, unless otherwise stated in a credit line to the data.

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Fig. 5 — Summary of global positioning preferences across 76 RBPs and event-specific sequence preferences of RBPs. a The number of ATR event types that each RBP regulates, summarized from SURF (analysis module 2) results of 76 RBPs. b Aggregation of global positioning association results across each ATR event type. Column strips cluster location features into three groups: upstream, body, and downstream. The darker color indicates higher abundance of RBPs on the location feature (i.e., there are more RBPs for which the specific protein binding associates with differential ATR). Location features with a significant relative abundance at the significance level of 0.05 are marked with an asterisk. c Hierarchical clustering of motifs from de novo sequence analysis of location features for 82 RBP-event type combinations. Each tip point corresponds to the top motif found in SURF-identified location features that associated with a specific combination of RBP and ATR event. Going from the outer tips towards the root, the motifs that merge earlier have higher similarity. d Sequence motif identified in 394 SURF-inferred location features for HNRNPC in TAP (E value 3.0×10⁻⁶⁸). The total height of the letters depicts the information content of the position, in bits. e Sequence motif identified in 306 SURF-inferred location features for HNRNPC in SE (E-value 3.2×10⁻¹⁵²)