Post-transcriptional regulatory patterns revealed by protein-RNA interactions

被引:21
作者
Zanzoni, Andreas [1 ]
Spinelli, Lionel [1 ]
Ribeiro, Diogo M. [1 ]
Tartaglia, Gian Gaetano [2 ,3 ,4 ]
Brun, Christine [1 ,5 ]
机构
[1] Aix Marseille Univ, INSERM, TAGC, UMR S1090, Marseille, France
[2] Barcelona Inst Sci & Technol, CRG, Dr Aiguader 88, Barcelona 08003, Spain
[3] Univ Pompeu Fabra, Barcelona 08003, Spain
[4] ICREA, 23 Passeig Lluis Co, Barcelona 08010, Spain
[5] CNRS, Marseille, France
基金
欧洲研究理事会;
关键词
BINDING PROTEINS; GENE-EXPRESSION; WEB SERVER; POSTTRANSLATIONAL MODIFICATIONS; COMPREHENSIVE RESOURCE; MESSENGER-RNAS; CHROMATIN; REGULONS; COMPLEX; INTEGRATION;
D O I
10.1038/s41598-019-40939-2
中图分类号
O [数理科学和化学]; P [天文学、地球科学]; Q [生物科学]; N [自然科学总论];
学科分类号
07 ; 0710 ; 09 ;
摘要
The coordination of the synthesis of functionally-related proteins can be achieved at the post-transcriptional level by the action of common regulatory molecules, such as RNA-binding proteins (RBPs). Despite advances in the genome-wide identification of RBPs and their binding transcripts, the protein-RNA interaction space is still largely unexplored, thus hindering a broader understanding of the extent of the post-transcriptional regulation of related coding RNAs. Here, we propose a computational approach that combines protein-mRNA interaction networks and statistical analyses to provide an inferred regulatory landscape for more than 800 human RBPs and identify the cellular processes that can be regulated at the post-transcriptional level. We show that 10% of the tested sets of functionally-related mRNAs can be post-transcriptionally regulated. Moreover, we propose a classification of (i) the RBPs and (ii) the functionally-related mRNAs, based on their distinct behaviors in the functional landscape, hinting towards mechanistic regulatory hypotheses. In addition, we demonstrate the usefulness of the inferred functional landscape to investigate the cellular role of both well-characterized and novel RBPs in the context of human diseases.
引用
收藏
页数:13
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