RNA-binding proteins (RBPs) play crucial roles in almost all aspects of cellular biology. RBP binding at specific target sites impacts expression of functionally coordinated sets of mRNAs and involves combinatorial and dynamic interactions with other RBPs. The complexity and principles of these regulatory networks are only beginning to be understood. In recent years, transcriptome-wide experimental and computational methods to study RBPs and their interactions with RNA provided new insights into their function. Here, we review the approaches used in examining RBPs and their networks and the concepts that have been developed. We emphasize studies focusing on RBP–RNA interactions and higher-order RBP coregulation and describe approaches that integrate multiple types of transcriptome-wide data to form a global picture of these regulatory pathways.

RNA结合蛋白（RBP）在细胞生物学的几乎所有方面都起着至关重要的作用。RBP在特定靶位点的结合会影响功能协调的mRNA的表达，并涉及与其他RBP的组合和动态相互作用。这些监管网络的复杂性和原理才刚刚开始被理解。近年来，研究RBP及其与RNA相互作用的转录组范围的实验和计算方法为其功能提供了新见解。在这里，我们回顾了用于检查RBP及其网络的方法以及已开发的概念。我们强调针对RBP-RNA相互作用和高阶RBP调控的研究，并描述整合多种类型的转录组数据的方法，以形成这些调控途径的全球图景。