Max-Delbrück-Center for Molecular Medicine, Berlin Institute for Medical Systems Biology, Robert-Rössle-Straße 10, 13125 Berlin-Buch, Germany.
Semin Cell Dev Biol. 2012 Apr;23(2):206-12. doi: 10.1016/j.semcdb.2011.12.001. Epub 2011 Dec 27.
Protein-RNA interactions are emerging as an important functional element in the regulation of gene expression. Cross-linking of proteins to RNA by UV irradiation followed by immunoprecipitation (CLIP) has provided a crucial tool for research in this field. Initially, the bottleneck of the method was the relatively low number of identified RNA binding sites. It was only the arrival of next-generation sequencing that allowed a comprehensive and unbiased description of the cross-linked protein-RNA fragments. Here, we summarize recent progress in the study of protein-RNA interactions, as well as some of the important findings obtained using different CLIP approaches in cultured cells and organisms. These efforts allowed the identification of functional RNA-binding sites for a wide range of RNA-interacting proteins. Experimental and bioinformatic progress will further advance this dynamic area of research. The combination of high-resolution protein-RNA interaction maps with transcriptome-wide data describing the stability, modifications and structures of RNAs, in addition to protein expression profiling, will provide deeper insight into post-transcriptional and translational regulatory events and mechanisms.
蛋白质与 RNA 的相互作用正成为基因表达调控中的一个重要功能元件。紫外线照射后蛋白质与 RNA 的交联免疫沉淀（CLIP）为该领域的研究提供了一个关键工具。最初，该方法的瓶颈是鉴定到的 RNA 结合位点数量相对较少。只有下一代测序的出现，才使得对交联的蛋白-RNA 片段进行全面而无偏的描述成为可能。在这里，我们总结了近年来在研究蛋白质与 RNA 的相互作用方面的进展，以及使用不同 CLIP 方法在培养细胞和生物体内获得的一些重要发现。这些努力确定了一系列 RNA 相互作用蛋白的功能 RNA 结合位点。实验和生物信息学的进展将进一步推动这一充满活力的研究领域的发展。高分辨率的蛋白质-RNA 相互作用图谱与描述 RNA 稳定性、修饰和结构的全转录组数据，以及蛋白质表达谱的结合，将为深入了解转录后和翻译调控事件和机制提供更多的信息。
