CLIP and complementary methods
نویسندگان
چکیده
RNA molecules start assembling into ribonucleoprotein (RNP) complexes during transcription. Dynamic RNP assembly, largely directed by cis-acting elements on the RNA, coordinates all processes in which is involved. To identify sites bound a specific RNA-binding protein endogenous RNAs, cross-linking and immunoprecipitation (CLIP) complementary, proximity-based methods have been developed. In this Primer, we discuss main variants of these protein-centric strategies for their optimization quality assessment, as well RNA-centric that partners RNA. We summarize challenges computational CLIP data analysis, how to handle various sources background functionally relevant binding regions. outline applications available databases sharing. prospect integrating obtained with complementary gain comprehensive view assembly remodelling, unravel spatial temporal dynamics RNPs cell types subcellular compartments understand defects can lead disease. Finally, present open questions field give directions further development applications. Ule colleagues characterizing proteins explore analysis workflows, best practices techniques. The Primer also considers RNAs discusses from be integrated workflows.
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ژورنال
عنوان ژورنال: Nature Reviews Methods Primers
سال: 2021
ISSN: ['2662-8449']
DOI: https://doi.org/10.1038/s43586-021-00018-1