HITS-CLIP: panoramic views of protein-RNA regulation in living cells

Wiley Interdiscip Rev RNA. 2010 Sep-Oct;1(2):266-86. doi: 10.1002/wrna.31. Epub 2010 Aug 2.


The study of gene regulation in cells has recently begun to shift from a period dominated by the study of transcription factor-DNA interactions to a new focus on RNA regulation. This was sparked by the still-emerging recognition of the central role for RNA in cellular complexity emanating from the RNA World hypothesis, and has been facilitated by technologic advances, in particular high throughput RNA sequencing and crosslinking methods (RNA-Seq, CLIP, and HITS-CLIP). This study will place these advances in context, and, focusing on CLIP, will explain the method, what it can be used for, and how to approach using it. Examples of the successes, limitations, and future of the technique will be discussed.

Publication types

  • Evaluation Study
  • Research Support, Non-U.S. Gov't
  • Review

MeSH terms

  • Animals
  • Biochemistry / methods
  • Cell Tracking / methods
  • Cells / metabolism*
  • Chromosome Mapping
  • High-Throughput Nucleotide Sequencing / methods*
  • Humans
  • Immunoprecipitation / methods
  • Models, Biological
  • RNA / analysis
  • RNA / chemistry
  • RNA / metabolism*
  • RNA-Binding Proteins / analysis
  • RNA-Binding Proteins / metabolism*
  • Video Recording


  • RNA-Binding Proteins
  • RNA