CLIP Seq

CLIP-Seq ( cross-linking immunoprecipitation-high-throughput sequencing , 'cross-linking and immunoprecipitation with sequencing in high-throughput' ) is a method of biochemistry for the investigation of RNA-protein and RNA-RNA interactions. Sometimes the CLIP-Seq is also referred to as the HITS-CLIP .

principle

The CLIP-Seq consists of a combination of a UV - cross-linking , an immunoprecipitation , a partial nucleolysis and a DNA sequencing in high throughput .

The CLIP-Seq has similarities to the PAR-CLIP , the iCLIP , the RIP-Chip (without cross-linking and with a microarray instead of DNA sequencing), the SELEX , the ChIP-Seq (for investigating DNA- protein interactions) and the ChIP-on-Chip (for studying DNA-protein interactions with a microarray instead of DNA sequencing).

Web links

• starBase database : an online database for RNA-protein interactions. Retrieved June 20, 2013.
• BIMSB doRiNA database : an online database for RNA-protein interactions. Retrieved June 20, 2013.

Individual evidence

1. ↑ Sanford JR, Wang X, Mort M, et al. : Splicing factor SFRS1 recognizes a functionally diverse landscape of RNA transcripts . In: Genome Res. . 19, No. 3, March 2009, pp. 381-94. doi : 10.1101 / gr.082503.108 . PMID 19116412 . PMC 2661799 (free full text).
2. ↑ Darnell RB: HITS-CLIP: panoramic views of protein-RNA regulation in living cells . In: Wiley Interdiscip Rev RNA. . 1, 2010, pp. 266-86. doi : 10.1002 / wrna.31 .
3. ↑ Licatalosi DD, Mele A, Fak JJ, et al. : HITS-CLIP yields genome-wide insights into brain alternative RNA processing . In: Nature . 456, No. 7221, November 2008, pp. 464-9. doi : 10.1038 / nature07488 . PMID 18978773 . PMC 2597294 (free full text).
4. ↑ Ingolia NT, Ghaemmaghami S, Newman JR, Weissman JS: Genome-wide analysis in vivo of translation with nucleotide resolution using ribosome profiling . In: Science . 324, No. 5924, April 2009, pp. 218-23. doi : 10.1126 / science.1168978 . PMID 19213877 . PMC 2746483 (free full text).