| First Author | Licatalosi DD | Year | 2008 |
| Journal | Nature | Volume | 456 |
| Issue | 7221 | Pages | 464-9 |
| PubMed ID | 18978773 | Mgi Jnum | J:143231 |
| Mgi Id | MGI:3823192 | Doi | 10.1038/nature07488 |
| Citation | Licatalosi DD, et al. (2008) HITS-CLIP yields genome-wide insights into brain alternative RNA processing. Nature 456(7221):464-9 |
| abstractText | Protein-RNA interactions have critical roles in all aspects of gene expression. However, applying biochemical methods to understand such interactions in living tissues has been challenging. Here we develop a genome-wide means of mapping protein-RNA binding sites in vivo, by high-throughput sequencing of RNA isolated by crosslinking immunoprecipitation (HITS-CLIP). HITS-CLIP analysis of the neuron-specific splicing factor Nova revealed extremely reproducible RNA-binding maps in multiple mouse brains. These maps provide genome-wide in vivo biochemical footprints confirming the previous prediction that the position of Nova binding determines the outcome of alternative splicing; moreover, they are sufficiently powerful to predict Nova action de novo. HITS-CLIP revealed a large number of Nova-RNA interactions in 3' untranslated regions, leading to the discovery that Nova regulates alternative polyadenylation in the brain. HITS-CLIP, therefore, provides a robust, unbiased means to identify functional protein-RNA interactions in vivo. |
