|
| Status |
Public on Nov 04, 2009 |
| Title |
Wild type vs. Nova2 KO mouse: Exon array data |
| Organism |
Mus musculus |
| Experiment type |
Expression profiling by array
|
| Summary |
To assess the requirement of Nova2 for alternative processing of RNA in mouse brain. Protein-RNA interactions play critical roles in all aspects of gene expression. 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 Nova2 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’ UTRs, 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.
|
| |
|
| Overall design |
RNA from the cortex of 4 wild type and 4 Nova2 KO P10 CD1 mice. One array per biological replicate.
|
| |
|
| Contributor(s) |
Licatalosi DD, Darnell RB |
| Citation(s) |
18978773 |
| |
| Submission date |
Jul 28, 2009 |
| Last update date |
Mar 03, 2017 |
| Contact name |
Donny D Licatalosi |
| Organization name |
Case Western Reserve University
|
| Lab |
Licatalosi
|
| Street address |
10900 Euclid Ave
|
| City |
Cleveland |
| State/province |
OH |
| ZIP/Postal code |
44106 |
| Country |
USA |
| |
|
| Platforms (1) |
| GPL6193 |
[MoEx-1_0-st] Affymetrix Mouse Exon 1.0 ST Array [probe set (exon) version] |
|
| Samples (8)
|
|
| This SubSeries is part of SuperSeries: |
| GSE12965 |
Wild type vs. Nova2 KO mouse P10 cortex RNA |
|
| Relations |
| BioProject |
PRJNA119105 |
Less...
More...