|
| Status |
Public on May 21, 2010 |
| Title |
Transcriptome-wide identification of RNA-binding protein and microRNA target sites by PAR-CLIP: sequencing data |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by high throughput sequencing
|
| Summary |
We applied 4-thiouridine to cultured cells expressing the FLAG/HA-tagged RNA-binding proteins (RBPs) followed by UV 365 nm irradiation. The crosslinked RNA-protein complexes were isolated by immunoprecipitation, and the covalently bound RNA was partially digested with RNase T1 and radiolabeled. The radiolabeled RNPs were subsequenctly separated by SDS-PAGE, the crosslinked RNA segments recovered and converted into a cDNA library and sequenced.
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| |
|
| Overall design |
RBPs were UV-crosslinked to their RNA targets containing 4-thiouridine. The RNA segments were recovered after immunoprecipitation and seqeunced by Solexa.
|
| |
|
| Contributor(s) |
Hafner M |
| Citation(s) |
20371350 |
| Submission date |
May 19, 2010 |
| Last update date |
May 15, 2019 |
| Contact name |
Markus Hafner |
| E-mail(s) |
mhafner@rockefeller.edu
|
| Phone |
+1 212 327 7696
|
| Fax |
+1212 327 7652
|
| Organization name |
The Rockefeller University
|
| Department |
Laboratory of RNA Molecular Biology
|
| Lab |
Tuschl lab
|
| Street address |
1230 York Ave, Box 186
|
| City |
New York |
| State/province |
NY |
| ZIP/Postal code |
10065 |
| Country |
USA |
| |
|
| Platforms (1) |
| GPL9052 |
Illumina Genome Analyzer (Homo sapiens) |
|
| Samples (15)
|
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| This SubSeries is part of SuperSeries: |
| GSE21578 |
Transcriptome-wide identification of RNA-binding protein and microRNA target sites by PAR-CLIP |
|
| Relations |
| SRA |
SRP002487 |
| BioProject |
PRJNA129395 |
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