|
| Status |
Public on May 25, 2013 |
| Title |
MicroRNA Target Site Identification by Integrating Sequence and Binding Information |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by high throughput sequencing
|
| Summary |
High-throughput sequencing has opened numerous possibilities for the identification of regulatory RNA-binding events. Cross-linking and immunoprecipitation of Argonaute protein members can pinpoint microRNA target sites within tens of bases, but leaves the identity of the microRNA unresolved. A flexible computational framework that integrates sequence with cross-linking features reliably identifies the microRNA family involved in each binding event, considerably outperforms sequence-only approaches, and quantifies the prevalence of noncanonical binding modes.
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| |
|
| Overall design |
Ago2 (Argonaute 2) PAR-CLIP and RNA deep sequencing of Epstein-Barr virus B95.8-infected Lymphoblastoid Cell Lines (LCLs)
|
| |
|
| Contributor(s) |
Mukherjee N, Skalsky RL, Cullen BR, Ohler U |
| Citation(s) |
23708386 |
| Submission date |
May 03, 2013 |
| Last update date |
May 15, 2019 |
| Contact name |
Neelanjan Mukherjee |
| E-mail(s) |
neelanjanmukherjee@gmail.com
|
| Phone |
3094061817
|
| Organization name |
MDC Berlin
|
| Department |
BIMSM
|
| Lab |
Uwe Ohler
|
| Street address |
Robert-Rössle-Straße 10
|
| City |
Berlin |
| State/province |
---- |
| ZIP/Postal code |
13125 |
| Country |
Germany |
| |
|
| Platforms (2) |
| GPL10999 |
Illumina Genome Analyzer IIx (Homo sapiens) |
| GPL11154 |
Illumina HiSeq 2000 (Homo sapiens) |
|
| Samples (6)
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|
| Relations |
| BioProject |
PRJNA201234 |
| SRA |
SRP022052 |
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