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| Status |
Public on Apr 25, 2016 |
| Title |
Ultraefficient irCLIP platform for characterization of protein-RNA interactions |
| Organism |
Homo sapiens |
| Experiment type |
Other
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| Summary |
The complexity of transcriptome-wide protein-RNA interaction networks is incompletely understood. While emerging studies are greatly expanding the known universe of RNA-binding proteins, methods for the discovery and characterization of protein-RNA interactions remain resource intensive and technically challenging. Here we introduce an advanced UV-C crosslinking and immunoprecipitation platform, irCLIP, which provides an ultraefficient, fast, nonisotopic method for the detection of protein-RNA interactions using 100-fold less material than standard protocols.
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| Overall design |
Nonisotopic interrogation of in vivo RNA-protein interactions
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| Contributor(s) |
Zarnegar BJ, Flynn RA, Shen Y, Do BT, Chang HY, Khavari PA |
| Citation(s) |
27111506 |
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| Submission date |
Mar 02, 2016 |
| Last update date |
May 15, 2019 |
| Contact name |
Ryan Alexander Flynn |
| E-mail(s) |
raflynn@stanford.edu
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| Organization name |
Stanford University
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| Street address |
380 Roth Way, Room 265
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| City |
Stanford |
| State/province |
CA |
| ZIP/Postal code |
94305 |
| Country |
USA |
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| Platforms (1) |
| GPL18573 |
Illumina NextSeq 500 (Homo sapiens) |
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| Samples (4)
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| GSM2078373 |
hnRNP-C irCLIP - 20K cells - Rep1 and 2 |
| GSM2078374 |
hnRNP-C irCLIP - 100K cells - Rep1 and 2 |
| GSM2078375 |
HuR irCLIP - 100K cells - Rep1 and 2 |
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| Relations |
| BioProject |
PRJNA314085 |
| SRA |
SRP071075 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE78832_RAW.tar |
9.1 Mb |
(http)(custom) |
TAR (of BW) |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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