|
| Status |
Public on Jun 20, 2015 |
| Title |
Nuclear HNRNPA2B1 HITS-CLIP and RNA-seq |
| Organism |
Homo sapiens |
| Experiment type |
Other
Expression profiling by high throughput sequencing
|
| Summary |
To identify HNRNPA2B1 binding sites on endogenous nuclear RNAs, we performed HITS-CLIP for endogenous HNRNPA2B1 and RNA-seq to analyze the nuclear RNA under either METTL3 or HNRNPA2B1 depletion.
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| |
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| Overall design |
Wild type MDA-MB-231 cells were subjected to the HITS-CLIP procedure on immunoprecipitated HNRNPA2B1 associated RNA obtained from the nuclear fraction (Licatalosi D, et al. 2008, Nature 456:464-U22). For RNA-seq, nuclear RNA was extracted from MDA-MB-231 or Hela cells knocked down for METTL3 or HNRNPA2B1.
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| |
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| Contributor(s) |
Alarcon CR, Goodarzi H, Lee H, Liu X, Tavazoie S, Tavazoie SF |
| Citation(s) |
26321680 |
| |
| Submission date |
Jun 19, 2015 |
| Last update date |
May 15, 2019 |
| Contact name |
Claudio Alarcon |
| E-mail(s) |
calarcon@rockefeller.edu
|
| Organization name |
The Rockefeller University
|
| Department |
Systems Cancer Biology
|
| Lab |
Sohail Tavazoie
|
| Street address |
1230 York Ave
|
| City |
New York |
| State/province |
New York |
| ZIP/Postal code |
10065 |
| Country |
USA |
| |
|
| Platforms (1) |
| GPL11154 |
Illumina HiSeq 2000 (Homo sapiens) |
|
| Samples (14)
|
| GSM1716865 |
MDA-MB-231 cells control knockdown_RNA-seq_rep2 |
| GSM1716866 |
MDA-MB-231 cells METTL3 knockdown_RNA-seq_rep1 |
| GSM1716867 |
MDA-MB-231 cells METTL3 knockdown_RNA-seq_rep2 |
| GSM1716868 |
MDA-MB-231 cells HNRNPA2B1 knockdown_RNA-seq_rep1 |
| GSM1716869 |
MDA-MB-231 cells HNRNPA2B1 knockdown_RNA-seq_rep2 |
| GSM1716870 |
Hela cells control knockdown_RNA-seq_rep1 |
| GSM1716871 |
Hela cells control knockdown_RNA-seq_rep2 |
| GSM1716872 |
Hela cells METTL3 knockdown_RNA-seq_rep1 |
| GSM1716873 |
Hela cells METTL3 knockdown_RNA-seq_rep2 |
| GSM1716874 |
Hela cells HNRNPA2B1 knockdown_RNA-seq_rep1 |
| GSM1716875 |
Hela cells HNRNPA2B1 knockdown_RNA-seq_rep2 |
|
| Relations |
| BioProject |
PRJNA287552 |
| SRA |
SRP059692 |
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