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| Status |
Public on May 21, 2013 |
| Title |
Enrichment of processed pseudogene transcripts in L1-ribonucleoprotein particles |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by high throughput sequencing
Other
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| Summary |
We explored the RNA binding properties of LINE-1 ORF1p, both free and in the L1 RNP, using a recently developed photoactivatable-ribonucleoside-enhanced crosslinking and immunoprecipitation technique (PAR-CLIP) to comprehensively identify ORF1p binding sites in the transcriptome of human cells (HEK293T). Our results show that ORF1p binds to a wide range of cellular mRNAs, with an enrichment for binding at the 3’ UTR. Our data also show that ORF1p binds very strongly with retrotransposable RNA, i.e., L1, Alu and SVA.
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| Overall design |
PAR-CLIP analysis of L1 RNPs and free ORF1p RNA binding profiles, comparison to HuR RNA binding profile
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| Contributor(s) |
Mandal PK, Ewing AD, Hancks DC, Kazazian HH |
| Citation(s) |
23696454 |
| Submission date |
Jan 28, 2013 |
| Last update date |
May 15, 2019 |
| Contact name |
Adam D Ewing |
| E-mail(s) |
adam.ewing@gmail.com
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| Organization name |
Johns Hopkins University
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| Department |
Genetic Medicine
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| Lab |
Kazazian
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| Street address |
733 N. Broadway, MRB 439
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| City |
Baltimore |
| State/province |
MD |
| ZIP/Postal code |
21205 |
| Country |
USA |
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| Platforms (1) |
| GPL11154 |
Illumina HiSeq 2000 (Homo sapiens) |
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| Samples (5)
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| Relations |
| BioProject |
PRJNA187456 |
| SRA |
SRP018242 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE43801_RAW.tar |
1.3 Gb |
(http)(custom) |
TAR (of BW) |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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