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| Status |
Public on Sep 15, 2014 |
| Title |
Transcriptome and transposable element dynamics during PIWI regulation in Drosophila ovarian cell cultures |
| Organism |
Drosophila melanogaster |
| Experiment type |
Expression profiling by high throughput sequencing
Non-coding RNA profiling by high throughput sequencing
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| Summary |
This study examines the regulatory capacity of the Piwi protein in the Drosophila OSS cell. Piwi CLIP-Seq, mRNA-Seq and nascent RNAseq datasets were integrated to determine how Piwi proteins where using piRNAs and binding interactions to regulate the expression of transcripts. We also sequenced the genomes of various OSS cell lines.
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| Overall design |
We first performed several replicates of a Piw CLIP-Seq experiment to isolate RNA fragments as CLIP-tags to discover which transcripts are preferentially bound by the Piwi protein. Then we performed several types of mRNA expression profiling experiments using several forms of mRNA-Seq library construction formats. Finally, we sequenced the genomes from various OSS cell lines.
The genomic sequencing component of the study is represented by BioProject PRJNA240323. The genomic sequencing raw data have been deposited at SRA (SRP039565).
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| Contributor(s) |
Sytnikova Y, Chirn G, Lau N, Rahman R |
| Citation(s) |
25267525 |
| Submission date |
Mar 12, 2013 |
| Last update date |
May 15, 2019 |
| Contact name |
NELSON LAU |
| E-mail(s) |
nclau@bu.edu
|
| Organization name |
Boston University School of Medicine
|
| Department |
Biochemistry
|
| Street address |
72 E Concord St K219, Dept of Biochemistry
|
| City |
BOSTON |
| State/province |
MA |
| ZIP/Postal code |
02118 |
| Country |
USA |
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| Platforms (1) |
| GPL13304 |
Illumina HiSeq 2000 (Drosophila melanogaster) |
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| Samples (21)
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| Relations |
| BioProject |
PRJNA192902 |
| SRA |
SRP019189 |
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