|
| Status |
Public on Nov 10, 2015 |
| Title |
Xenopus Piwi protein associated transcripts indicate regulation beyond transposons |
| Organisms |
Xenopus laevis; Xenopus tropicalis |
| Experiment type |
Expression profiling by high throughput sequencing
Other
Non-coding RNA profiling by high throughput sequencing
|
| Summary |
This study examines the population of transcripts associated with the Xenopus Piwi proteins, Xiwi and Xili, from X.laevis and X.tropicalis. RIP-seq, CLIP-seq, piRNA-seq, and mRNA-seq datasets were integrated to determine how the Xenopus Piwi proteins where using piRNAs and binding interactions to associate with transcripts in gonadal cells.
|
| |
|
| Overall design |
We 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 piRNAs from the OSS cells
|
| |
|
| Contributor(s) |
Toombs T, Sytnkova Y, Chirn G, Lau N, Blower M |
| Citation(s) |
28031481 |
| |
| Submission date |
Nov 12, 2014 |
| Last update date |
Jun 10, 2019 |
| Contact name |
NELSON C LAU |
| E-mail(s) |
nclau@bu.edu
|
| Organization name |
Boston University Chobanian & Avedisian School of Medicine
|
| Department |
Biochemistry and Cell Biology
|
| Street address |
72 E Concord St K219, Dept of Biochemistry
|
| City |
BOSTON |
| State/province |
MA |
| ZIP/Postal code |
02118 |
| Country |
USA |
| |
|
| Platforms (2) |
| GPL15472 |
Illumina HiSeq 2000 (Xenopus (Silurana) tropicalis) |
| GPL17682 |
Illumina HiSeq 2000 (Xenopus laevis) |
|
| Samples (11)
|
|
| Relations |
| BioProject |
PRJNA267016 |
| SRA |
SRP049739 |
Less...
More...