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| Status |
Public on Jun 29, 2016 |
| Title |
Genes identified by poly(A)+ transcriptome sequencing as overexpressed in trf5-Δ98-117 |
| Organism |
Saccharomyces cerevisiae |
| Experiment type |
Expression profiling by high throughput sequencing
|
| Summary |
Purpose: To study the effects of disrupting the Trf5-Mtr4 interaction
Methods: Analyzed TRF5 and trf5-Δ98-117 strains by transcriptome sequencing of poly(A)+ RNA
Results: The set of most significantly affected genes included 71 that were overexpressed in trf5-Δ98-117 and only 5 that were down-regulated.The set of 71 overexpressed genes was predominated by known TRAMP substrates
Conclusions: Disruption of the Trf5-Mtr4 interaction results in a snoRNA processing defect
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| Overall design |
Duplicate RNA samples of trf4Δ, trf5Δ yeast strains expressing either TRF5 or trf5-Δ98-117 were enriched for poly(A)+ transcripts and converted to a sequencing library. Transcriptome sequencing was performed on a HiSeq 2500. Each sequenced library yielded between 10 and 14 million 50nt reads that were mapped to the annotated yeast genes using Bowtie. Significantly up- or down-regulated genes in the trf5-Δ98-117 mutant were identified via edgeR.
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| Contributor(s) |
van Hoof A |
| Citation(s) |
25589546 |
| NIH grant(s) |
| Grant ID |
Grant title |
Affiliation |
Name |
| R01 GM099790 |
RNA decay and processing activities of the RNA exosome |
UNIVERSITY OF TEXAS HLTH SCI CTR HOUSTON |
Van Hoof |
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| |
| Submission date |
Jun 28, 2016 |
| Last update date |
May 15, 2019 |
| Contact name |
Ambro van Hoof |
| E-mail(s) |
ambro.van.hoof@uth.tmc.edu
|
| Phone |
713 500 5234
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| Organization name |
University of Texas Health Science Center-Houston
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| Department |
Microbiology and Molecular Genetics
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| Street address |
6431 Fannin Street
|
| City |
Houston |
| State/province |
TX |
| ZIP/Postal code |
77030 |
| Country |
USA |
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| Platforms (1) |
| GPL17342 |
Illumina HiSeq 2500 (Saccharomyces cerevisiae) |
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| Samples (4)
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| Relations |
| BioProject |
PRJNA327115 |
| SRA |
SRP077523 |
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