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| Status |
Public on Dec 20, 2018 |
| Title |
TSS identification of Rap1-regulated transcripts by 5' end RNA sequencing |
| Organism |
Saccharomyces cerevisiae |
| Experiment type |
Other
Expression profiling by high throughput sequencing
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| Summary |
Eukaryotic cells utilize several mechanisms to ensure that expression of aberrant non-coding RNAs is limited. Gene looping, chromatin modification or remodeling, and RNA surveillance contribute to ensure the fidelity of transcription and limit non-coding transcripts. We have identified that the transcription factor Rap1 is critical for limiting the expression of aberrant RNAs, particularly near the highly expressed ribosomal protein genes. Here we utilize a 5’ end RNA sequencing protocol to identify transcript TSSs at single nucleotide resolution in wild-type and Rap1 auxin-inducible degron strains of Saccharomyces cerevisiae.
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| Overall design |
5’ end RNA sequencing analysis of Saccharomyces cerevisiae S288C strains transformed with Os TIR1 ligase and auxin-inducible degron (IAA7) tagged Rap1, or wild-type control strains. 3 biological replicates of each condition are analysed. For each biological replicate, cells were grown overnight in YPD medium, diluted, and treated with 500 μM 3-indole-acetid acid (3-IAA, auxin) for RAP1_AID_IAA samples or left untreated for WT samples. RAP1_AID_IAA samples were taken 2 hours after treatment, and for WT control samples were taken in mid-logarithmic growth. Details for library preparation are described below.
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| Contributor(s) |
Wu A, Patel H, Chia M, Moretto F, Frith D, Snijders AP, van Werven FJ |
| Citation(s) |
30576656 |
| |
| Submission date |
Feb 01, 2018 |
| Last update date |
Sep 11, 2019 |
| Contact name |
Folkert van Werven |
| E-mail(s) |
Folkert.vanWerven@crick.ac.uk
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| Organization name |
Francis Crick Institute
|
| Street address |
1 Midland Road
|
| City |
London |
| ZIP/Postal code |
NW1 1AT |
| Country |
United Kingdom |
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| Platforms (1) |
| GPL21656 |
Illumina HiSeq 4000 (Saccharomyces cerevisiae) |
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| Samples (7)
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| GSM2976181 |
Rap1-AID degron induction 2 hours 5' seq replicate 1 |
| GSM2976182 |
Rap1-AID degron induction 2 hours 5' seq replicate 2 |
| GSM2976183 |
Rap1-AID degron induction 2 hours 5' seq replicate 3 |
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| This SubSeries is part of SuperSeries: |
| GSE110004 |
Repression of Divergent Noncoding Transcription by a Sequence-Specific Transcription Factor |
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| Relations |
| BioProject |
PRJNA432634 |
| SRA |
SRP132072 |
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