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| Status |
Public on Sep 22, 2021 |
| Title |
ChIP-seq facilitates the quantitative analysis of Rvb proteins' enrichment on the genome during stress |
| Organism |
Saccharomyces cerevisiae |
| Experiment type |
Genome binding/occupancy profiling by high throughput sequencing
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| Summary |
The goals of this study are to quantitatively analyze the enrichment of Rvb1/Rvb2 on the yeast genome during glucose starvation. The ChIP-seq files were generated from 2 biological replicates of Rvb1’s immunoprecipitation (IP), Rvb2-IP, and Pgk1-IP in 10-min glucose starved yeast cells, respectively, using NextSeq 500 SR 75. The sequence reads that passed quality filters were analyzed by calculation of the read counts on 2 regions: -500 bp to TSS and TSS to +500 bp. Using an optimized data analysis workflow, we found Rvb1/Rvb2’s enrichment peaks and that they are significantly more enriched on the Class II alternative glucose metabolism promoters than Class I heat shock promoters.
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| Overall design |
Rvb1-IP, Rvb2-IP and Pgk1-IP in 10-min glucose starved cells
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| Contributor(s) |
Zid BM, Chen YS |
| Citation missing |
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| |
| Submission date |
Sep 20, 2021 |
| Last update date |
Sep 22, 2021 |
| Contact name |
Brian Matthew Zid |
| E-mail(s) |
zid@ucsd.edu
|
| Organization name |
University of California San Diego
|
| Department |
Chemistry and Biochemistry
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| Lab |
Zid
|
| Street address |
9500 Gilman Drive
|
| City |
La Jolla |
| State/province |
California |
| ZIP/Postal code |
92093 |
| Country |
USA |
| |
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| Platforms (1) |
| GPL19756 |
Illumina NextSeq 500 (Saccharomyces cerevisiae) |
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| Samples (9)
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| Relations |
| BioProject |
PRJNA764728 |
| SRA |
SRP337940 |
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