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| Status |
Public on Sep 15, 2017 |
| Title |
Transcription of Nearly All Yeast RNA Polymerase II-Transcribed Genes Is Dependent on Transcription Factor TFIID |
| Platform organisms |
Schizosaccharomyces pombe; Saccharomyces cerevisiae |
| Sample organism |
Saccharomyces cerevisiae |
| Experiment type |
Expression profiling by array
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| Summary |
RNA Pol II transcription has been implied to be either regulated by the general transcription factor TFIID or the co-activator SAGA. Also, this dominancy of either SAGA or TFIID might be according to the existance, or not, of a TATA consensus sequence.
We used microarrays to analyse newly-synthesized RNA in two mutants that allow conditional nuclear depletion of Taf4 or Taf5 to reevaluate whether some genes are more affected than others.
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| Overall design |
The genotype of yeast strains was modified to allow nuclear depletion of either Taf4 or Taf5. Taf4 (or Taf5) was depleted from the nucleus by adding either 5uM rapamycin to the cells. To the control cultures only DMSO was added (in these cells Tafs are not depleted from the nucleus and thus were used as the control samples). Newly synthesized mRNA were labeled using 4tU labeling 30 min after the addition of rapamycin. Labeling occured for 6 min. mRNA levels and synthesis rates were measured using Affymetrix GeneChip Yeast Genome 2.0 Array.
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| Contributor(s) |
Warfield L, Ramachandran S, Baptista T, Devys D, Tora L, Hahn S |
| Citation(s) |
28918900 |
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| Submission date |
Mar 20, 2017 |
| Last update date |
Dec 15, 2017 |
| Contact name |
Didier Devys |
| E-mail(s) |
devys@igbmc.fr
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| Organization name |
Institut de Génétique et de Biologie Moléculaire et Cellulaire (IGBMC)
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| Street address |
1 rue Laurent Fries / BP 10142
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| City |
Illkirch |
| ZIP/Postal code |
67404 |
| Country |
France |
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| Platforms (1) |
| GPL2529 |
[Yeast_2] Affymetrix Yeast Genome 2.0 Array |
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| Samples (16)
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| GSM2544763 |
Taf4 anchor away, minus rapamycin, steady-state RNA, replicate 1 |
| GSM2544764 |
Taf4 anchor away, minus rapamycin, steady-state RNA, replicate 2 |
| GSM2544765 |
Taf4 anchor away, minus rapamycin, newly-synthesized RNA, replicate 1 |
| GSM2544766 |
Taf4 anchor away, minus rapamycin, newly-synthesized RNA, replicate 2 |
| GSM2544767 |
Taf4 anchor away, plus rapamycin, steady-state RNA, replicate 1 |
| GSM2544768 |
Taf4 anchor away, plus rapamycin, steady-state RNA, replicate 2 |
| GSM2544769 |
Taf4 anchor away, plus rapamycin, newly-synthesized RNA, replicate 1 |
| GSM2544770 |
Taf4 anchor away, plus rapamycin, newly-synthesized RNA, replicate 2 |
| GSM2544771 |
Taf5 anchor away, minus rapamycin, steady-state RNA, replicate 1 |
| GSM2544772 |
Taf5 anchor away, minus rapamycin, steady-state RNA, replicate 2 |
| GSM2544773 |
Taf5 anchor away, minus rapamycin, newly-synthesized RNA, replicate 1 |
| GSM2544774 |
Taf5 anchor away, minus rapamycin, newly-synthesized RNA, replicate 2 |
| GSM2544775 |
Taf5 anchor away, plus rapamycin, steady-state RNA, replicate 1 |
| GSM2544776 |
Taf5 anchor away, plus rapamycin, steady-state RNA, replicate 2 |
| GSM2544777 |
Taf5 anchor away, plus rapamycin, newly-synthesized RNA, replicate 1 |
| GSM2544778 |
Taf5 anchor away, plus rapamycin, newly-synthesized RNA, replicate 2 |
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| Relations |
| BioProject |
PRJNA379848 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE96830_RAW.tar |
15.1 Mb |
(http)(custom) |
TAR (of CEL) |
| Processed data included within Sample table |
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