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Items: 20

1.

Connection of core and tail Mediator modules restrains transcription from TFIID-dependent promoters [ChIP-Seq]

(Submitter supplied) The Mediator coactivator complex is divided into four modules: head, middle, tail, and kinase. Deletion of the architectural subunit Med16 separates core Mediator (cMed), comprising the head, middle, and scaffold (Med14), from the tail. However, the direct global effects of tail/cMed disconnection are unclear. We find that rapid depletion of Med16 downregulates genes that require the SAGA complex for full expression, consistent with their reported tail dependence, but also moderately overactivates TFIID-dependent genes in a manner partly dependent on the separated tail, which remains associated with upstream activating sequences. more...
Organism:
Saccharomyces cerevisiae
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL21656
24 Samples
Download data: BW
Series
Accession:
GSE171981
ID:
200171981

PubMed Full text in PMC Similar studies SRA Run Selector

2.

Connection of core and and tail Mediator modules restrains transcription from TFIID-dependent promoters [ChEC-seq Med16-AID]

(Submitter supplied) The Mediator coactivator complex is divided into four modules: head, middle, tail, and kinase. Deletion of the architectural subunit Med16 separates core Mediator (cMed), comprising the head, middle, and scaffold (Med14), from the tail. However, the direct global effects of tail/cMed disconnection are unclear. We find that rapid depletion of Med16 downregulates genes that require the SAGA complex for full expression, consistent with their reported tail dependence, but also moderately overactivates TFIID-dependent genes in a manner partly dependent on the separated tail, which remains associated with upstream activating sequences. more...
Organism:
Saccharomyces cerevisiae
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL19756
4 Samples
Download data: BW
Series
Accession:
GSE179765
ID:
200179765

PubMed Full text in PMC Similar studies SRA Run Selector

3.

Connection of core and and tail Mediator modules restrains transcription from TFIID-dependent promoters

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Saccharomyces cerevisiae W303; Saccharomyces cerevisiae
Type:
Genome binding/occupancy profiling by high throughput sequencing; Other
Platforms:
GPL21656 GPL19756 GPL27477
125 Samples
Download data: BW, TXT
Series
Accession:
GSE169748
ID:
200169748

PubMed Full text in PMC Similar studies

4.

Connection of core and and tail Mediator modules restrains transcription from TFIID-dependent promoters [nsRNA-seq]

(Submitter supplied) The Mediator coactivator complex is divided into four modules: head, middle, tail, and kinase. Deletion of the architectural subunit Med16 separates core Mediator (cMed), comprising the head, middle, and scaffold (Med14), from the tail. However, the direct global effects of tail/cMed disconnection are unclear. We find that rapid depletion of Med16 downregulates genes that require the SAGA complex for full expression, consistent with their reported tail dependence, but also moderately overactivates TFIID-dependent genes in a manner partly dependent on the separated tail, which remains associated with upstream activating sequences. more...
Organism:
Saccharomyces cerevisiae W303
Type:
Other
Platform:
GPL27477
30 Samples
Download data: TXT
Series
Accession:
GSE169747
ID:
200169747

PubMed Full text in PMC Similar studies SRA Run Selector

5.

Connection of core and and tail Mediator modules restrains transcription from TFIID-dependent promoters [ChEC-seq]

(Submitter supplied) The Mediator coactivator complex is divided into four modules: head, middle, tail, and kinase. Deletion of the architectural subunit Med16 separates core Mediator (cMed), comprising the head, middle, and scaffold (Med14), from the tail. However, the direct global effects of tail/cMed disconnection are unclear. We find that rapid depletion of Med16 downregulates genes that require the SAGA complex for full expression, consistent with their reported tail dependence, but also moderately overactivates TFIID-dependent genes in a manner partly dependent on the separated tail, which remains associated with upstream activating sequences. more...
Organism:
Saccharomyces cerevisiae W303
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL27477
67 Samples
Download data: BW
Series
Accession:
GSE169746
ID:
200169746

PubMed Full text in PMC Similar studies SRA Run Selector

6.

Effect of loss of function of Gal11/Med15 and Med3 from the Mediator tail module in budding yeast

(Submitter supplied) Gene expression was compared for wild type yeast (BY4741) and yeast lacking Gal11/Med15 and Med3, or from a gal11-myc med3∆ strain. The gal11-myc allele shows a partial loss of function when combined with med3∆. Expression was analyzed for yeast grown in YPD as well as in CSM. We also examined gene expression of the wild type strain BY4742 grown in YPD and include that data here.
Organism:
Saccharomyces cerevisiae; Schizosaccharomyces pombe
Type:
Expression profiling by array
Platform:
GPL2529
21 Samples
Download data: CEL, TXT
Series
Accession:
GSE31774
ID:
200031774

PubMed Full text in PMC Similar studies Analyze with GEO2R

7.

The SAGA coactivator regulates the expression of nearly all genes transcribed by RNA polymerase II

(Submitter supplied) The SAGA coactivator complex facilitates transcription initiation through chromatin-modifying activities and interaction with TBP. SAGA was suggested to regulate the expression of about 10% of yeast genes, leading to the longstanding distinction of SAGA-dominated from TFIID-dominated genes, depending on the complex used to recruit TBP to promoters. We reassessed the genome-wide localization of SAGA by using ChEC-seq and its role on transcription through quantification of newly-synthesized mRNA. more...
Organism:
Saccharomyces cerevisiae
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL17342
5 Samples
Download data: RTF, WIG
Series
Accession:
GSE97379
ID:
200097379

PubMed Full text in PMC Similar studies SRA Run Selector

8.

SAGA Is a General Cofactor for RNA Polymerase II Transcription

(Submitter supplied) The SAGA co-activator has been implicated in the regulation of a smal subset of genes in budding yeast in transcriptomic analyses performed in steady-state levels of RNA. We used microarrays to analyse newly-synthesized RNA in several mutants for the SAGA complex to disclose and readdress the impact of this complex in RNA Polymerase II transcription.
Organism:
Schizosaccharomyces pombe; Saccharomyces cerevisiae
Type:
Expression profiling by array
Platform:
GPL2529
68 Samples
Download data: CEL
Series
Accession:
GSE96849
ID:
200096849

PubMed Full text in PMC Similar studies Analyze with GEO2R

9.

Involvement of the SAGA and TFIID coactivator complexes in transcriptional dysregulation caused by separation of core and tail Mediator modules

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Saccharomyces cerevisiae
Type:
Expression profiling by high throughput sequencing; Genome binding/occupancy profiling by high throughput sequencing; Other
Platform:
GPL19756
40 Samples
Download data: BW, TAB
Series
Accession:
GSE207371
ID:
200207371

PubMed Full text in PMC Similar studies

10.

Involvement of the SAGA and TFIID coactivator complexes in transcriptional dysregulation caused by separation of core and tail Mediator modules (nsRNA-Seq)

(Submitter supplied) Regulation of RNA polymerase II (RNAPII) transcription requires the concerted efforts of several multisubunit coactivator complexes, which interact with the RNAPII preinitiation complex (PIC) to stimulate transcription. We previously showed that separation of the Mediator core (cMed) from Mediator’s tail module results in modest overactivation of genes annotated as highly dependent on TFIID for expression. more...
Organism:
Saccharomyces cerevisiae
Type:
Expression profiling by high throughput sequencing; Other
Platform:
GPL19756
18 Samples
Download data: TAB
Series
Accession:
GSE207370
ID:
200207370

PubMed Full text in PMC Similar studies

11.

Involvement of the SAGA and TFIID coactivator complexes in transcriptional dysregulation caused by separation of core and tail Mediator modules (ChEC-Seq)

(Submitter supplied) Regulation of RNA polymerase II (RNAPII) transcription requires the concerted efforts of several multisubunit coactivator complexes, which interact with the RNAPII preinitiation complex (PIC) to stimulate transcription. We previously showed that separation of the Mediator core (cMed) from Mediator’s tail module results in modest overactivation of genes annotated as highly dependent on TFIID for expression. more...
Organism:
Saccharomyces cerevisiae
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL19756
22 Samples
Download data: BW
Series
Accession:
GSE207369
ID:
200207369

PubMed Full text in PMC Similar studies

12.

Transcription of nearly all yeast RNA Polymerase II-transcribed genes is dependent on transcription factor TFIID

(Submitter supplied) Previous studies suggested that expression of most yeast mRNAs is dominated by either transcription factor TFIID or SAGA. We reexamined this longstanding problem by rapid depletion of TFIID subunits and measurement of changes in nascent transcription. We find that transcription of nearly all mRNAs is strongly dependent on TFIID function. Degron-dependent depletion of Tafs 1,2,7,11, and 13 showed similar transcription decreases for genes in the Taf1-depleted, Taf1-enriched, TATA-containing and TATA-less gene classes. more...
Organism:
Saccharomyces cerevisiae
Type:
Genome binding/occupancy profiling by high throughput sequencing; Other
Platform:
GPL17342
50 Samples
Download data: WIG
Series
Accession:
GSE97081
ID:
200097081

PubMed Full text in PMC Similar studies SRA Run Selector

13.

Transcription of Nearly All Yeast RNA Polymerase II-Transcribed Genes Is Dependent on Transcription Factor TFIID

(Submitter supplied) 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.
Organism:
Schizosaccharomyces pombe; Saccharomyces cerevisiae
Type:
Expression profiling by array
Platform:
GPL2529
16 Samples
Download data: CEL
Series
Accession:
GSE96830
ID:
200096830

PubMed Full text in PMC Similar studies Analyze with GEO2R

14.

Mediator binding to UASs is broadly uncoupled from transcription and cooperative with TFIID recruitment to promoters

(Submitter supplied) Mediator is a conserved, essential transcriptional coactivator complex, but its in vivo functions have remained unclear due to conflicting data regarding its genome-wide binding pattern obtained by genome-wide ChIP. Here, we used ChEC-seq, a method orthogonal to ChIP, to generate a high-resolution map of Mediator binding to the yeast genome. We find that Mediator associates with upstream activating sequences (UASs) rather than the core promoter or gene body under all conditions tested. more...
Organism:
Saccharomyces cerevisiae
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platform:
GPL17342
76 Samples
Download data: BED, RTF, WIG
Series
Accession:
GSE81289
ID:
200081289

PubMed Full text in PMC Similar studies SRA Run Selector

15.

Hsf1-ChIP-on-chip: Molecular mechanisms that distinguish TFIID housekeeping from regulatable SAGA promoters

(Submitter supplied) An important distinction is frequently made between constitutively expressed housekeeping genes versus regulated genes. Although generally characterized by different DNA elements, chromatin architecture and cofactors, it is not known to what degree promoter classes strictly follow regulatability rules and which molecular mechanisms dictate such differences. We show that SAGA-dominated/TATA-box promoters are more responsive to changes in the amount of activator, even compared to TFIID/TATA-like promoters that depend on the same activator Hsf1. more...
Organism:
Saccharomyces cerevisiae
Type:
Genome binding/occupancy profiling by array
Platform:
GPL21864
24 Samples
Download data: TXT
Series
Accession:
GSE81987
ID:
200081987

PubMed Full text in PMC Similar studies Analyze with GEO2R

16.

HSF1 ChIP-seq: Molecular mechanisms that distinguish TFIID housekeeping from regulatable SAGA promoters

(Submitter supplied) An important distinction is frequently made between constitutively expressed housekeeping genes versus regulated genes. Although generally characterized by different DNA elements, chromatin architecture and cofactors, it is not known to what degree promoter classes strictly follow regulatability rules and which molecular mechanisms dictate such differences. We show that SAGA-dominated/TATA-box promoters are more responsive to changes in the amount of activator, even compared to TFIID/TATA-like promoters that depend on the same activator Hsf1. more...
Organism:
Saccharomyces cerevisiae
Type:
Genome binding/occupancy profiling by high throughput sequencing
Platforms:
GPL21944 GPL19756
10 Samples
Download data: BW
Series
Accession:
GSE81787
ID:
200081787

PubMed Full text in PMC Similar studies SRA Run Selector

17.

HSF1 and MOT1-expression and binding: Molecular mechanisms that distinguish TFIID housekeeping from regulatable SAGA promoters

(Submitter supplied) This SuperSeries is composed of the SubSeries listed below.
Organism:
Saccharomyces cerevisiae
Type:
Expression profiling by array; Genome binding/occupancy profiling by high throughput sequencing; Genome binding/occupancy profiling by array
4 related Platforms
72 Samples
Download data: BW, TXT
Series
Accession:
GSE81481
ID:
200081481

PubMed Full text in PMC Similar studies Analyze with GEO2R

18.

MOT1-expression: Molecular mechanisms that distinguish TFIID housekeeping from regulatable SAGA promoters

(Submitter supplied) An important distinction is frequently made between constitutively expressed housekeeping genes versus regulated genes. Although generally characterized by different DNA elements, chromatin architecture and cofactors, it is not known to what degree promoter classes strictly follow regulatability rules and which molecular mechanisms dictate such differences. We show that SAGA-dominated/TATA-box promoters are more responsive to changes in the amount of activator, even compared to TFIID/TATA-like promoters that depend on the same activator Hsf1. more...
Organism:
Saccharomyces cerevisiae
Type:
Expression profiling by array
Platform:
GPL11232
16 Samples
Download data: TXT
Series
Accession:
GSE81480
ID:
200081480

PubMed Full text in PMC Similar studies Analyze with GEO2R

19.

HSF1-expression: Molecular mechanisms that distinguish TFIID housekeeping from regulatable SAGA promoters

(Submitter supplied) An important distinction is frequently made between constitutively expressed housekeeping genes versus regulated genes. Although generally characterized by different DNA elements, chromatin architecture and cofactors, it is not known to what degree promoter classes strictly follow regulatability rules and which molecular mechanisms dictate such differences. We show that SAGA-dominated/TATA-box promoters are more responsive to changes in the amount of activator, even compared to TFIID/TATA-like promoters that depend on the same activator Hsf1. more...
Organism:
Saccharomyces cerevisiae
Type:
Expression profiling by array
Platform:
GPL11232
22 Samples
Download data: TXT
Series
Accession:
GSE81479
ID:
200081479

PubMed Full text in PMC Similar studies Analyze with GEO2R

20.

RNA Synthesis Precision is Regulated by Preinitiation Complex Turnover

(Submitter supplied) TATA-binding protein (TBP) nucleates the assembly of the transcription preinitiation complex (PIC), and although TBP can bind promoters with high stability in vitro, recent results establish that virtually the entire TBP population is highly dynamic in yeast nuclei in vivo. This dynamic behavior is surprising in light of models which posit that a stable TBP-containing scaffold facilitates transcription reinitiation at active promoters. more...
Organism:
Saccharomyces cerevisiae
Type:
Genome binding/occupancy profiling by genome tiling array
Platform:
GPL7250
10 Samples
Download data: BAR, CEL
Series
Accession:
GSE18283
ID:
200018283

PubMed Full text in PMC Similar studies

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