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ABSTRACT: TAF4 promotes pre-initiation complex formation and HNF4A occupancy of regulatory elements required to activation post-natal gene expression programme in hepatocytes

PROVIDER: PRJNA248143 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR1292290.fastq.gz	Fastqsanger.gz
	SRR1292300.fastq.gz	Fastqsanger.gz
	SRR1292291.fastq.gz	Fastqsanger.gz
	SRR1292301.fastq.gz	Fastqsanger.gz
	SRR1292282.fastq.gz	Fastqsanger.gz

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TAF4 promotes pre-initiation complex formation and HNF4A occupancy of regulatory elements required to activation post-natal gene expression programme in hepatocytes (ChIP-seq)

Project description:The nuclear receptor HNF4A regulates embryonic and post-natal hepatocyte gene expression. Using hepatocyte-specific inactivation in mice, we show that the TAF4 subunit of TFIID acts as a cofactor for HNF4A in vivo and that HNF4A interacts directly with the TAF4-TAF12 heterodimer in vitro. In vivo, TAF4 is required to maintain HNF4A-directed embryonic gene expression at post-natal stages and for HNF4A-directed activation of post-natal gene expression. TAF4 promotes HNF4A occupancy of functional cis-regulatory elements located adjacent to the transcription start sites of post-natal expressed genes and for pre-initiation complex formation required for their expression. Promoter-proximal HNF4A-TFIID interactions are therefore required for pre-initiation complex formation and stable HNF4A occupancy of regulatory elements as two concomitant mutually dependent processes. Examination of PIC, H3k4me3, Ctcf and Hnf4a occupancy in wild-type and Taf4-/- livers by deep sequencing

2014-09-25 | E-GEOD-57807 | biostudies-arrayexpress

TAF4 promotes pre-initiation complex formation and HNF4A occupancy of regulatory elements required to activation post-natal gene expression programme in hepatocytes (RNA-seq)

Project description:The nuclear receptor HNF4A regulates embryonic and post-natal hepatocyte gene expression. Using hepatocyte-specific inactivation in mice, we show that the TAF4 subunit of TFIID acts as a cofactor for HNF4A in vivo and that HNF4A interacts directly with the TAF4-TAF12 heterodimer in vitro. In vivo, TAF4 is required to maintain HNF4A-directed embryonic gene expression at post-natal stages and for HNF4A-directed activation of post-natal gene expression. TAF4 promotes HNF4A occupancy of functional cis-regulatory elements located adjacent to the transcription start sites of post-natal expressed genes and for pre-initiation complex formation required for their expression. Promoter-proximal HNF4A-TFIID interactions are therefore required for pre-initiation complex formation and stable HNF4A occupancy of regulatory elements as two concomitant mutually dependent processes. RNA profiles in wild-type and Taf4-/- livers by deep sequencing

2014-09-25 | E-GEOD-57712 | biostudies-arrayexpress

TAF4 promotes pre-initiation complex formation and HNF4A occupancy of regulatory elements required to activation post-natal gene expression programme in hepatocytes (ChIP-seq)

2014-09-25 | GSE57807 | GEO

TAF4 promotes pre-initiation complex formation and HNF4A occupancy of regulatory elements required to activation post-natal gene expression programme in hepatocytes (RNA-seq)

2014-09-25 | GSE57712 | GEO

Mus musculus

Project description:TAF4 promotes pre-initiation complex formation and HNF4A occupancy of regulatory elements required to activation post-natal gene expression programme in hepatocytes (RNA-seq)

| PRJNA248141 | ENA

Mus musculus

Project description:TAF4 promotes pre-initiation complex formation and HNF4A occupancy of regulatory elements required to activation post-natal gene expression programme in hepatocytes (ChIP-seq)

| PRJNA248144 | ENA

TAF4 immunoprecipitation from mouse embryonic stem cells

Project description:TAF4 directed immunoprecipitation of the the Pre-initiation complex from mouse embryonic stem cells with or without depletion of TATA-box binding protein (TBP).

2022-05-27 | MSV000089562 | MassIVE

A TAF4 coactivator function for E proteins that involves enhanced TFIID binding

Project description:The multisubunit TFIID plays a direct role in transcription initiation by binding to core promoter elements and directing preinitiation complex assembly. Although TFIID may also function as a coactivator through direct interactions with promoter-bound activators, mechanistic aspects of this poorly defined function remain unclear. Here biochemical studies show a direct TFIID-E protein interaction that (i) is mediated through interaction of a novel E protein activation domain (AD3) with the TAF homology (TAFH) domain of TAF4, (ii) is critical for activation of a natural target gene by an E protein and (iii) mechanistically, acts by enhancing TFIID binding to the core promoter. Complementary assays establish a gene-specific role for the TAFH domain in TFIID recruitment and gene activation in vivo. These results firmly establish TAF4 as a bona fide E protein coactivator, as well as a mechanism involving facilitated TFIID binding through direct interaction with an E protein activation domain. Genome-wide profiling of mRNA levels in MEF lines with Taf4 loxp/- (ctrl), Taf4 -/- (ko), Taf4 -/- Tg:hTAF4 wt, and Taf4 -/- Tg: hTAF4 ? (TAFH-deleted).

2013-06-06 | E-GEOD-46807 | biostudies-arrayexpress

General transcription factor TAF4 antagonizes epigenetic silencing by Polycomb to maintain intestine stem cell functions [scRNA-seq]

Project description:Taf4 (TATA-box binding protein-associated factor 4) is a subunit of the general transcription factor TFIID, a component of the RNA polymerase II pre-initiation complex that interacts with tissue-specific transcription factors to regulate gene expression. Properly regulated gene expression is particularly important in the intestinal epithelium that is constantly renewed from stem cells. We investigated the role of Taf4 in the murine intestinal epithelium using tissue-specific inactivation. Taf4 inactivation during embryogenesis compromised gut morphogenesis and the emergence of adult-type stem cells, ultimately leading to death. In adults, Taf4 loss perturbed the stem cell compartment and the associated Paneth cells in the stem cell niche, epithelial turnover and differentiation of mature cells, thus exacerbating the response to inflammatory challenge and potentiating Apc-driven tumorigenesis. In addition, Taf4 inactivation ex vivo in organoids prevented budding formation and maintenance. Combining immunohistology with bulk RNA-seq, ATAC-seq and single-cell RNA-seq, showed that Taf4 loss caused broad chromatin remodeling, and a strong reduction in the numbers of stem and progenitor cells with a concomitant increase in an undifferentiated cell population that displayed high activity of the Ezh2 and Suz12 components of Polycomb Repressive Complex 2 (PRC2). In line with this observation, treatment of Taf4-mutant organoids with a specific Ezh2 inhibitor restored buddings, cell proliferation and the stem/progenitor compartment. Our results reveal the critical role of Taf4 in intestinal development and homeostasis and a novel mechanism by which Taf4 acts to maintain the stem/progenitor compartment by counteracting PRC2 repression of the stem cell gene expression program.

2023-01-05 | GSE205441 | GEO

General transcription factor TAF4 antagonizes epigenetic silencing by Polycomb to maintain intestine stem cell functions [RNA-seq]

2023-01-05 | GSE205329 | GEO