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Homo sapiens

ABSTRACT: Polymerase II pausing licenses cell-cycle progression (ChIP-Seq)

PROVIDER: PRJNA393889 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR5818110.fastq.gz	Fastqsanger.gz
	SRR5818120.fastq.gz	Fastqsanger.gz
	SRR5818130.fastq.gz	Fastqsanger.gz
	SRR5818140.fastq.gz	Fastqsanger.gz
	SRR5818111.fastq.gz	Fastqsanger.gz

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Homo sapiens

Project description:Polymerase II pausing licenses cell-cycle progression (RNA-Seq)

| PRJNA393890 | ENA

Polymerase II pausing licenses cell-cycle progression

Project description:Polymerase II pausing licenses cell-cycle progression

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RNA Polymerase II pausing temporally coordinates cell cycle progression and erythroid differentiation [NET-seq]

Project description:RNA Polymerase II pausing temporally coordinates cell cycle progression and erythroid differentiation [NET-seq]

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RNA Polymerase II pausing temporally coordinates cell cycle progression and erythroid differentiation [RNA-seq]

Project description:RNA Polymerase II pausing temporally coordinates cell cycle progression and erythroid differentiation [RNA-seq]

| PRJNA885863 | ENA

RNA Polymerase II pausing temporally coordinates cell cycle progression and erythroid differentiation

Project description:RNA Polymerase II pausing temporally coordinates cell cycle progression and erythroid differentiation

| PRJNA885855 | ENA

RNA Polymerase II pausing temporally coordinates cell cycle progression and erythroid differentiation [CRISPR]

Project description:RNA Polymerase II pausing temporally coordinates cell cycle progression and erythroid differentiation [CRISPR]

| PRJNA885860 | ENA

Genome-wide map of RNA polymerase II, NELF, and DSIF in HeLa cells

Project description:Most metazoan promoters have RNA polymerase II (Pol II) paused slightly downstream of the transcription start site by NELF and DSIF. This pausing keeps these promoters available for rapid induction by P-TEFb, whose activity causes NELF to dissociate and Pol II and DSIF to elongate on the gene. ChIP-Seq data was generated for Pol II, NELF, and DSIF in HeLa cells and used to look at pausing downstream of unannotated promoters. 3x ChIP-Seq (Pol II, NELF, DSIF) in HeLa cells

2014-02-01 | E-GEOD-53008 | biostudies-arrayexpress

Regulation of Mammalian Cell Growth and Survival By an RNA Polymerase II-Pausing Factor (ChIP-seq)

Project description:Many mammalian genes are occupied by paused RNA polymerase II (pol II) at promoter-proximal regions on both sides of transcription start sites (TSSs). However, the consequences of pol II pausing on gene expression and cell biology are not fully understood. Here we report that genetic ablation of the b subunit of mouse negative elongation factor (Nelf-b), a key pol II-pausing factor, results in slower progression at multiple cell cycle stages and increased apoptosis. Consistently, a whole-genome analysis indicates that growth and cell death-related genes are highly enriched among the direct target genes of Nelf-b. In particular, Nelf-b deletion increases pol II density in the promoter-distal region of stress response genes and their overall expression levels in the absence of any external stress signals. In addition, our work also reveals a previously unappreciated role of Nelf-b role in curbing TSS-upstream transcription of many mammalian genes. We suggest that Nelf-mediated pol II pausing balances the cellular needs for growth/survival and stress response by preventing excessive basal transcription of stress-induced genes. Examination of Nelf-b bindings sites on chromosomes in mouse embryonic fibroblasts

2011-08-17 | E-GEOD-24113 | biostudies-arrayexpress

αKG-driven RNA polymerase II transcription of cyclin D1 licenses malic enzyme 2 to promote cell cycle progression

Project description:αKG-driven RNA polymerase II transcription of cyclin D1 licenses malic enzyme 2 to promote cell cycle progression

| PRJNA915613 | ENA

PAF1, a molecular regulator of promoter-proximal pausing by RNA Polymerase II

Project description:The control of promoter-proximal pausing and the release of RNA polymerase II (RNA Pol II) is a widely used mechanism for regulating gene expression in metazoans, especially for genes that respond to environmental and developmental cues. Here, we identify Pol II associated Factor 1 (PAF1) as a major regulator of promoter-proximal pausing. Knockdown of PAF1 leads to increased release of paused Pol II into gene bodies at thousands of genes. Genes with the highest levels of paused Pol II exhibit the largest redistribution of Pol II from the promoter-proximal region into the gene body in the absence of PAF1. PAF1 depletion results in increased nascent transcription and increased levels of phosphorylation of Pol II’s c-terminal domain on serine 2 (Ser2P). These changes can be explained by the recruitment of the Ser2P kinase Super Elongation Complex (SEC) effecting increased release of paused Pol II into productive elongation, thus establishing a novel function for PAF1 as a major regulator of pausing in metazoans. ChIP-seq of Pol II of different forms, SEC subunits, PAFc subunits and H2Bub in human cell lines targeted by PAF1 or scramble shRNA. ChIP-seq of total Pol II in HCT116 cells targeted by BRE1A or scramble shRNA. ChIP-seq of total Pol II in S2 cells targeted by Paf1 or LacZ RNAi. Total RNA-seq, nascent RNA-seq and GRO-seq in HCT116 cells targeted by PAF1 or scramble shRNA.

2015-08-13 | E-GEOD-70408 | biostudies-arrayexpress

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