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Mapping of nascent RNA upon release of DRB in WT and KD of RECQL5

ABSTRACT: Global Run-On has been performed on WT or KD for RECQL5 cells after release from DRB. When RECQL5 is knocked-down the transcriptional wave front is more advanced, suggesting that transcription is faster.

ORGANISM(S): Homo sapiens

PROVIDER: GSE49133 | GEO | 2014/06/09

SECONDARY ACCESSION(S): PRJNA213130

REPOSITORIES: GEO

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Mapping of nascent RNA upon release of DRB in WT and KD of RECQL5

Project description:Global Run-On has been performed on WT or KD for RECQL5 cells after release from DRB. When RECQL5 is knocked-down the transcriptional wave front is more advanced, suggesting that transcription is faster. Constitutive knock-down cell lines expressing or not endogenous levels of shRNA resistant RECQL5 under a Doxycycline inducible promoter were treated with high doses of DRB to block transcription. Upon release into fresh medium we were able to follow how much and how fast the RNA Pol II progresses through genes by mapping nascent RNA by Run-On. The experiment was performed in two cell line clones.

2014-06-09 | E-GEOD-49133 | biostudies-arrayexpress

Expression data from Saccharomyces cerevisiae strains expressing human RECQL5 helicase

Project description:We expressed human RECQL5 in the model organism Sacharomyces cerevisiae. We found that RECQL5 overexpression in yeast leads to cell growth inhibition and increased genotoxic sensitivity. We carried-out transcriptome analysis of yeast strains overexpressing human RECQL5 helicase to explore its impact on gene expression.

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Human helicase RECQL5-Flag ChIP DNA from Saccharomyces cerevisiae strain W303-1AR5, asynchronous culture

Project description:We expressed human RECQL5 in the yeast model Sacharomyces cerevisiae. Being RECQL5 the only member of the family shown to interact with the RNA polymerase II we explored the recruitment of RECQL5 to chromatin. Data reveal a genome wide recruitment of RECQL5 at actively transcribed regions that increases toward the 3’ end of the gene.

2025-01-15 | GSE180107 | GEO

Genome wide profiling of RNA Polymerase II upon knock-down or overexpression of RECQL5

Project description:RECQL5 globally effects the distribution of RNA Polymerase II on genes in a dose dependent manner. Knock-down of RECQL5 reduces RNA Polymerase II density in the gene body, while increasing density on TSS and TTS. Overexpression shows exactly the opposite effect. We postulate that RECQL5 acts as a regulator of the elongation rate, more specifically, that the knock-down increases elongation rate while the overexpression decreases it. RNA Polymerase II ChIP-Seq upon knock-down of RECQL5 with either of two specific shRNAs or a CTRL shRNA, and upon Doxycycline induced overexpression of RECQL5 .

2014-06-09 | E-GEOD-49008 | biostudies-arrayexpress

Nascent-seq data from DRB-treated/untreated human U2OS cell line

Project description:Confluent U2OS cells were released to serum-free medium, and continued to grow for 36 h (Per2-dLuc peak) or 48 h (Per2-dLuc trough), then added DRB (10uM) treatment for 0.5, 1.5, 3.5 h, then added BrU (250uM) for 0.5 h, harvested total RNA, captured with anti-BrU antibody, and conduced hi-seq.

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Genome wide profiling of RNA Polymerase II upon knock-down or overexpression of RECQL5

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Effect of transcription inhibitor DRB on gene expression under KRASG12V induction of SAEC

Project description:To investigate RNA expression sensitive to DRB, we induced KRASG12V in SAEC cells with or without DRB treatment. We then performed gene expression profiling analysis using data obtained from RNA-seq of 2 different conditions.

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Project description:Nascent-seq data from DRB-treated/untreated human U2OS cell line

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Project description:We performed PRO-Seq to measure the Pol II elongation rate by measruing the distance of Pol II travels at viarous time points after relased from DRB induced pausing. We compared DMSO/DRB or THZ531/DRB co-treated sample to assess the effect of CDK12 and CDK13 inhibtion by THZ531 on transcriptional elongation rate.

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