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Formation of an active epigenetic mark and its recycling is mediated by cell cycle-specific RNAs [RIP-seq]

ABSTRACT: Formation of an active epigenetic mark and its recycling is mediated by cell cycle-specific RNAs [RIP-seq]

PROVIDER: PRJNA868746 | ENA |

REPOSITORIES: ENA

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Formation of an active epigenetic mark and its recycling is mediated by cell cycle-specific RNAs [RIP-seq]

Project description:The mechanisms by which epigenetic modifications are established in gene regulatory regions of active genes remain elusive. The data presented show that the establishment and recycling of a major epigenetic mark, the acetylated form of the replacement histone H2A.Z, is regulated by cell cycle-specific long noncoding RNAs encoded in regions adjacent to the promoters of active genes. These transcripts, termed SPEARs (S Phase EArly RNAs), are induced in early S phase: their expression precedes that of the downstream genes on which they exert their regulatory action. SPEARs drive the modification and deposition of the acetylated form of histone H2A.Z by bringing together the replacement histone and the histone acetyl transferase TIP60. This widespread bimodal pathway constitutes a novel RNA-mediated mechanism for the establishment of epigenetic marks and cell-specific epigenetic profiles, thereby providing a unifying explanation for the accuracy and persistence of epigenetic marks on chromatin.

2025-08-01 | GSE211056 | GEO

Formation of an active epigenetic mark and its recycling is mediated by cell cycle-specific RNAs [ChIP-seq]

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Formation of an active epigenetic mark and its recycling is mediated by cell cycle-specific RNAs [RNA-seq]

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Formation of an active epigenetic mark and its recycling is mediated by cell cycle-specific RNAs

Project description:Formation of an active epigenetic mark and its recycling is mediated by cell cycle-specific RNAs

| PRJNA868743 | ENA

Formation of an active epigenetic mark and its recycling is mediated by cell cycle-specific RNAs [ChIP-seq]

Project description:Formation of an active epigenetic mark and its recycling is mediated by cell cycle-specific RNAs [ChIP-seq]

| PRJNA868744 | ENA

Formation of an active epigenetic mark and its recycling is mediated by cell cycle-specific RNAs [RNA-seq]

Project description:Formation of an active epigenetic mark and its recycling is mediated by cell cycle-specific RNAs [RNA-seq]

| PRJNA868745 | ENA

Formation of an active epigenetic mark and its recycling is mediated by cell cycle-specific RNAs

Project description:This SuperSeries is composed of the SubSeries listed below.

2025-08-01 | GSE211058 | GEO

In Vitro Transcription Recycling Assay Identifies PAF1 as a Driver of RNA Pol II Recycling

Project description:RNA Polymerase II transcriptional recycling is an underappreciated mechanism for which the required factors and contributions to overall gene expression levels are poorly understood. We describe an in vitro methodology facilitating unbiased identification of novel RNA Pol II transcriptional recycling factors and quantitative measurement of transcriptional output from recycled transcriptional components. Proof-of-principle experiments identified PAF1 complex components among recycling factors and detected defective transcriptional output from RNA Pol II recycling following PAF1 depletion. Dynamic ChIP-seq confirmed in vivo PAF1 complex cycling through gene bodies with RNA Pol II and recycling back to the transcription start sites, while PAF1 silencing triggered defective RNA Pol II recycling. Prostate tumors exhibited enhanced transcriptional recycling, which was attenuated by antibody-based PAF1 depletion. These findings identify RNA Pol II recycling as a potential target in cancer and demonstrate the assay’s applicability to characterize RNA Pol II recycling in cells and tissues from other disease states.

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Lysosomal Dynamics Orchestrate Neurogenesis [RIP-Seq]

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Project description:To reveal PTBP1-bound RNAs, we conducted RNA immunoprecipitation sequencing (RIP-seq) with total RNA samples from MKN-28 cells.

2021-04-14 | GSE157941 | GEO

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