GEO series

Cohesin acts as a transcriptional gatekeeper by restraining pause–release to promote processive elongation [ChIP-seq]

GSE260852 Homo sapiens (human) ChIP-seq / ATAC-seq (genome binding and open chromatin) 68 samples Submitted 2026/07/07 Platform GPL30173

At a glance

ChIP-seq / ATAC-seq (genome binding and open chromatin) · human · 68 samples

What it is: ChIP-seq / ATAC-seq (genome binding and open chromatin)Where proteins bind the genome, or which regions are open and active.
Organism: Homo sapiens (human)
Samples: 68 samples: 52 distinct titles, 12 of them repeatedGroups are read from the sample names, not from the paper. Check the list below.
Data you can get: A processed table (series matrix) and supplementary files from NCBI; the raw sequencing reads from ENA. Which of these hold counts depends on the study, so check the file list.

Summary (written by the submitters)

Cohesin organizes 3D chromatin architecture, including promoter–enhancer loops, yet its loss has surprisingly modest effects on steady-state gene expression. We address this paradox by demonstrating that cohesin acts at different stages of transcription in human cells. First, it promotes Pol II promoter recruitment by facilitating enhancer–promoter communication that maintains active promoter chromatin states.

Read the full summary ↓

Second, it delays pause release by transiently associating with the transcriptional machinery during the pause–release transition. Kinetic modelling suggests that reduced Pol II recruitment and enhanced pause release have compensatory effects, contributing to minimal changes in steady-state gene expression across genes upon cohesin loss. In contrast, cohesin depletion impairs robust transcriptional induction in response to external stimuli. Moreover, cohesin ensures sufficient pausing duration as a quality-control-like step to promote elongation complex assembly and transcription processivity. Here, we show that cohesin regulates multiple transcriptional steps, offering mechanistic insight into cohesin-related diseases, including cancers and cohesinopathies.

This dataset

Open GSE260852 in finder → Find more human ChIP / ATAC / CUT&Tag datasets →

Download · which file do I need?

Direct links to NCBI and ENA, no account and no request form. Pick by what you want to do: take the small processed table to look, the supplementary files to re-analyse, or the original raw data to start over.

1 · Just have a look

Processed table

The series matrix: one table of values per sample as the submitters processed it. The smallest download, and it opens in Excel or R. Start here to see what the data look like.

Series matrix ↓

2 · Re-analyse it

Supplementary files

The count tables and other files the authors uploaded. Take only the samples you need, or the whole study as GSE260852_RAW.tar (it can run to tens of gigabytes).

All supplementary files ↗ Whole study · RAW.tar ↓

3 · Start from the raw reads

Raw sequencing reads

The original FASTQ files, straight from the sequencer, held at ENA. Large, and you align them yourself, so only choose this if you need to re-process the study from scratch.

Raw reads on ENA ↗

What the files usually look like: Look for peak files (.bed, .narrowPeak) and signal tracks (.bigWig) among the supplementary files; the raw reads are on ENA.

Also filed as BioProject PRJNA1083797. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗

Study design

52 distinct titles, 12 of them repeated

ChIPseq, RPB1, ctrl, flav, ×3 ChIPseq, RPB1, aux, flav, ×3 ChIPseq, Input, RPB1, ctrl, flav, ×3 ChIPseq, Input, RPB1, aux, flav, ×3 ChIPseq, RPB1, ctrl, ×2 ChIPseq, RPB1, aux, ×2 ChIPseq, Input, RPB1, ctrl, ×2 ChIPseq, Input, RPB1, aux, ×2 +4 more

How we read this: Read from 68 sample titles: 52 distinct titles with little repetition. These groups are guessed from the sample names, not taken from the paper, so check them against the sample list below before relying on them.

Samples in this study

GSM8125645 ChIPseq, RPB1, ctrl, rep1
GSM8125646 ChIPseq, RPB1, aux, rep1
GSM8125647 ChIPseq, Input, RPB1, ctrl, rep1
GSM8125648 ChIPseq, Input, RPB1, aux, rep1
GSM8125649 ChIPseq, RPB1, ctrl, rep2
GSM8125650 ChIPseq, RPB1, aux, rep2
GSM8125651 ChIPseq, Input, RPB1, ctrl, rep2
GSM8125652 ChIPseq, Input, RPB1, aux, rep2
GSM8125653 ChIPseq, RPB1, ctrl, flav, 0
GSM8125654 ChIPseq, RPB1, aux, flav, 0
GSM8125655 ChIPseq, Input, RPB1, ctrl, flav, 0
GSM8125656 ChIPseq, Input, RPB1, aux, flav, 0
GSM8125657 ChIPseq, RPB1, ctrl, flav, 10
GSM8125658 ChIPseq, RPB1, aux, flav, 10
GSM8125659 ChIPseq, Input, RPB1, ctrl, flav, 10
GSM8125660 ChIPseq, Input, RPB1, aux, flav, 10
GSM8125661 ChIPseq, RPB1, ctrl, flav, 15
GSM8125662 ChIPseq, RPB1, aux, flav, 15
GSM8125663 ChIPseq, Input, RPB1, ctrl, flav, 15
GSM8125664 ChIPseq, Input, RPB1, aux, flav, 15
GSM8125665 ChIPseq, Ser2P, ctrl
GSM8125666 ChIPseq, Ser2P, aux
GSM8125667 ChIPseq, H3K27ac, ctrl, rep1
GSM8125668 ChIPseq, H3K27ac, aux, rep1
GSM8125669 ChIPseq, Input, H3K27ac, ctrl, rep1
GSM8125670 ChIPseq, Input, H3K27ac, aux, rep1
GSM8125671 ChIPseq, H3K27ac, ctrl, rep2
GSM8125672 ChIPseq, H3K27ac, aux, rep2
GSM8125673 ChIPseq, Input, H3K27ac, ctrl, rep2
GSM8125674 ChIPseq, Input, H3K27ac, aux, rep2
GSM8125675 ChIPseq, H3K4me1, ctrl
GSM8125676 ChIPseq, H3K4me1, aux
GSM8125677 ChIPseq, Input, H3K4me1, ctrl
GSM8125678 ChIPseq, Input, H3K4me1, aux
GSM8125679 ChIPseq, H3K4me3, ctrl
GSM8125680 ChIPseq, H3K4me3, aux
GSM8125681 ChIPseq, Input, H3K4me3, ctrl
GSM8125682 ChIPseq, Input, H3K4me3, aux
GSM8125683 ChIPseq, NELFCD, ctrl, rep1
GSM8125684 ChIPseq, NELFCD, aux, rep1

+ 28 more — browse all 68 samples with per-sample file links →

Datasets on a similar topic

GSE300575 Cohesin acts as a transcriptional gatekeeper by restraining pause–release to promote processive elongation [ChIP-seq] 22 samples shares restraining, gatekeeper, processive, elongation, chip-seq, cohesin, release, promote
GSE336388 Cohesin acts as a transcriptional gatekeeper by restraining pause–release to promote processive elongation 15 samples shares restraining, gatekeeper, processive, elongation, cohesin, release, promote
GSE300577 Cohesin acts as a transcriptional gatekeeper by restraining pause–release to promote processive elongation [RNA-seq] 18 samples shares restraining, gatekeeper, processive, elongation, cohesin, release, promote
GSE300574 Cohesin acts as a transcriptional gatekeeper by restraining pause–release to promote processive elongation [TT-seq] 4 samples shares restraining, gatekeeper, processive, elongation, cohesin, release, promote
GSE265881 Tripartite phosphorylation of SPT5 by CDK9 times pause release and tunes elongation rate of RNA polymerase II (ChIP-Seq) 72 samples shares elongation, chip-seq, release
GSE294527 The USP11/TCEAL1 complex promotes transcription elongation to sustain oncogenic gene expression in neuroblastoma [ChIP-seq II] 10 samples shares elongation, chip-seq, promote
GSE280208 A CDK11-dependent RNA polymerase II pause-release checkpoint precedes CDK9-mediated transition to transcriptional elongation [ChIP-Seq] 33 samples shares elongation, chip-seq, release
GSE297204 Senataxin Promotes RNA Polymerase II Elongation [Hap1_DRBrelease_TTseq] 18 samples shares elongation, release, promote

Search all human ChIP / ATAC / CUT&Tag datasets in GEO →

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