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Differential chromatin accessibility analysis elucidates mechanisms of coronary artery disease-associated genetic variation

GSE273054 Homo sapiens (human) ChIP-seq / ATAC-seq (genome binding and open chromatin) 119 samples Submitted 2026/01/16 Platform GPL24676
At a glance

ChIP-seq / ATAC-seq (genome binding and open chromatin) · human · 119 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
119 samples: 119 samples, each with a distinct title — no replicated groupsGroups 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)
Genome-wide association studies (GWAS) have identified hundreds of coronary artery disease (CAD) associated variants; however, the regulatory mechanisms for candidate variants remain mostly unknown. In this study, we evaluated the epigenomic landscape in coronary artery segments using the Assay for Transposase Accessible Chromatin followed by sequencing (ATAC-seq), addressed how chromatin accessibility in human coronary arteries differs from healthy vs ischemic heart derived-coronary arteries, and defined how chromatin accessibility can be used to understand mechanisms of CAD GWAS results.
Read the full summary ↓
We report 12,226 control-specific (Con) and 1,023 Ischemic-specific (Isc) differentially accessible regions (DARs) in human coronary arteries. Isc tissue samples were enriched for immune cell activation and ~300 CAD-associated variants were mapped in DARs. We also identified CAD-associated variants predicted to alter transcripion factor binding sites related to CAD. Additionally, we identified endothelial/smooth-muscle-associated genes proximal to Con-DARs and CAD-associated genes proximal to Isc-DARs. In summary, we provide an initial analysis of chromatin accessibility in heathy and atherosclerotic human coronary artery tissue, prioritizing CAD GWAS variants for downstream investigation by altering atherosclerosis-related cis-regulatory activity, and present hypotheses for regulatory mechanisms that could impact CAD progression.
This dataset
Open GSE273054 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 GSE273054_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 PRJNA1139841 and SRA study SRP522092. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗
Study design
119 samples, each with a distinct title — no replicated groups

Any grouping that defines a comparison lives in the sample characteristics, which GEO records separately from the titles.

How we read this: Read from 119 sample titles: 119 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

+ 79 more — browse all 119 samples with per-sample file links →

Datasets on a similar topic

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

Share this dataset

Metadata from NCBI GEO, cached and refreshed periodically — the NCBI page above is authoritative. Downloads link straight to NCBI/ENA; nothing is proxied through BioTransfer.