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Single-nuclei RNA-seq and ATAC-seq for Human Retina from Diverse Ancestry Backgrounds

GSE281526 Homo sapiens (human) ChIP-seq / ATAC-seq (genome binding and open chromatin) 185 samples Submitted 2025/10/14 Platform GPL34284Platform GPL24676
At a glance

ChIP-seq / ATAC-seq (genome binding and open chromatin) · human · 185 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
185 samples: 44 conditions, mostly in duplicateGroups 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.
Paper
Single-cell atlas of the transcriptome and chromatin accessibility in the human retinaNature genetics · 2026
Summary (written by the submitters)
The Human Retina Cell Atlas (HRCA) integrates data from a wide range of ancestry backgrounds, making it a highly valuable resource for understanding retinal cell types and their molecular profiles. By collecting data from 60 donors with diverse ancestry backgrounds, the atlas enabled the investigation of how ancestry affects gene expression patterns and chromatin accessibility across retinal cell types.
Read the full summary ↓
The project's findings on gene expression and chromatin openness provide critical insights into how genetic heritage influences retinal function and susceptibility to certain eye conditions. The ancestry-related data can also help identify population-specific variations in retinal biology, potentially paving the way for more personalized diagnosis and treatment of eye disorders across different ethnic groups.
Published in
Single-cell atlas of the transcriptome and chromatin accessibility in the human retina
Li J, Wang J, Ibarra IL et al. · Nature genetics 2026 · PMID 41578023 · doi:10.1038/s41588-025-02454-1
This dataset
Open GSE281526 in finder → Find more human RNA-seq 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 GSE281526_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 PRJNA1180578 and SRA study SRP543495. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 41578023) ↗
Study design
44 conditions, mostly in duplicate
snRNA-seq of adult human macular region of re… ×22 snRNA-seq of adult human peripheral lobe regi… ×21 snRNA-seq of adult human macular region of re… ×15 snRNA-seq of adult human fovea region of reti… ×9 snRNA-seq of adult human fovea region of reti… ×9 snRNA-seq of adult human macular region of re… ×6 snRNA-seq of adult human peripheral lobe regi… ×5 snRNA-seq of adult human macular region of re… ×3 +53 more

Supports a between-group comparison across 168 samples.

How we read this: 44 replicated groups read from 185 sample titles; they account for 168 of them. 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

+ 145 more — browse all 185 samples with per-sample file links →

Datasets on a similar topic

Search all human RNA-seq 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.