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Coordinating catalytic and non-canonical functions of EZH2 sensitizes tumors to CAR-T cell therapy

GSE323364 Homo sapiens (human) ChIP-seq / ATAC-seq (genome binding and open chromatin) 42 samples Submitted 2026/05/21 Platform GPL20301
At a glance

ChIP-seq / ATAC-seq (genome binding and open chromatin) · human · 42 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
42 samples: 14 conditions, mostly in triplicateGroups 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)
This study investigates the dual roles of EZH2 (catalytic and non-canonical) in regulating tumor cell adhesion and sensitivity to CAR-T cell therapy. We performed RNA-seq and CUT&Tag-seq (anti-EZH2) on three human triple-negative breast cancer cell lines (MDA-MB-436, MDA-MB-468, HCC1806) treated with the EZH2 inhibitor EPZ-6438. Additionally, RNA-seq was performed on MDA-MB-468 cells with EZH2 knockdown to dissect the EZH2-dependent transcriptomic underlying tumor cell adhesion and CAR-T therapy response.
This dataset
Open GSE323364 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 GSE323364_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 PRJNA1432532 and SRA study SRP681163. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗
Study design
14 conditions, mostly in triplicate
RNA-seq of MDA-MB-468 EPZ-6438 ×3 RNA-seq of MDA-MB-468 DMSO ×3 CUT&Tag of MDA-MB-468 EPZ-6438 ×3 CUT&Tag of MDA-MB-468 DMSO ×3 RNA-seq of MDA-MB-436 EPZ-6438 ×3 RNA-seq of MDA-MB-436 DMSO ×3 CUT&Tag of MDA-MB-436 EPZ-6438 ×3 CUT&Tag of MDA-MB-436 DMSO ×3 +6 more

Supports a between-group comparison across 42 samples.

How we read this: 14 replicated groups read from 42 sample titles; they account for 42 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

+ 2 more — browse all 42 samples with per-sample file links →

Datasets on a similar topic

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

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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.