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Genome-wide histone acetylation underscores tumor intrinsic immune signaling induced by photothermal therapy in ovarian cancer

GSE326102 Homo sapiens (human) ChIP-seq / ATAC-seq (genome binding and open chromatin) 56 samples Submitted 2026/04/02 Platform GPL30173
At a glance

ChIP-seq / ATAC-seq (genome binding and open chromatin) · human · 56 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)
Topic
Ovarian cancerThis series is part of our curated briefing on it.
Samples
56 samples: 24 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.
Summary (written by the submitters)
Ovarian cancer remains the most lethal gynecological malignancy with few durable responses to standard of care platinum-based chemotherapies and emerging immunotherapies. This poor response is attributed to the immunosuppressive tumor microenvironment which lacks effector lymphocytes necessary for tumor clearance. Therefore, increasing tumor intrinsic immune signaling remains a therapeutic goal for OC.
Read the full summary ↓
One strategy for improved tumor intrinsic immune signaling relies on induction of tumor cell immunogenic cell death (ICD) features including tumor cell surface expression of Calreticulin and Hsp70 with concurrent release of immunostimulatory signals that activate innate and adaptive immune cells. The induction of ICD through a nanoparticle-based heat shock treatment, termed Prussian blue nanoparticle photothermal therapy (PBNP-PTT), has shown strong recruitment of antigen-specific lymphocytes to the tumor microenvironment in glioblastoma and neuroblastoma preclinical models. While the molecular signatures of ICD are well described, the epigenetic reprogramming during treatment-induced tumor intrinsic immune signaling remains unknown. Therefore, this study sought to determine the efficacy of PBNP-PTT heat shock in ovarian cancer and characterize epigenetic responses that accompany its induced tumor intrinsic immune signaling. We first demonstrate that PBNP-PTT activates tumor intrinsic immune signaling in ovarian cancer and leads to improved monocyte activation through tumor cell proinflammatory cytokine release and presentation of Calreticulin and Hsp70. Accompanying this intrinsic immunostimulatory effect, PBNP-PTT induces genome-wide chromatin accessibility via H3K9ac, which associates with chromatin remodeling and heat shock response genes. Lastly, we show targeting histone acetylation via histone deacetylase inhibition (Panobinostat) improves the tumor intrinsic immune signaling potential of PBNP-PTT. These findings indicate that PBNP-PTT activates the release of immunostimulatory factors in ovarian cancer cells through H3K9ac rewiring and suggests the potential of combination with HDACi to improve tumor intrinsic immune signaling in ovarian cancer.
This dataset
Open GSE326102 in finder → Find more human ChIP / ATAC / CUT&Tag datasets → Ovarian cancer landscape →
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 GSE326102_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 PRJNA1443363 and SRA study SRP686991. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗
Study design
24 conditions, mostly in duplicate
A2780, H3K9ac IP, 1W-treated, 10min, ×2 A2780, H3K9ac IP, PBO control, 10min, ×2 A2780, IgG IP, 1W-treated, 10min, ×2 A2780, IgG IP, PBO control, 10min, ×2 Hey, H3K9ac IP, 1W-treated, 10min, ×2 Hey, H3K9ac IP, PBO control, 10min, ×2 Hey, IgG IP, 1W-treated, 10min, ×2 Hey, IgG IP, PBO control, 10min, ×2 +24 more

Supports a case/control comparison: 28 samples read as cases, 28 as controls.

How we read this: 24 replicated groups read from 56 sample titles; they account for 48 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

+ 16 more — browse all 56 samples with per-sample file links →

More Ovarian cancer datasets

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

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