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Epigenetic Context Defines the Transcriptional Activity of Canonical and Noncanonical NF-kappaB Signaling in Pancreatic Cancer [ChIP-Seq]

GSE296831 Homo sapiens (human) ChIP-seq / ATAC-seq (genome binding and open chromatin) 48 samples Submitted 2026/04/08 Platform GPL30173
At a glance

ChIP-seq / ATAC-seq (genome binding and open chromatin) · human · 48 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
Pancreatic cancerThis series is part of our curated briefing on it.
Samples
48 samples: 16 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.
Paper
Epigenetic context defines the transcriptional activity of canonical and noncanonical NF-κB signaling in pancreatic cancerCell death discovery · 2026
Summary (written by the submitters)
NF-κB signaling in pancreatic ductal adenocarcinoma (PDAC) operates through canonical and noncanonical pathways mediated by RELA and RELB, respectively. We show that TNFα selectively activates the canonical RELA pathway, while TWEAK induces noncanonical signaling through RELB. Through integrated transcriptomic, epigenomic, and transcription factor binding analyses, we reveal distinct temporal dynamics and binding patterns, with RELB preferentially occupying AP1-rich, epigenetically active regions.
Read the full summary ↓
Single-cell RNA-seq and tissue staining highlight pathway-specific crosstalk with the tumor microenvironment. These findings uncover fundamental differences in RELA and RELB regulatory mechanisms and their distinct contributions to PDAC gene regulation.
Published in
Epigenetic context defines the transcriptional activity of canonical and noncanonical NF-κB signaling in pancreatic cancer
Aggrey-Fynn JE, Busch J, Saul D et al. · Cell death discovery 2026 · PMID 41844578 · doi:10.1038/s41420-026-03019-9
This dataset
Open GSE296831 in finder → Find more human ChIP / ATAC / CUT&Tag datasets → Pancreatic 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 GSE296831_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 PRJNA1258692 and SRA study SRP582970. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 41844578) ↗
Study design
16 conditions, mostly in triplicate
ChIP_L36pl_H3K27ac_Vehicle ×3 ChIP_L36pl_H3K27ac_TNFa_30min ×3 ChIP_L36pl_H3K27ac_TNFa_6h ×3 ChIP_L36pl_H3K27ac_TWEAK_30min ×3 ChIP_L36pl_H3K27ac_TWEAK_6h ×3 ChIP_L36pl_RELA_Vehicle ×3 ChIP_L36pl_RELA_TNFa_30min ×3 ChIP_L36pl_RELA_TNFa_6h ×3 +9 more

Supports a between-group comparison across 47 samples.

How we read this: 16 replicated groups read from 48 sample titles; they account for 47 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

+ 8 more — browse all 48 samples with per-sample file links →

More Pancreatic cancer datasets

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.