GEO series
Epigenetic Context Defines the Transcriptional Activity of Canonical and Noncanonical NF-kappaB Signaling in Pancreatic Cancer [ChIP-Seq]
GSE296831
Homo sapiens
Genome binding/occupancy profiling by high throughput sequencing
48 samples
Submitted 2026/04/08
Platform GPL30173
Summary
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. 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
Aggrey-Fynn JE, Busch J, Saul D et al.
· Cell death discovery 2026
· PMID 41844578
· doi:10.1038/s41420-026-03019-9
This dataset
Download
Direct links to NCBI, no account and no request form: the whole study as GSE296831_RAW.tar, processed values as the series matrix, the supplementary file directory, and per-sample supplementary files for any of the 48 samples. Raw sequencing reads are also available from ENA.
Also filed as BioProject PRJNA1258692 and SRA study SRP582970. Searching any of these in the dataset finder brings you back here.
Study design
13 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
+7 more
Supports a between-group comparison across 38 samples.
13 replicated groups read from the first 40 of 48 sample titles; they account for 38 of them. Check it against the sample list below before relying on it.
Samples in this study
0 selected
- GSM8978223 ChIP_L36pl_H3K27ac_Vehicle_Rep1
- GSM8978224 ChIP_L36pl_H3K27ac_Vehicle_Rep2
- GSM8978225 ChIP_L36pl_H3K27ac_Vehicle_Rep3
- GSM8978226 ChIP_L36pl_H3K27ac_TNFa_30min_Rep1
- GSM8978227 ChIP_L36pl_H3K27ac_TNFa_30min_Rep2
- GSM8978228 ChIP_L36pl_H3K27ac_TNFa_30min_Rep3
- GSM8978229 ChIP_L36pl_H3K27ac_TNFa_6h_Rep1
- GSM8978230 ChIP_L36pl_H3K27ac_TNFa_6h_Rep2
- GSM8978231 ChIP_L36pl_H3K27ac_TNFa_6h_Rep3
- GSM8978232 ChIP_L36pl_H3K27ac_TWEAK_30min_Rep1
- GSM8978233 ChIP_L36pl_H3K27ac_TWEAK_30min_Rep2
- GSM8978234 ChIP_L36pl_H3K27ac_TWEAK_30min_Rep3
- GSM8978235 ChIP_L36pl_H3K27ac_TWEAK_6h_Rep1
- GSM8978236 ChIP_L36pl_H3K27ac_TWEAK_6h_Rep2
- GSM8978237 ChIP_L36pl_H3K27ac_TWEAK_6h_Rep3
- GSM8978238 L36pl_FOSL1_Vehicle_Rep1
- GSM8978239 ChIP_L36pl_FOSL1_Vehicle_Rep2
- GSM8978240 ChIP_L36pl_FOSL1_Vehicle_Rep3
- GSM8978241 ChIP_L36pl_RELA_Vehicle_Rep1
- GSM8978242 ChIP_L36pl_RELA_Vehicle_Rep2
- GSM8978243 ChIP_L36pl_RELA_Vehicle_Rep3
- GSM8978244 ChIP_L36pl_RELA_TNFa_30min_Rep1
- GSM8978245 ChIP_L36pl_RELA_TNFa_30min_Rep2
- GSM8978246 ChIP_L36pl_RELA_TNFa_30min_Rep3
- GSM8978247 ChIP_L36pl_RELA_TNFa_6h_Rep1
- GSM8978248 ChIP_L36pl_RELA_TNFa_6h_Rep2
- GSM8978249 ChIP_L36pl_RELA_TNFa_6h_Rep3
- GSM8978250 ChIP_L36pl_RELA_TWEAK_30min_Rep1
- GSM8978251 ChIP_L36pl_RELA_TWEAK_30min_Rep2
- GSM8978252 ChIP_L36pl_RELA_TWEAK_30min_Rep3
- GSM8978253 ChIP_L36pl_RELA_TWEAK_6h_Rep1
- GSM8978254 ChIP_L36pl_RELA_TWEAK_6h_Rep2
- GSM8978255 ChIP_L36pl_RELA_TWEAK_6h_Rep3
- GSM8978256 ChIP_L36pl_RELB_Vehicle_Rep1
- GSM8978257 ChIP_L36pl_RELB_Vehicle_Rep2
- GSM8978258 ChIP_L36pl_RELB_Vehicle_Rep3
- GSM8978259 ChIP_L36pl_RELB_TNFa_30min_Rep1
- GSM8978260 ChIP_L36pl_RELB_TNFa_30min_Rep2
- GSM8978261 ChIP_L36pl_RELB_TNFa_30min_Rep3
- GSM8978262 ChIP_L36pl_RELB_TNFa_6h_Rep1
+ 8 more — browse all 48 samples with per-sample file links →
Similar datasets
- GSE259248 ZBTB7A is a modulator of KDM5-driven transcriptional networks in basal breast cancer (ChIP-Seq) 36 samples
- GSE284519 TRIM33 loss reduces Androgen Receptor transcriptional output and H2BK120 ubiquitination [ChIP-seq] 93 samples
- GSE302930 Epigenetic Atlas of Bladder Cancer Reveals Master Transcription Factors and Risk-Associated Regulatory Elements in Luminal and Basal-Squamous Molecular Subtypes 92 samples
- GSE263716 Epigenetic Analysis of SLE Disease Activity in Resting Naive (rN) and Transitional (T1T2) B cells 62 samples
- GSE293334 Allelic topological centering by transcription factors drives oncogenic multi-enhancer transcriptional regulation [ChIP-seq] 60 samples
- GSE337829 Integrated single-cell profiling of RNA and DNA interactomes reveals targetable chromatin architectures in cancer [ChIP-Seq] 32 samples
- GSE279410 Mitochondrial metabolism and epigenetic crosstalk drive the SASP (ChIP-seq) 30 samples
- GSE314776 Decoding 3D chromatin architecture reveals distinct enhancer classes underlying hierarchical gene regulation in prostate cancer [ChIP-Seq] 24 samples
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.