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Extensive enhancer crosstalk governs the induction of PPARG2 expression during adipogenic lineage commitment [Chip-Seq]

GSE300899 Homo sapiens (human) ChIP-seq / ATAC-seq (genome binding and open chromatin) 76 samples Submitted 2026/02/09 Platform GPL24676
At a glance

ChIP-seq / ATAC-seq (genome binding and open chromatin) · human · 76 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
76 samples: 36 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
Extensive enhancer crosstalk controls PPARG2 activation during adipogenesisNature communications · 2026
Summary (written by the submitters)
Transcriptional master regulators drive cell fate transitions. Peroxisome proliferator- activated receptor γ (PPARγ) is the master regulator of adipogenesis, and its expression must therefore be tightly regulated and efficiently induced in response to adipogenic cues. Here we show that the PPARG locus is primed for activation in the mesenchymal stem cell state by a highly connected enhancer (HICE) community.
Read the full summary ↓
By systematically deleting 9 individual enhancers, spanning upstream, promoter-proximal, and downstream super-enhancer constituents, we demonstrate elaborate enhancer crosstalk in cis involving stabilization of C/EBPβ recruitment prior to chromatin remodeling. We show that the super-enhancer constituent E+102 plays a dual role in cis crosstalk and feedback activation and is obligate for activation of PPARG expresison. Non-coding genetic variants associated with cardiometabolic traits and predicted to regulate PPARG expression map E+102 and other essential enhancers in the community, thereby supporting the importance of these enhancers in human physiology and disease.
Published in
Extensive enhancer crosstalk controls PPARG2 activation during adipogenesis
Cetnarowska A, Hyldahl M, Nygård M et al. · Nature communications 2026 · PMID 41832214 · doi:10.1038/s41467-026-70401-7
This dataset
Open GSE300899 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 GSE300899_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 PRJNA1282625 and SRA study SRP594846. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 41832214) ↗
Study design
36 conditions, mostly in duplicate
H3K4me1 ChIP, hMSC-TERT4 undifferentiated ×2 H3K4me1 ChIP, hMSC-TERT4 adipocyte diff d3 ×2 CTCF ChIP, hMSC-TERT4 undifferentiated ×2 CTCF ChIP, hMSC-TERT4 adipocyte diff d1 ×2 CTCF ChIP, hMSC-TERT4 adipocyte diff d10 ×2 PPARgamma ChIP, hMSC-TERT4 undifferentiated ×2 PPARgamma ChIP, hMSC-TERT4 adipocyte diff d1 ×2 PPARgamma ChIP, hMSC-TERT4 adipocyte diff d3 ×2 +32 more

Supports a between-group comparison across 72 samples.

How we read this: 36 replicated groups read from 76 sample titles; they account for 72 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

+ 36 more — browse all 76 samples with per-sample file links →

Datasets on a similar topic

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