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YAP/TAZ cooperate with AP-1 to drive the mesenchymal cell state in neuroblastoma [CnR]

GSE275987 Homo sapiens (human) ChIP-seq / ATAC-seq (genome binding and open chromatin) 42 samples Submitted 2025/10/02 Platform GPL24676
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)
Topic
NeuroblastomaThis series is part of our curated briefing on it.
Samples
42 samples: 18 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)
Cellular plasticity is a major driver of therapy resistance in cancer. For the pediatric solid tumor neuroblastoma, two distinct tumor cell phenotypes have been identified: adrenergic (ADR) and mesenchymal (MES) cells. Of those, the MES cells pose a rare subtype resistant to common treatment options. Here, we developed an image-based compound screen to interrogate vulnerabilities specific to the MES phenotype at single-cell resolution in heterogeneous neuroblastoma cultures.
Read the full summary ↓
Among the top hits, we identified inhibition of the transcriptional co-activators YAP/TAZ as a specific target in MES cells. Based on their chromatin binding, we show that YAP/TAZ cooperate with AP-1 transcription factors to regulate MES gene expression by forming a core-regulatory circuitry. We further provide evidence of a subset of tumor cells in patients co-expressing these factors. Collectively, we demonstrate that YAP/TAZ and AP-1 drive neuroblastoma tumor cell plasticity and present a novel therapeutic vulnerability with the potential to overcome treatment resistance.
This dataset
Open GSE275987 in finder → Find more human ChIP / ATAC / CUT&Tag datasets → Neuroblastoma 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 GSE275987_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 PRJNA1154235 and SRA study SRP529427. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗
Study design
18 conditions, mostly in duplicate
CLB-Ma-M H3K27ac ×2 CLB-Ma-M H3K4me1 ×2 CLB-Ma-A IgG ×2 CLB-Ma-A H3K27ac ×2 CLB-Ma-A H3K4me1 ×2 SK-N-SH-M IgG ×2 SK-N-SH-M H3K4me1 ×2 SK-N-SH-A IgG ×2 +16 more

Supports a between-group comparison across 36 samples.

How we read this: 18 replicated groups read from 42 sample titles; they account for 36 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 →

More Neuroblastoma datasets

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

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.