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Progressive intestinal tumor cell plasticity, Myc activation and loss of Lgr5+ tumor stem cell lineage commitment upon Wnt depletion

GSE288156 Mus musculus (mouse) ChIP-seq / ATAC-seq (genome binding and open chromatin) 14 samples Submitted 2026/04/27 Platform GPL24247
At a glance

ChIP-seq / ATAC-seq (genome binding and open chromatin) · mouse · 14 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
Mus musculus (mouse)
Samples
14 samples: 5 × ATAC-seq Apc flox ctrl biol vs 4 × ATAC-seq Apc flox;Lef1 del biol vs 2 × Apc flox;Tcf7 del biol vs 2 × Apc flox ctrl biolGroups 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
Progressive intestinal tumor cell plasticity, Myc activation, and loss of Lgr5(+) tumor stem cell lineage commitment upon Wnt depletionScience advances · 2026
Summary (written by the submitters)
ScRNA-seq and ATAC-seq was used to investigate the role of Tcf7 and Lef1 in intestinal adenomas
Published in
Progressive intestinal tumor cell plasticity, Myc activation, and loss of Lgr5(+) tumor stem cell lineage commitment upon Wnt depletion
Lassila M, Seyednasrollah F, Bessone C et al. · Science advances 2026 · PMID 42430492 · doi:10.1126/sciadv.aeb8564
This dataset
Open GSE288156 in finder → Find more mouse RNA-seq 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 GSE288156_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 PRJNA1216291 and SRA study SRP560251. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 42430492) ↗
Study design
5 × ATAC-seq Apc flox ctrl biol vs 4 × ATAC-seq Apc flox;Lef1 del biol vs 2 × Apc flox;Tcf7 del biol vs 2 × Apc flox ctrl biol

Supports a between-group comparison across 13 samples.

How we read this: 4 replicated groups read from 14 sample titles; they account for 13 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
Datasets on a similar topic

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