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Precision targeting of beta-catenin induces tumor reprogramming and immunity in hepatocellular cancers

GSE270977 Mus musculus (mouse) RNA-seq (gene expression) 58 samples Submitted 2025/05/02 Platform GPL24247Platform GPL21626Platform GPL34640
At a glance

RNA-seq (gene expression) · mouse · 58 samples

What it is
RNA-seq (gene expression)Gene activity measured by sequencing. The summary does not mention single-cell work, so this is most likely bulk: one average per sample, the usual starting point for comparing groups.
Organism
Mus musculus (mouse)
Samples
58 samples: 13 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
Precision targeting of β-catenin induces tumor reprogramming and immunity in hepatocellular cancersNature communications · 2025
SuperSeries — this record groups several sub-series.
Summary (written by the submitters)
This SuperSeries is composed of the SubSeries listed below.
Published in
Precision targeting of β-catenin induces tumor reprogramming and immunity in hepatocellular cancers
Lehrich BM, Delgado ER, Yasaka TM et al. · Nature communications 2025 · PMID 40442146 · doi:10.1038/s41467-025-60457-2
This dataset
Open GSE270977 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 GSE270977_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: For RNA-seq the counts are usually a table among the supplementary files (look for 'counts', 'expression', 'FPKM' or 'TPM' in the file name). The series matrix of a sequencing study is sometimes nearly empty.

Also filed as BioProject PRJNA1129135 and SRA study SRP515158. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 40442146) ↗
Study design
13 conditions, mostly in triplicate
B1 ×6 B2 ×5 Met_Bcat_TREAT_BL ×4 CTNNBT_MET_IRF2 ×4 Met_Bcat_CTRL_BL ×3 Nrf2_Bcat_CTRL_BL ×3 Nrf2_Bcat_TREAT_BL ×3 TUMOR.CTRL.BLC ×3 +18 more

Supports a case/control comparison: 1 samples read as cases, 16 as controls.

How we read this: 13 replicated groups read from 58 sample titles; they account for 45 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

+ 18 more — browse all 58 samples with per-sample file links →

Datasets on a similar topic

Search all mouse RNA-seq datasets in GEO →

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