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An Nrf2-NF-kB cross-talk controls hepatocyte proliferation in the normal and injured liver

GSE273213 Mus musculus (mouse) RNA-seq (gene expression) 10 samples Submitted 2025/02/25 Platform GPL24247
At a glance

RNA-seq (gene expression) · mouse · 10 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
10 samples: 3 × Freshly-isolated hepatocytes from the control mice vs 3 × p65 DKO hepatocytes vs 2 × Freshly-isolated Nrf2KO hepatocytes vs 2 × Freshly-isolated p65KO hepatocytesGroups 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
An Nrf2-NF-κB Crosstalk Controls Hepatocyte Proliferation in the Normal and Injured LiverCellular and molecular gastroenterology and hepatology · 2025
Summary (written by the submitters)
The liver has remarkable regenerative and detoxification capacities, which require the Nrf2 and NF-kB transcription factors. Although their individual functions in hepatocytes are well characterized, knowledge about their cross-talk in the adult liver is limited. Therefore, we deleted the genes for Nrf2, the NF-kB subunit p65 or both genes in adult hepatocytes of mice using AAV8-Cre viruses.
Read the full summary ↓
Loss of p65 or both genes caused spontaneous liver inflammation and necrosis, combined with a progressive increase in hepatocyte proliferation. Gene expression profiling identified individual and common target genes of both transcription factors, including genes involved in the control of cell proliferation.
Published in
An Nrf2-NF-κB Crosstalk Controls Hepatocyte Proliferation in the Normal and Injured Liver
Kuklin A, Slabber CF, Tortola L et al. · Cellular and molecular gastroenterology and hepatology 2025 · PMID 39970988 · doi:10.1016/j.jcmgh.2025.101480
This dataset
Open GSE273213 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 GSE273213_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 PRJNA1140612 and SRA study SRP522474. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 39970988) ↗
Study design
3 × Freshly-isolated hepatocytes from the control mice vs 3 × p65 DKO hepatocytes vs 2 × Freshly-isolated Nrf2KO hepatocytes vs 2 × Freshly-isolated p65KO hepatocytes

Supports a between-group comparison across 10 samples.

How we read this: 4 replicated groups read from 10 sample titles; they account for 10 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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