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IL22 supports Long-Term Expansion of Mouse and Human Hepatocytes in vitro.

GSE290952 Homo sapiens (human) RNA-seq (gene expression) 51 samples Submitted 2025/03/06 Platform GPL24676Platform GPL24247
At a glance

RNA-seq (gene expression) · human · 51 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
Homo sapiens (human)
Samples
51 samples: 17 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.
Summary (written by the submitters)
Hepatocytes have wide applications in drug development, disease modeling, and cell therapy. However, to expand hepatocytes in large quantities in vitro without losing their functions remains a challenging task.
Read the full summary ↓
Here we report that IL22, a cytokine highly upregulated after partial hepatectomy or hepatocyte transplantation, could support long-term expansion (>30 passages, with theoretical expansion of ~1030 times within ~150 days) of mice hepatocytes in vitro by dedifferentiate hepatocytes into hepatocyte progenitor cells (HPCs), which maintain the capacity of differentiation into mature hepatocytes. With transcriptomic analysis and lineage-specific deletion, we uncover the critical involvement of STAT3 pathway in IL22-mediated hepatocyte to HPC conversion. Two key transcription factors (TFs) down-stream of STAT3 pathway, Bhlha15 and Arntl2, govern IL22-induced hepatic dedifferentiation. Expression of these two TFs directly initiates the dedifferentiation of hepatocytes into HPCs, which could be expanded in long-term without the supplement of IL22. IL22 also supports human hepatocyte growth in simple culture condition. Within 30 days, human hepatocytes could be expanded by more than 10,000-fold by dedifferentiation into HPCs, which maintain the full capacity of maturation. Collectively, this study provides a simple culture system enables large-scale expansion of both mice and human hepatocytes in vitro, and elucidates the critical pathways and TFs involved in these processes.
This dataset
Open GSE290952 in finder → Find more 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 GSE290952_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 PRJNA1230784 and SRA study SRP567494. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗
Study design
17 conditions, mostly in triplicate
IL22-td-iHPCs(D14) ×3 IL22-td-iHPCs-mouse-1(P30) ×3 IL22-td-iHPCs-mouse-2(P30) ×3 IL22-td-iMHs-mouse-1(P30) ×3 IL22-td-iMHs-mouse-2(P30) ×3 HepaSTAT3f/f (D0) ×3 HepaSTAT3f/f (IL22-HCM, D3) ×3 HepaSTAT3f/f (IL22-HCM, D7) ×3 +9 more

Supports a between-group comparison across 51 samples.

How we read this: 17 replicated groups read from 51 sample titles; they account for 51 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

+ 11 more — browse all 51 samples with per-sample file links →

Datasets on a similar topic

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