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Hnf1a mutation in insulin producing beta-cells affect cell function and identity in adult mice

GSE193327 Mus musculus (mouse) RNA-seq (gene expression) 22 samples Submitted 2025/12/30 Platform GPL21626
At a glance

RNA-seq (gene expression) · mouse · 22 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
22 samples: 6 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
The age-dependent regulation of pancreatic islet landscape is fueled by a HNF1a-immune signaling loopMechanisms of ageing and development · 2024
Summary (written by the submitters)
Purpose: Hnf1a is an important regulator of pancreas development. Mutation in this gene in humans lead to Maturity Onset Diabetes of the Young 3. Previous studies have shown that Hnf1a is important in function of insulin producing cells. However, they have not payed attention to islet cell identity, which we have focused on. Methods: Male WT mice or mice carrying either a single (htz) or both (hmz) floxed alles of the Hnf1a gene specifically in insulin producing beta-cells controlled by RIP-cre were maintainted in normal housing condition and glyceamia were monitored twice a week.
Read the full summary ↓
Islet cells were isolated from 12 or 24 weeks old mice of each group and mRNA were extracted before shipping to Qiagen for analysis. Results: Mice carrying the floxed Hnf1a in beta-cells were mildly hyperglyceamic with alterations in expression of important cell identiy genes, potentially more sever with age.
Published in
The age-dependent regulation of pancreatic islet landscape is fueled by a HNF1a-immune signaling loop
Mathisen AF, Legøy TA, Larsen U et al. · Mechanisms of ageing and development 2024 · PMID 38825059 · doi:10.1016/j.mad.2024.111951
This dataset
Open GSE193327 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 GSE193327_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 PRJNA795803 and SRA study SRP354154. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 38825059) ↗
Study design
6 conditions, mostly in triplicate
12w - Beta-cell Hnf1a fl/fl - islet cells ×5 24w - Beta-cell Hnf1a fl/fl - islet cells ×4 24w - WT - islet cells ×4 12w - Beta-cell Hnf1a fl/wt - islet cells ×3 12w - WT - islet cells ×3 24w - Beta-cell Hnf1a fl/wt - islet cells ×3

Supports a between-group comparison across 22 samples.

How we read this: 6 replicated groups read from 22 sample titles; they account for 22 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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