GEO series

Dissecting Semaglutide-dependent transcriptome response in obesity and osteoarthritis across tissues at single-cell resolution

GSE310028 Mus musculus (mouse) Single-cell RNA-seq 28 samples Submitted 2026/05/06 Platform GPL24247

At a glance

Single-cell RNA-seq · mouse · 28 samples

What it is: Single-cell RNA-seqGene activity measured in thousands of individual cells, so cell types can be told apart.
Organism: Mus musculus (mouse)
Samples: 28 samples: 28 samples, each with a distinct title — no replicated groupsGroups 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: Semaglutide targets muscle mitochondria to regulate glutamine metabolism and treat osteoarthritisiScience · 2026

Summary (written by the submitters)

The clinical observations of semaglutide cannot be fully explained by the classical GLP-1R signaling, indicating that semaglutide may exert its effects through a more complex multi tissue regulatory network. Based on this background, this study utilized high-fat diet (HFD) - induced obesity and surgery induced osteoarthritis (OA) models to simulate metabolic joint complications.

Read the full summary ↓

By systematically collecting peripheral blood (PB), bone marrow (BM), liver, brain tissue, and skeletal muscle from C57BL/6 mice, and integrating 10x Genomics single-cell transcriptome sequencing, we constructed a cross tissue cell atlas that covers the immune, nervous, and motor metabolic systems under treatment with semaglutide. In addition, we compared the gene expression disturbances in mouse tissues after administration of semaglutide. Through these comparisons, we can more accurately decipher the specific effects of semaglutide treatment on gene expression in mice, thereby gaining a deeper understanding of their mechanisms of action in vivo.

Published in

Semaglutide targets muscle mitochondria to regulate glutamine metabolism and treat osteoarthritis

Tian Y, Zheng Z, Ma Y et al. · iScience 2026 · PMID 42305583 · doi:10.1016/j.isci.2026.116347

This dataset

Open GSE310028 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 GSE310028_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: Single-cell studies usually ship their counts as 10x files (matrix.mtx, barcodes.tsv, features.tsv), an .h5 file, or an .rds / .h5ad object that Seurat or Scanpy can open. Look for those among the supplementary files.

Also filed as BioProject PRJNA1365020 and SRA study SRP646853. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 42305583) ↗

Study design

28 samples, each with a distinct title — no replicated groups

Any grouping that defines a comparison lives in the sample characteristics, which GEO records separately from the titles.

How we read this: Read from 28 sample titles: 28 distinct titles with little repetition. 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

GSM9286785 blood, common diet, osteoarthritis, saline-injection
GSM9286786 blood, common diet, sham operation, saline-injection
GSM9286787 liver, common diet, osteoarthritis, saline-injection
GSM9286788 liver, common diet, sham operation, saline-injection
GSM9286789 bone marrow, common diet, sham operation, saline-injection
GSM9286790 bone marrow, common diet, sham operation, semaglutide-injection
GSM9286791 bone marrow, high-fat diet, sham operation, saline-injection
GSM9286792 bone marrow, high-fat diet, sham operation, semaglutide-injection
GSM9286793 bone marrow, common diet, osteoarthritis, saline-injection
GSM9286794 bone marrow, common diet, osteoarthritis, semaglutide-injection
GSM9286795 bone marrow, high-fat diet, osterarthritis, saline-injection
GSM9286796 bone marrow, high-fat diet, osterarthritis, semaglutide-injection
GSM9286797 brain, common diet, sham operation, saline-injection
GSM9286798 brain, common diet, sham operation, semaglutide-injection
GSM9286799 brain, high-fat diet, sham operation, saline-injection
GSM9286800 brain, high-fat diet, sham operation, semaglutide-injection
GSM9286801 brain, common diet, osteoarthritis, saline-injection
GSM9286802 brain, common diet, osteoarthritis, semaglutide-injection
GSM9286803 brain, high-fat diet, osterarthritis, saline-injection
GSM9286804 brain, high-fat diet, osterarthritis, semaglutide-injection
GSM9286805 muscle, common diet, sham operation, saline-injection
GSM9286806 muscle, common diet, sham operation, semaglutide-injection
GSM9286807 muscle, high-fat diet, sham operation, saline-injection
GSM9286808 muscle, high-fat diet, sham operation, semaglutide-injection
GSM9286809 muscle, common diet, osteoarthritis, saline-injection
GSM9286810 muscle, common diet, osteoarthritis, semaglutide-injection
GSM9286811 muscle, high-fat diet, osterarthritis, saline-injection
GSM9286812 muscle, high-fat diet, osterarthritis, semaglutide-injection

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Metadata from NCBI GEO, cached and refreshed periodically — the NCBI page above is authoritative. Downloads link straight to NCBI/ENA; nothing is proxied through BioTransfer.