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Single cell RNA sequencing of hippocampus and hypothalamus in AD mice with fructose-induced MetS and DHA and NR supplementation

GSE292341 Mus musculus (mouse) Single-cell RNA-seq 48 samples Submitted 2026/04/06 Platform GPL24247
At a glance

Single-cell RNA-seq · mouse · 48 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
48 samples: 42 distinct titles, 6 of them repeatedGroups 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)
Alzheimer’s disease (AD) is a pervasive neurodegenerative disorder with hallmarks of beta-amyloid (Aβ) plaques and neurofibrillary tangles. In light of the suboptimal benefit of Aβ clearing drugs to patients, the association between metabolic disorders and AD provides an alternative angle to understand the role of metabolic dysfunction in AD pathogenesis and the potential of modulating metabolism for improved therapeutic development.
Read the full summary ↓
We investigated the effects of metabolic and nutritional modulators, namely, high fructose consumption as a potential risk, and docosahexaenoic acid (DHA) and nicotinamide riboside (NR) as potentially beneficial, on cell type specific transcriptomic responses in the hippocampus and hypothalamus of an AD mouse model. Fructose-induced metabolic syndrome increased expression of complement component 3 in ependymal cells and inflammatory genes in microglia, which were normalized by DHA and NR. NR and DHA led to reversals of Aβ signatures across cell types and targeted different aspects of microglial reactivity between AD and metabolically challenged AD. Our study supports the impact of metabolic regulation on neuroinflammation and provides molecular support for utilizing metabolic modulators for AD intervention.
This dataset
Open GSE292341 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 GSE292341_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 PRJNA1238200 and SRA study SRP571523. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗
Study design
42 distinct titles, 6 of them repeated
5xFAD, hippocampus, rep1, ×2 5xFAD, hippocampus, rep2, ×2 5xFAD, hippocampus, rep3, ×2 5xFAD, hypothalamus, rep1, ×2 5xFAD, hypothalamus, rep2, ×2 5xFAD, hypothalamus, rep3, ×2

How we read this: Read from 48 sample titles: 42 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

+ 8 more — browse all 48 samples with per-sample file links →

Datasets on a similar topic

Search all mouse RNA-seq datasets in GEO →

Share this dataset

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.