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Gene expression of hippocampus from 9-month-old wildtype mice with sham/400 mGy X-ray irradiation treatment and 9-month-old 3xTg-AD mice with sham/400 mGy X-ray irradiation treatment

GSE246670 Mus musculus (mouse) RNA-seq (gene expression) 12 samples Submitted 2025/10/31 Platform GPL24247
At a glance

RNA-seq (gene expression) · mouse · 12 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
12 samples: 3 × Sham irradiated hippocampus from 9-month-old WT mice, vs 3 × hippocampus received 400 mGy X-ray irradiation from 9-month-old WT mice, vs 3 × Sham irradiated hippocampus from 9-month-old 3xTg-AD mice, vs 3 × hippocampus received 400 mGy X-ray irradiation from 9-month-old 3xTg-AD mice,Groups 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
Microglial Deletion of Hrh4 Alleviates Alzheimer's Disease Pathologies by Enhancing Microglial Phagocytosis of Amyloid-β and TauAdvanced science (Weinheim, Baden-Wurttemberg, Germany) · 2026
Summary (written by the submitters)
Current study aimed to identify the 400 mGy X-ray irradiation-induced unique gene expression changes in the hippocampus of the 9-month-old 3xTg-AD mice.
Published in
Microglial Deletion of Hrh4 Alleviates Alzheimer's Disease Pathologies by Enhancing Microglial Phagocytosis of Amyloid-β and Tau
Xu YJ, Wu T, Lo LT et al. · Advanced science (Weinheim, Baden-Wurttemberg, Germany) 2026 · PMID 41134085 · doi:10.1002/advs.202505421
This dataset
Open GSE246670 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 GSE246670_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 PRJNA1034102 and SRA study SRP469483. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 41134085) ↗
Study design
3 × Sham irradiated hippocampus from 9-month-old WT mice, vs 3 × hippocampus received 400 mGy X-ray irradiation from 9-month-old WT mice, vs 3 × Sham irradiated hippocampus from 9-month-old 3xTg-AD mice, vs 3 × hippocampus received 400 mGy X-ray irradiation from 9-month-old 3xTg-AD mice,

Supports a between-group comparison across 12 samples.

How we read this: 4 replicated groups read from 12 sample titles; they account for 12 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

Search all mouse RNA-seq datasets in GEO →

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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.