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Hv1 upregulation worsens spinal, spleen, and lung molecular pathology and impairs locomotion after spinal cord injury in aged male mice

GSE313209 Mus musculus (mouse) RNA-seq (gene expression) 123 samples Submitted 2025/12/17 Platform GPL34290
At a glance

RNA-seq (gene expression) · mouse · 123 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
123 samples: 24 conditions, mostly with about 5 replicates eachGroups 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
Hv1 Upregulation Worsens Spinal, Spleen, and Lung Molecular Pathology and Impairs Locomotion after Spinal Cord Injury in Aged Male MiceAging and disease · 2025
Summary (written by the submitters)
Spinal cord injury (SCI) induces both intraspinal damage and systemic organ pathology, with aging as a major determinant of outcome. However, how advanced age exacerbates SCI pathology remains unclear. The voltage-gated proton channel Hv1, a regulator of immune activation, increases with age and after SCI, and its deletion is neuroprotective in young mice.
Read the full summary ↓
Thus, we hypothesized that age-related Hv1 upregulation worsens spinal cord, spleen, and lung pathology and hinders locomotor recovery after SCI through immune modulation. Using aged Hv1 KO and WT male mice subjected to moderate SCI, we assessed behavioral and molecular outcomes. Transcriptomic analysis revealed that Hv1 mRNA expression was higher in the brains of aged sham mice and further upregulated in injured spinal cord tissues. Spinal cord RNA-seq showed acute innate immune and cytokine activation in both genotypes. Hv1 deletion enhanced chromatin remodeling, epigenetic and Wnt signaling, while suppressing NF-κB–driven inflammation and oxidative stress–induced apoptosis. In the spleen, Hv1 depletion enhanced immune responses while suppressing mitosis. T cell and leukocyte activation increased, whereas lung cytokine signaling decreased. At 6 weeks after SCI, Hv1 KO mice showed elevated expression of genes related to circadian rhythm and T cell proliferation in the spinal cord, increased mitotic gene expression but reduced adaptive immunity in the spleen, and enhanced immune activation with decreased cilium activity in the lungs.
Published in
Hv1 Upregulation Worsens Spinal, Spleen, and Lung Molecular Pathology and Impairs Locomotion after Spinal Cord Injury in Aged Male Mice
Wang Z, Li Y, Lee H et al. · Aging and disease 2025 · PMID 41400580 · doi:10.14336/AD.2025.1122
This dataset
Open GSE313209 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 GSE313209_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 PRJNA1378795 and SRA study SRP654820. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 41400580) ↗
Study design
24 conditions, mostly with about 5 replicates each
Mouse Lung, Hv1 knockout, Spinal Cord Injury … ×7 Mouse Spinal Cord, Hv1 knockout, Spinal Cord … ×7 Mouse Spleen, Hv1 knockout, Spinal Cord Injur… ×7 Mouse Lung, Hv1 knockout, Sham, 7 days after … ×5 Mouse Spinal Cord, Hv1 knockout, Sham, 7 days… ×5 Mouse Spleen, Hv1 knockout, Sham, 7 days afte… ×5 Mouse Lung, wild-type, Spinal Cord Injury (SC… ×5 Mouse Spinal Cord, wild-type, Spinal Cord Inj… ×5 +16 more

Supports a case/control comparison: 36 samples read as cases, 57 as controls.

How we read this: 24 replicated groups read from 123 sample titles; they account for 123 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

+ 83 more — browse all 123 samples with per-sample file links →

Datasets on a similar topic

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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.