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Targeting lysozyme 2 in endocardium promotes rapid recovery by modulating remote injury signals

GSE244650 Mus musculus (mouse) Single-cell RNA-seq 13 samples Submitted 2025/09/09 Platform GPL24247

At a glance

Single-cell RNA-seq · mouse · 13 samples

What it is: Single-cell RNA-seqGene activity measured in thousands of individual cells, so cell types can be told apart. Read from the summary: GEO's own type field only says 'expression profiling by sequencing', so confirm it in the paper.
Organism: Mus musculus (mouse)
Samples: 13 samples: 11 distinct titles, 2 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.
Paper: Targeting lysozyme 2 in endocardium promotes rapid recovery by modulating remote injury signalsCell stem cell · 2025

Summary (written by the submitters)

Intrinsic molecular strategy at the organ level to injury stimuli remains elusive. Identifying and modulating such potential molecular strategy for systemic adaptations to injury is theoretically fascinating and therapeutically promising. Here, using integrative single-cell and spatial transcriptomic analysis, we reported that lysozyme 2 (Lyz2), a long-established myeloid marker, surprisingly indicated global injury status (across cell types and anatomic divisions) and influenced cardiac function after injury.

Read the full summary ↓

We correlated the Lyz2 regulon of the lysosome-matrisome (particularly endocardial lysosomal-degrading Hspgs) with anatomical and functional relevance to cardiac injury and determined that such spatial model is consensus across various injury types, both mouse and human. Modulation of spatial model mediated by Lyz2 via genetic deletion or chemical inhibition in adult mice with myocardial infarction remarkably achieved immediate protective effects, a rare therapeutic benefit among current interventions for heart failure. These results provided the first molecular evidence for the unprecedented molecular strategy adopted by the heart with unparalleled therapeutic promising for organ repair.

Published in

Targeting lysozyme 2 in endocardium promotes rapid recovery by modulating remote injury signals

Fan C, Song S, Han Y et al. · Cell stem cell 2025 · PMID 40967223 · doi:10.1016/j.stem.2025.08.015

This dataset

Open GSE244650 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 GSE244650_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 PRJNA1020450 and SRA study SRP462864. Searching any of these in the dataset finder brings you back here.

NCBI GEO page ↗ Paper (PMID 40967223) ↗

Study design

11 distinct titles, 2 of them repeated

5dpr ×2 7dpr ×2

How we read this: Read from 13 sample titles: 11 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

GSM7823248 1dpr
GSM7823249 1dwt
GSM7823250 2dpr
GSM7823251 3dpr
GSM7823252 4dpr
GSM7823253 4dsh
GSM7823254 5dpr_rep1
GSM7823255 5dpr_rep2
GSM7823256 6dpr
GSM7823257 6dsh
GSM7823258 7dwt
GSM7823259 7dpr_rep1
GSM7823260 7dpr_rep2

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