Single-cell RNA/TCR-seq of T cells from murine muscle injury and foreign body response to synthetic biomaterial implants
Single-cell RNA-seq · mouse · 15 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
- 15 samples: 15 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
- γδ T cell-stromal networks modulate matrix composition and vascularity in foreign body responseNature communications · 2026
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.
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.
Supplementary files
The count tables and other files the authors uploaded. Take only the samples you need, or the whole study as GSE306147_RAW.tar (it can run to tens of gigabytes).
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.
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 PRJNA1309587 and SRA study SRP610722. Searching any of these in the dataset finder brings you back here.
Any grouping that defines a comparison lives in the sample characteristics, which GEO records separately from the titles.
How we read this: Read from 15 sample titles: 15 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.
- GSM9194061 1wk Saline Pooled scRNAseq
- GSM9194062 1wk Saline Pooled abTCRseq
- GSM9194063 1wk Saline Pooled gdTCR
- GSM9194064 1wk PCL Pooled scRNAseq
- GSM9194065 1wk PCL Pooled abTCR
- GSM9194066 1wk PCL Pooled gdTCR
- GSM9194067 1wk PCL Hashed scRNAseq
- GSM9194068 1wk PCL Hashed abTCR
- GSM9194069 1wk PCL Hashed gdTCR
- GSM9194070 6wk PCL Hashed scRNAseq
- GSM9194071 6wk PCL Hashed abTCR
- GSM9194072 6wk PCL Hashed gdTCR
- GSM9194073 12wk PCL Hashed scRNAseq
- GSM9194074 12wk PCL Hashed abTCR
- GSM9194075 12wk PCL Hashed gdTCR
- GSE304674 scHiCAR: a tri-modal single-cell genomics technology for integrated transcriptome, epigenome, and 3D genome analysis in complex tissues [mouse_skeletal_muscle_scHiCAR] 50 samples shares single-cell, muscle
- GSE269748 A single-cell atlas deconstructs heterogeneity across multiple models in murine traumatic brain injury and identifies novel cell-specific targets 36 samples shares single-cell, injury
- GSE264278 TIme-cource single-cell RNA-seq analysis of bleomycin and LPS-induced lung injury and fibrosis 18 samples shares single-cell, injury
- GSE239287 Single-cell transcriptome sequencing of macrophages in acute kidney injury(AKI) to chronic kidney dieases(CKD) 17 samples shares single-cell, injury
- GSE249931 Temporal single-cell profiling of distinct mesenchymal, epithelial, endothelial, and immune cell lineages in the lung after injury 17 samples shares single-cell, injury
- GSE276682 Single-cell transcriptome analysis revealed cellular reprogramming following Tetramethylpyrazine treatment in LPS-induced acute lung injury 12 samples shares single-cell, injury
- GSE329706 Single-cell RNA sequencing of the mouse hippocampus after spared nerve injury (SNI) modeling 11 samples shares single-cell, injury
- GSE274819 Single-cell RNA sequencing of murine kidneys for ischemia-reperfusion induced renal injury and fibrosis 10 samples shares single-cell, injury
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.