Single-Cell Atlas of the Tumor Immune Microenvironment Across Syngeneic Murine Models
Single-cell RNA-seq · mouse · 30 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
- 30 samples: 10 conditions, mostly in triplicateGroups 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
- Single-cell atlas of the tumor immune microenvironment across syngeneic murine modelsFrontiers in immunology · 2025
Read the full summary ↓
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 GSE307143_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 PRJNA1314645 and SRA study SRP616977. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 30 samples.
How we read this: 10 replicated groups read from 30 sample titles; they account for 30 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.
- GSM9217269 MC38 _1 MC38
- GSM9217270 MC38 _2 MC38
- GSM9217271 MC38 _3 MC38
- GSM9217272 RENCA_1 RENCA
- GSM9217273 RENCA_2 RENCA
- GSM9217274 RENCA_3 RENCA
- GSM9217275 MMTV-PyMT_1 MMTV-PyMT
- GSM9217276 MMTV-PyMT_2 MMTV-PyMT
- GSM9217277 MMTV-PyMT_3 MMTV-PyMT
- GSM9217278 4T1_1 4T1
- GSM9217279 4T1_2 4T1
- GSM9217280 4T1_3 4T1
- GSM9217281 CT26WT_1 CT26WT
- GSM9217282 CT26WT_2 CT26WT
- GSM9217283 CT26WT_3 CT26WT
- GSM9217284 B16F10_1 B16F10
- GSM9217285 B16F10_2 B16F10
- GSM9217286 B16F10_3 B16F10
- GSM9217287 EMT6_1 EMT6
- GSM9217288 EMT6_2 EMT6
- GSM9217289 EMT6_3 EMT6
- GSM9217290 LL2_1 LL2
- GSM9217291 LL2_2 LL2
- GSM9217292 LL2_3 LL2
- GSM9217293 Pan02_1 Pan02
- GSM9217294 Pan02_2 Pan02
- GSM9217295 Pan02_3 Pan02
- GSM9217296 GL261_1 GL261
- GSM9217297 GL261_2 GL261
- GSM9217298 GL261_3 GL261
- GSE276180 Single-cell temporal landscape of tumor microenvironment of lung cancer and lung metastases 37 samples shares microenvironment, single-cell
- GSE315482 Single-Cell Multi-omics Profiling of Mouse Hepatic Immune Microenvironment Reveals Neutrophil-Kupffer Cell Crosstalk via Thrombospondin-1/CD36 after Surgical Stress 10 samples shares microenvironment, single-cell
- 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, across
- GSE310028 Dissecting Semaglutide-dependent transcriptome response in obesity and osteoarthritis across tissues at single-cell resolution 28 samples shares single-cell, across
- GSE292146 Tractable mouse TNBC models capture the heterogeneous tumor immune microenvironment and adaptation to PD-L1 blockade 38 samples shares microenvironment
- GSE262879 Single-cell RNA-sequencing of murine pancreatic tumors derived from the orthotopic transplantation of Smad4 wild-type (WT) or Smad4 knockout (KO) pancreatic ductal adenocarcinoma (PDAC) KPC organoids in nu/nu mice. 18 samples shares single-cell
- GSE192687 Single-cell RNAseq analysis of renal endothelial cells in murine diabetic nephropathy 5464 samples shares single-cell
- GSE305266 The cortical microenvironment drives early immune organization and controls early osteoclastogenesis in bone healing 90 samples shares microenvironment
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.