Transcriptional regulation of T cell exhaustion in immune checkpoint blockade resistance at single-cell resolution
Single-cell RNA-seq · mouse · 16 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
- 16 samples: 16 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
- Transcriptional dynamics of CD8(+) T-cell exhaustion in immune checkpoint inhibitor resistance at single-cell resolutionMolecular cancer · 2025
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 GSE268165_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 PRJNA1114781 and SRA study SRP509293. 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 16 sample titles: 16 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.
- GSM8286676 ex vivo model-Exhausted CD8+ T cells (96h) [scATAC-seq]
- GSM8286677 ex vivo model-Exhausted CD8+ T cells (72h) [scATAC-seq]
- GSM8286678 ex vivo model-Naïve CD8+ T cells [scATAC-seq]
- GSM8286679 ex vivo model-Active CD8+ T cells [scATAC-seq]
- GSM8286680 ex vivo model-Exhausted CD8+ T cells (96h) [scRNA-seq]
- GSM8286681 ex vivo model-Exhausted CD8+ T cells (72h) [scRNA-seq]
- GSM8286682 ex vivo model-Naïve CD8+ T cells [scRNA-seq]
- GSM8286683 ex vivo model-Active CD8+ T cells [scRNA-seq]
- GSM8286694 long-term (57d) isotype, replicate 1, scRNAseq
- GSM8286695 long-term (57d) isotype, replicate 2, scRNAseq
- GSM8286696 long-term (57d) antiPD1, replicate 1, scRNAseq
- GSM8286697 long-term (57d) antiPD1, replicate 2, scRNAseq
- GSM8286698 short-term (20d) isotype, replicate 1, scRNAseq
- GSM8286699 short-term (20d) isotype, replicate 2, scRNAseq
- GSM8286700 short-term (20d) antiPD1, replicate 1, scRNAseq
- GSM8286701 short-term (20d) antiPD1, replicate 2, scRNAseq
- GSE300288 Single-cell and spatial transcriptomics analysis of tobacco-associated lung adenocarcinoma development, and in response to targeting inflammation alone or in combination with immune checkpoint blockade in precancerous phase [scRNA-seq] 31 samples shares single-cell, checkpoint, blockade
- GSE254919 Extracellular vesicles from obese visceral adipose promote pancreatic cancer development and resistance to immune checkpoint blockade therapy [ATAC-seq] 12 samples shares checkpoint, resistance, blockade
- GSE270050 Expansion of Tumor-Infiltrating CD8+ T Cell Clonotypes Occurs in the Spleen in Response to Immune Checkpoint Blockade 29 samples shares checkpoint, blockade
- GSE334497 TROP2/claudin program mediates immune exclusion to impede checkpoint blockade in breast cancer 10 samples shares checkpoint, blockade
- GSE277789 Spatiotemporal and genetic cell lineage tracing of endodermal organogenesis at single-cell resolution [Smart-seq3-RNA-seq-add] 830 samples shares single-cell, resolution
- GSE150817 Transcriptional dynamics of the murine heart during perinatal development at single-cell resolution 30 samples shares single-cell, resolution
- GSE278990 Single-cell screens identify ADAM12 as a fibroblast checkpoint impeding anti-tumor immunity 73 samples shares single-cell, checkpoint
- GSE223164 Osr2 functions as a biomechanical checkpoint to aggravate CD8+ T cell exhaustion in tumor 49 samples shares exhaustion, checkpoint
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.