Distinct Stemness Programs and PD-1 Responsiveness of Progenitor Exhausted CD8+ T Cells between Chronic Viral Infection and Tumor
Single-cell RNA-seq · mouse · 10 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
- 10 samples: 10 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.
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 GSE320007_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 PRJNA1425970 and SRA study SRP678254. Searching any of these in the dataset finder brings you back here.
Supports a case/control comparison: 2 samples read as cases, 3 as controls.
How we read this: Read from 10 sample titles: 10 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.
- GSM9531705 Cl13_P14, Vehicle, liver, D21
- GSM9531706 Cl13_P14, aPDL1, liver , D21
- GSM9531707 B16gp_P14. Vehicle, liver metastasis, D21
- GSM9531708 B16gp_P14, aPDL1, liver metastasis, D21
- GSM9531709 B16gp_P14. Vehicle, lung metastasis, D21
- GSM9531710 B16gp_P14. FTY720, lung metastasis, D21
- GSM9531711 Cl13_MigR1_P14, Vehicle, spleen, D21
- GSM9531712 Cl13_MigR1_P14, aPD-L1, spleen, D21
- GSM9531713 Cl13_STAT3CA_P14, Vehicle, spleen, D21
- GSM9531714 Cl13_STAT3CA_P14, aPD-L1, spleen, D21
- GSE342096 Distinct activation programs in naïve and memory CD8 T cells govern progeny stemness and effector persistence 37 samples shares cd8, distinct, stemness, programs
- GSE285187 A core stemness program in exhausted CD8+ T cells 24 samples shares cd8, exhausted, stemness
- GSE262842 Antitumor progenitor exhausted CD8 T cells are sustained with TCR engagement [ATACseq] 24 samples shares cd8, progenitor, exhausted
- GSE261642 PLPP1-deficiency-mediated ferroptosis induced by PD-1 signaling impairs antitumor activity of intratumoral CD8+ T cells I 23 samples shares pd-1, cd8
- GSE290839 PD-1 regulates tumor-infiltrating CD8+ T cells in both a cell-intrinsic and cell-extrinsic fashion [scRNA-seq] 20 samples shares pd-1, cd8
- GSE269347 Daunorubicin-induced T cell remodeling facilitates a high antitumor response to PD-1 blockade therapy by promoting the expansion and effector function of CD8+ prolifeating T cells [scRNA-Seq] 16 samples shares pd-1, cd8
- GSE320177 All -trans retinoic acid suppresses CD8+ T cell terminal exhaustion which enhances anti–PD-1 efficacy against glioblastoma [RNA-Seq] 12 samples shares pd-1, cd8
- GSE252358 Acetylcyssteine synergizes PD-1 blockers against colorectal cancer progression by promoting TCF1+PD1+CD8+ T cell differentiation in mice 10 samples shares pd-1, cd8
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.