Blockade of avb8 integrin synergizes with checkpoint inhibition to enhance anti-tumor immunity through Cxcl9-dependent augmentation of CD8+ T cell cytotoxicity
Single-cell RNA-seq · mouse · 12 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
- 12 samples: 12 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.
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 GSE207029_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 PRJNA853341 and SRA study SRP383815. 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 12 sample titles: 12 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.
- GSM6268583 EMT-6 tumor, isotype control, replicate 1, scRNAseq
- GSM6268584 EMT-6 tumor, isotype control, replicate 2, scRNAseq
- GSM6268585 EMT-6 tumor, isotype control, replicate 3, scRNAseq
- GSM6268586 EMT-6 tumor, combined anti-PD1 & anti-avb8, replicate 1, scRNAseq
- GSM6268587 EMT-6 tumor, combined anti-PD1 & anti-avb8, replicate 2, scRNAseq
- GSM6268588 EMT-6 tumor, combined anti-PD1 & anti-avb8, replicate 3, scRNAseq
- GSM6268589 EMT-6 tumor, anti-PD1, replicate 1, scRNAseq
- GSM6268590 EMT-6 tumor, anti-PD1, replicate 2, scRNAseq
- GSM6268591 EMT-6 tumor, anti-PD1, replicate 3, scRNAseq
- GSM6268592 EMT-6 tumor, anti-avb8, replicate 1, scRNAseq
- GSM6268593 EMT-6 tumor, anti-avb8, replicate 2, scRNAseq
- GSM6268594 EMT-6 tumor, anti-avb8, replicate 3, scRNAseq
- GSE235242 Senescent cancer-associated fibroblasts in pancreatic adenocarcinoma suppress CD8+ T cell activation and inhibit response to immune checkpoint therapy [Kras_p53] 14 samples shares cd8, checkpoint
- GSE252358 Acetylcyssteine synergizes PD-1 blockers against colorectal cancer progression by promoting TCF1+PD1+CD8+ T cell differentiation in mice 10 samples shares cd8, synergizes
- GSE223164 Osr2 functions as a biomechanical checkpoint to aggravate CD8+ T cell exhaustion in tumor 49 samples shares cd8, checkpoint
- GSE157232 The CD8+ T cell tolerance checkpoint triggers a transcriptionally and epigenetically distinct differentiation state defined by protein translation defects 30 samples shares cd8, checkpoint
- GSE270050 Expansion of Tumor-Infiltrating CD8+ T Cell Clonotypes Occurs in the Spleen in Response to Immune Checkpoint Blockade 29 samples shares cd8, checkpoint
- GSE223157 Osr2 functions as a mechanical checkpoint to augment CD8+ T cell exhaustion [YODA1_vs_DMSO_ATAC_CD8] 12 samples shares cd8, checkpoint
- GSE307388 Immune checkpoint blockade augments lymphodepleting chemotherapy-induced antitumor immunity by expanding effector CD8+ T cell clones in preclinical models of cancer 12 samples shares cd8, checkpoint
- GSE296763 Mitochondrial respiration is necessary for CD8 T cell proliferation and cell fate 99 samples shares 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.