Paired VDJ and transcriptome single cell sequencing in LMP2 multimer-positive human T cells treated with anti-PD-L1 and anti-TIM3 antibodies.
Single-cell RNA-seq · human · 12 samples
- What it is
- Single-cell RNA-seqGene activity measured in thousands of individual cells, so cell types can be told apart.
- Organism
- Homo sapiens (human)
- 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.
- Paper
- Combined PD-L1 and TIM3 blockade improves expansion of fit human CD8(+) antigen-specific T cells for adoptive immunotherapyMolecular therapy. Methods & clinical development · 2022
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 GSE181682_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 PRJNA753016 and SRA study SRP331634. 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.
- GSM5509214 Ctrl_N1_SC
- GSM5509215 Ctrl_N2_SC
- GSM5509216 Ctrl_N3_SC
- GSM5509217 Ctrl_N1_VDJ
- GSM5509218 Ctrl_N2_VDJ
- GSM5509219 Ctrl_N3_VDJ
- GSM5509220 DB_N1_SC
- GSM5509221 DB_N2_SC
- GSM5509222 DB_N3_SC
- GSM5509223 DB_N1_VDJ
- GSM5509224 DB_N2_VDJ
- GSM5509225 DB_N3_VDJ
- GSE272100 Anti-PD-L1 antibodies exacerbate arthritis and pain via increased production of CXCL8/IL-8 and FGF9 in synovial fibroblasts 4 samples shares anti-pd-l1, antibodies
- GSE286827 4-1BB+ Tregs and inhibitory progenitor exhausted T cells confer resistance to anti-PD-L1 and anti-CTLA-4 combination therapy 87 samples shares anti-pd-l1
- GSE271668 Phase 1 trial of durvalumab (anti-PD-L1) in combination with lenalidomide in relapsed/refractory cutaneous T cell lymphoma 24 samples shares anti-pd-l1
- GSE313827 Dysregulation of the Hippo Pathway in Cancer Associated Fibroblasts is Associated with anti-PD-L1 atezolizumab Resistance 18 samples shares anti-pd-l1
- GSE312549 Telomere damage enhances immunogenicity of neuroblastoma and accelerates response to anti-PD-L1 treatment 14 samples shares anti-pd-l1
- GSE233820 PARP inhibitor radiosensitization enhances anti-PD-L1 immunotherapy through depression of chemokine translation in small cell lung cancer 12 samples shares anti-pd-l1
- GSE279750 ACE2 Enhances Sensitivity to PD-L1 Blockade by Inhibiting Macrophage-Induced Immunosuppression and Angiogenesis [RNA-seq, anti-PD-L1 therapy] 10 samples shares anti-pd-l1
- GSE232802 scRNAseq gene expression and VDJ-TCR analysis of PBMCs from patients with tattoo uveitis and sarcoidosis 8 samples shares vdj
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.