Using plasma cell-free mRNA to profile immune response and myocardial damage in immune checkpoint inhibitor-induced myocarditis
Single-cell RNA-seq · human · 26 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
- Homo sapiens (human)
- Samples
- 26 samples: 14 × Plasma bulk cell-free RNA, group C patient vs 7 × Plasma bulk cell-free RNA, group B patient vs 5 × Plasma bulk cell-free RNA, group A patientGroups 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
- Using plasma cell-free mRNA to profile immune response and myocardial damage in immune checkpoint inhibitor-induced myocarditisThe Journal of clinical investigation · 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 GSE296680_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 PRJNA1260525 and SRA study SRP583945. Searching any of these in the dataset finder brings you back here.
Supports a between-group comparison across 26 samples.
How we read this: 3 replicated groups read from 26 sample titles; they account for 26 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.
- GSM8974550 Plasma bulk cell-free RNA, group A patient 1 Plasma bulk cell-free R…
- GSM8974551 Plasma bulk cell-free RNA, group A patient 2 Plasma bulk cell-free R…
- GSM8974552 Plasma bulk cell-free RNA, group A patient 3 Plasma bulk cell-free R…
- GSM8974553 Plasma bulk cell-free RNA, group A patient 4 Plasma bulk cell-free R…
- GSM8974554 Plasma bulk cell-free RNA, group A patient 5 Plasma bulk cell-free R…
- GSM8974555 Plasma bulk cell-free RNA, group B patient 1 Plasma bulk cell-free R…
- GSM8974556 Plasma bulk cell-free RNA, group B patient 2 Plasma bulk cell-free R…
- GSM8974557 Plasma bulk cell-free RNA, group B patient 3 Plasma bulk cell-free R…
- GSM8974558 Plasma bulk cell-free RNA, group B patient 4 Plasma bulk cell-free R…
- GSM8974559 Plasma bulk cell-free RNA, group B patient 5 Plasma bulk cell-free R…
- GSM8974560 Plasma bulk cell-free RNA, group B patient 6 Plasma bulk cell-free R…
- GSM8974561 Plasma bulk cell-free RNA, group B patient 7 Plasma bulk cell-free R…
- GSM8974562 Plasma bulk cell-free RNA, group C patient 1 Plasma bulk cell-free R…
- GSM8974563 Plasma bulk cell-free RNA, group C patient 2 Plasma bulk cell-free R…
- GSM8974564 Plasma bulk cell-free RNA, group C patient 3 Plasma bulk cell-free R…
- GSM8974565 Plasma bulk cell-free RNA, group C patient 4 Plasma bulk cell-free R…
- GSM8974566 Plasma bulk cell-free RNA, group C patient 5 Plasma bulk cell-free R…
- GSM8974567 Plasma bulk cell-free RNA, group C patient 6 Plasma bulk cell-free R…
- GSM8974568 Plasma bulk cell-free RNA, group C patient 7 Plasma bulk cell-free R…
- GSM8974569 Plasma bulk cell-free RNA, group C patient 8 Plasma bulk cell-free R…
- GSM8974570 Plasma bulk cell-free RNA, group C patient 9 Plasma bulk cell-free R…
- GSM8974571 Plasma bulk cell-free RNA, group C patient 10 Plasma bulk cell-free R…
- GSM8974572 Plasma bulk cell-free RNA, group C patient 11 Plasma bulk cell-free R…
- GSM8974573 Plasma bulk cell-free RNA, group C patient 12 Plasma bulk cell-free R…
- GSM8974574 Plasma bulk cell-free RNA, group C patient 13 Plasma bulk cell-free R…
- GSM8974575 Plasma bulk cell-free RNA, group C patient 14 Plasma bulk cell-free R…
- GSE287540 Transcriptomic and proteomic characterization of cell and protein biomarkers of checkpoint inhibitor-induced liver injury [bulk RNA-seq] 128 samples shares inhibitor-induced, checkpoint
- GSE287541 Transcriptomic and proteomic characterization of cell and protein biomarkers of checkpoint inhibitor-induced liver injury [scRNA-seq] 92 samples shares inhibitor-induced, checkpoint
- GSE313527 Plasma Extracellular Vesicle Modulate Immune Cell Transcriptional Responses Following Acute Myocardial Infarction 74 samples shares myocardial, plasma
- GSE78220 mRNA expressions in pre-treatment melanomas undergoing anti-PD-1 checkpoint inhibition therapy 28 samples shares checkpoint, mrna
- GSE235832 Piezoeletric cold atmospheric plasma sensitizes head and neck cancer to chemotherapy and immune checkpoint blockade therapy 24 samples shares checkpoint, plasma
- GSE254537 Inhibition of CXCL10 and IFN-γ ameliorates myocarditis in preclinical models of SARS-CoV- 2 mRNA vaccination 24 samples shares myocarditis, mrna
- GSE228597 Immunologic drivers of immune checkpoint inhibitor therapy myocarditis, fatality and anti-tumor response in cancer patients 75 samples shares myocarditis, checkpoint
- GSE270047 Analytical performance of OncoPrism-HNSCC, an RNA-based assay to inform immune checkpoint inhibitor treatment decisions for recurrent/metastatic head and neck squamous cell carcinoma 434 samples shares 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.