Context

Genes RNA and (few selected) CD proteins expression data.
I.e. data is a table matrix : cells x genes , which shows activity of a gene in a cell.
See for background: https://en.wikipedia.org/wiki/Single-cell_transcriptomics
And see tutorials: https://scanpy.readthedocs.io/en/stable/tutorials.html

Particular data:

https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE128169

Valenzi E, Bulik M, Tabib T, Morse C et al. Single-cell analysis reveals fibroblast heterogeneity and myofibroblasts in systemic sclerosis-associated interstitial lung disease. Ann Rheum Dis 2019 Oct;78(10):1379-1387. PMID: 31405848

Summary Myofibroblasts are key effector cells in the extracellular matrix remodeling of systemic sclerosis-associated interstitial lung disease (SSc-ILD), however the diversity of fibroblast populations present in the healthy and SSc-ILD lung is unknown, and has prevented the specific study of the myofibroblast transcriptome. We sought to identify and define the transcriptomes of myofibroblasts and other mesenchymal cell populations in human healthy and SSc-ILD lungs to understand how alterations in fibroblast phenotypes lead to SSc-ILD fibrosis.

Overall design We performed droplet-based single-cell RNA-sequencing with integrated canonical correlation analysis of 13 explanted lung tissue specimens (56,196 cells) from 4 healthy control and 4 SSc-ILD patients, with findings confirmed by cellular indexing of transcriptomes and epitopes by sequencing (CITE-seq) in additional samples.