Single cell transcriptomics in human osteoarthritis synovium and in silico deconvoluted bulk RNA sequencing.

ABSTRACT:

Objectives

To reveal the heterogeneity of different cell types of osteoarthritis (OA) synovial tissues at a single-cell resolution, and determine by novel methodology whether bulk-RNA-seq data could be deconvoluted to create in silico scRNA-seq data for synovial tissue analyses.

Methods

OA scRNA-seq data (102,077 synoviocytes) were provided by 17 patients undergoing total knee arthroplasty; 9 tissues with matched scRNA-seq and bulk RNA-seq data were used to evaluate six in silico gene deconvolution tools. Predicted and observed cell types and proportions were compared to identify the best deconvolution tool for synovium.

Results

We identified seven distinct cell types in OA synovial tissues. Gene deconvolution identified three (of six) platforms as suitable for extrap

SUBMITTER: Huang ZY 

PROVIDER: S-EPMC10097426 | biostudies-literature | 2022 Mar

REPOSITORIES: biostudies-literature