2024/12/16 by Marco De Simone, Jonathan Hoover, J. Lau +16 · 1 voice · 1 citation
Biochemistry, Genetics and Molecular Biology · #Cancer-related molecular mechanisms research #Extracellular vesicles in disease #Single-cell and spatial transcriptomics
paper · pdf · doi:10.1093/nar/gkae1186
openalex publication_date 2024/12/16 · openalex created_date 2025/10/10 · openalex updated_date 2026/07/30
This study examined nine prominent commercially available single-cell RNA sequencing (scRNA-seq) kits across four technology groups. Each kit was characterized using peripheral blood mononuclear cells (PBMCs) from a single donor, which enabled consistent assessment of factors such as analytical performance, protocol duration and cost. The Chromium Fixed RNA Profiling kit from 10× Genomics, with its probe-based RNA detection method, demonstrated the best overall performance. The Rhapsody WTA kit from Becton Dickinson exhibited a balance between performance and cost. Importantly, we introduce the read utilization metric, which differentiates scRNA-seq kits based on the efficiency of converting sequencing reads into usable counts. Thus, read utilization is an important feature that substantially impacts sensitivity and cost. With data from 169, 262 cells, our work provides a comprehensive comparison of commercial scRNA-seq technologies to facilitate the effective implementation of single-cell studies.