Precision and Accuracy in Quantitative Measurement of Gene Expression from Single-Cell/Nuclei RNA Sequencing Data.

ABSTRACT: Single-cell and single-nucleus RNA sequencing (sc/snRNA-Seq) have become essential tools for profiling gene expression across different cell types in biomedical research. While factors like RNA integrity, cell count, and sequencing depth are known to influence data quality, quantitative benchmarks and actionable guidelines are lacking. This gap contributes to variability in study designs and inconsistencies in downstream analyses. In this study, we systematically evaluated quantitative precision and accuracy in expression measures across 23 sc/snRNA-Seq datasets comprising 3,682,576 cells from 339 samples. Precision was assessed using technical replicates based on pseudo-bulks created from subsampling. Accuracy was evaluated using sample-matched scRNA-Seq and pooled-cell RNA-Seq data of mo

SUBMITTER: Dai R 

PROVIDER: S-EPMC11042208 | biostudies-literature | 2025 Apr

REPOSITORIES: biostudies-literature