Optimizing Single Cell RNA-Sequencing with Dead Cell Removal

Obtaining samples with high cell viability can be challenging for many experimental workflows, yet it is critical for generating reliable results on the 10x Genomics® Chromium™ single-cell sequencing platform. Low viability samples often lead to reduced cell recovery, increased background noise from ambient RNA, and compromised data quality.

This tech note describes how GENEWIZ from Azenta Life Sciences applied optimized single-cell RNA-sequencing workflows, including dead cell removal, to overcome low viability constraints and consistently generate high-quality single-cell RNA-Seq data from challenging samples.

What you’ll learn

• An overview of GENEWIZ’s end-to-end single-cell RNA-Seq workflow using the 10x Genomics Chromium system
• Key challenges associated with low cell viability in single-cell sequencing experiments, including ambient RNA contamination and reduced target cell recovery
• How dead cell removal can improve sample quality, increase cell viability, and maximize data richness without compromising gene detection sensitivity