SCOPE-Seq: a scalable technology for linking live cell imaging and single-cell RNA sequencing

• Main Authors: Jinzhou Yuan, Jenny Sheng, Peter A. Sims
• Format: Article
• Language: English
• Published: BMC 2018-12-01
• Series: Genome Biology
• Subjects: Single-cell RNA-Seq; Live cell imaging; Microfluidics
• Online Access: http://link.springer.com/article/10.1186/s13059-018-1607-x

Abstract Optically decodable beads link the identity of a sample to a measurement through an optical barcode, enabling libraries of biomolecules to be captured on beads in solution and decoded by fluorescence. This approach has been foundational to microarray, sequencing, and flow-based expression profiling technologies. We combine microfluidics with optically decodable beads and show that phenotypic analysis of living cells can be linked to single-cell sequencing. As a proof-of-concept, we demonstrate the accuracy and scalability of our tool called Single Cell Optical Phenotyping and Expression sequencing (SCOPE-Seq) to combine live cell imaging with single-cell RNA sequencing.