RT Journal Article SR Electronic T1 CASB: A concanavalin A-based sample barcoding strategy for single-cell sequencing JF bioRxiv FD Cold Spring Harbor Laboratory SP 2020.10.15.340844 DO 10.1101/2020.10.15.340844 A1 Liang Fang A1 Guipeng Li A1 Qionghua Zhu A1 Huanhuan Cui A1 Yunfei Li A1 Zhiyuan Sun A1 Weizheng Liang A1 Wencheng Wei A1 Yuhui Hu A1 Wei Chen YR 2020 UL http://biorxiv.org/content/early/2020/10/16/2020.10.15.340844.abstract AB Sample multiplexing facilitates single cell sequencing by reducing costs, revealing subtle difference between similar samples, and identifying artifacts such as cell doublets. However, universal and cost-effective strategies are rather limited. Here, we reported a Concanavalin A-based Sample Barcoding strategy (CASB), which could be followed by both single-cell mRNA and ATAC (assay for transposase accessible chromatin) sequencing techniques. The method involves minimal sample processing, thereby preserving intact transcriptomic or epigenomic patterns. We demonstrated its high labeling efficiency, high accuracy in assigning cells/nuclei to samples regardless of cell type and genetic background, as well as high sensitivity in detecting doublets by two applications: 1) CASB followed by scRNA-seq to track the transcriptomic dynamics of a cancer cell line perturbed by multiple drugs, which revealed compound-specific heterogeneous response; 2) CASB together with both snATAC-seq and scRNA-seq to illustrate the IFN-γ-mediated dynamic changes on epigenome and transcriptome profile, which identified the transcription factor underlying heterogeneous IFN-γ response.