RT Journal Article
SR Electronic
T1 SCITO-seq: single-cell combinatorial indexed cytometry sequencing
JF bioRxiv
FD Cold Spring Harbor Laboratory
SP 2020.03.27.012633
DO 10.1101/2020.03.27.012633
A1 Byungjin Hwang
A1 David S. Lee
A1 Whitney Tamaki
A1 Yang Sun
A1 Anton Ogorodnikov
A1 George Hartoularos
A1 Aidan Winters
A1 Yun S. Song
A1 Eric D. Chow
A1 Matthew H. Spitzer
A1 Chun Jimmie Ye
YR 2020
UL http://biorxiv.org/content/early/2020/03/30/2020.03.27.012633.abstract
AB The development of DNA-barcoded antibodies to tag cell-surface molecules has enabled the use of droplet-based single cell sequencing (dsc-seq) to profile the surface proteomes of cells. Compared to flow and mass cytometry, the major limitation of current dsc-seq-based workflows is the high cost associated with profiling each cell, thus precluding its use in applications where millions of cells are required. Here, we introduce SCITO-seq, a new workflow that combines combinatorial indexing and commercially available dsc-seq to enable cost-effective cell surface proteomic sequencing of greater than 105 cells per microfluidic reaction. We demonstrate SCITO-seq’s feasibility and scalability by profiling mixed species cell lines and mixed human T and B lymphocytes. To further demonstrate its applicability, we show comparable cellular composition estimates in peripheral blood mononuclear cells obtained with SCITO-seq and mass cytometry. SCITO-seq can be extended to include simultaneous profiling of additional modalities such as transcripts and accessible chromatin or tracking of experimental perturbations such as genome edits or extracellular stimuli.