TY - JOUR
T1 - CellTag Indexing
T2 - Genetic barcode-based sample multiplexing for single-cell genomics
AU - Guo, Chuner
AU - Kong, Wenjun
AU - Kamimoto, Kenji
AU - Rivera-Gonzalez, Guillermo C.
AU - Yang, Xue
AU - Kirita, Yuhei
AU - Morris, Samantha A.
N1 - Funding Information:
This work was funded by the National Institutes of Health (NIH) grants R01-GM126112, R21-HG009750, and P30-DK052574; Silicon Valley Community Foundation, Chan Zuckerberg Initiative Grants HCA-A-1704-01646 and HCA2-A-1708-02799; The Children’s Discovery Institute of Washington University and St. Louis Children’s Hospital MI-II-2016-544. S.A.M. is supported by a Val-lee Scholar Award, C.G. NIH-5T32GM007200-42, K.K. Japan Society for the Promotion of Science Postdoctoral Fellowship, and G.C.R.G. Washington University in. St. Louis School of Medicine Center of Regenerative Medicine Rita Levi-Montalcini Fellowship.
Publisher Copyright:
© 2019 The Author(s).
PY - 2019/5/9
Y1 - 2019/5/9
N2 - High-throughput single-cell assays increasingly require special consideration in experimental design, sample multiplexing, batch effect removal, and data interpretation. Here, we describe a lentiviral barcode-based multiplexing approach, CellTag Indexing, which uses predefined genetic barcodes that are heritable, enabling cell populations to be tagged, pooled, and tracked over time in the same experimental replicate. We demonstrate the utility of CellTag Indexing by sequencing transcriptomes using a variety of cell types, including long-term tracking of cell engraftment and differentiation in vivo. Together, this presents CellTag Indexing as a broadly applicable genetic multiplexing tool that is complementary with existing single-cell technologies.
AB - High-throughput single-cell assays increasingly require special consideration in experimental design, sample multiplexing, batch effect removal, and data interpretation. Here, we describe a lentiviral barcode-based multiplexing approach, CellTag Indexing, which uses predefined genetic barcodes that are heritable, enabling cell populations to be tagged, pooled, and tracked over time in the same experimental replicate. We demonstrate the utility of CellTag Indexing by sequencing transcriptomes using a variety of cell types, including long-term tracking of cell engraftment and differentiation in vivo. Together, this presents CellTag Indexing as a broadly applicable genetic multiplexing tool that is complementary with existing single-cell technologies.
UR - http://www.scopus.com/inward/record.url?scp=85065543801&partnerID=8YFLogxK
U2 - 10.1186/s13059-019-1699-y
DO - 10.1186/s13059-019-1699-y
M3 - Article
C2 - 31072405
AN - SCOPUS:85065543801
SN - 1474-7596
VL - 20
JO - Genome biology
JF - Genome biology
IS - 1
M1 - 90
ER -