@article{0466f3d4c1cf492891834311eeca5f70,
title = "Multiplexed detection of proteins, transcriptomes, clonotypes and CRISPR perturbations in single cells",
abstract = "Multimodal single-cell assays provide high-resolution snapshots of complex cell populations, but are mostly limited to transcriptome plus an additional modality. Here, we describe expanded CRISPR-compatible cellular indexing of transcriptomes and epitopes by sequencing (ECCITE-seq) for the high-throughput characterization of at least five modalities of information from each single cell. We demonstrate application of ECCITE-seq to multimodal CRISPR screens with robust direct single-guide RNA capture and to clonotype-aware multimodal phenotyping of cancer samples.",
author = "Mimitou, {Eleni P.} and Anthony Cheng and Antonino Montalbano and Stephanie Hao and Marlon Stoeckius and Mateusz Legut and Timothy Roush and Alberto Herrera and Efthymia Papalexi and Zhengqing Ouyang and Rahul Satija and Sanjana, {Neville E.} and Koralov, {Sergei B.} and Peter Smibert",
note = "Funding Information: We thank N. {\O}dum (University of Copenhagen) for the kind gift of cell lines. Samples from patients were obtained with the help of M.B. Natan Zommer and J.-A. Latkowski. Work in S.B.K.{\textquoteright}s laboratory was supported by the NIH R01 grant no. HL-125816, the Colton Center for Autoimmunity, funding from the Hirschl/Weill-Coulier Trust and a grant from the Spatz Foundation. Work in the NYGC Technology Innovation lab was supported by the NIH R21 grant no. HG-009748 to P.S. and the Chan Zuckerberg Initiative grant no. HCA-A-1704-01895 to P.S. and R.S. N.E.S. is supported by NYU and NYGC startup funds, NIH/NHGRI (R00HG008171 and DP2HG010099), NIH/NCI (R01CA218668), DARPA (D18AP00053), the Sidney Kimmel Foundation, the Melanoma Research Alliance, and the Brain and Behavior Foundation. M.L. is supported by a Hope Funds for Cancer Research postdoctoral fellowship. Work in Z.O.{\textquoteright}s laboratory was supported by NIH R35 grant GM124998. We thank L. Yang, W. Stephenson, S. Jaini and K. Pandit for helpful discussions. We thank B. Fritz from 10x Genomics for providing kits for development of 5P compatible CITE-seq reagents and B. Yeung and K. Nazor from BioLegend for providing some of the unconjugated antibodies used in this study. Publisher Copyright: {\textcopyright} 2019, The Author(s), under exclusive licence to Springer Nature America, Inc.",
year = "2019",
month = may,
day = "1",
doi = "10.1038/s41592-019-0392-0",
language = "English (US)",
volume = "16",
pages = "409--412",
journal = "Nature Methods",
issn = "1548-7091",
publisher = "Public Library of Science",
number = "5",
}