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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.

SUBMITTER: Mimitou EP

PROVIDER: S-EPMC6557128 | biostudies-literature | 2019 May

REPOSITORIES: biostudies-literature

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Multiplexed detection of proteins, transcriptomes, clonotypes and CRISPR perturbations in single cells.

Mimitou Eleni P EP Cheng Anthony A Montalbano Antonino A Hao Stephanie S Stoeckius Marlon M Legut Mateusz M Roush Timothy T Herrera Alberto A Papalexi Efthymia E Ouyang Zhengqing Z Satija Rahul R Sanjana Neville E NE Koralov Sergei B SB Smibert Peter P

Nature methods 20190422 5

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 capt ...[more]

PMID: 31011186

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