Integrated analysis of multimodal single-cell data

Cell, Journal Year: 2021, Volume and Issue: 184(13), P. 3573 - 3587.e29

Published: May 31, 2021

The simultaneous measurement of multiple modalities represents an exciting frontier for single-cell genomics and necessitates computational methods that can define cellular states based on multimodal data. Here, we introduce "weighted-nearest neighbor" analysis, unsupervised framework to learn the relative utility each data type in cell, enabling integrative analysis modalities. We apply our procedure a CITE-seq dataset 211,000 human peripheral blood mononuclear cells (PBMCs) with panels extending 228 antibodies construct reference atlas circulating immune system. Multimodal substantially improves ability resolve cell states, allowing us identify validate previously unreported lymphoid subpopulations. Moreover, demonstrate how leverage this rapidly map new datasets interpret responses vaccination coronavirus disease 2019 (COVID-19). Our approach broadly applicable strategy analyze look beyond transcriptome toward unified definition identity.

Language: Английский

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Data-Driven Phenotypic Dissection of AML Reveals Progenitor-like Cells that Correlate with Prognosis

Cell, Journal Year: 2015, Volume and Issue: 162(1), P. 184 - 197

Published: June 18, 2015

Language: Английский

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Single-Cell Map of Diverse Immune Phenotypes in the Breast Tumor Microenvironment

Cell, Journal Year: 2018, Volume and Issue: 174(5), P. 1293 - 1308.e36

Published: June 28, 2018

Language: Английский

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Bystander CD8+ T cells are abundant and phenotypically distinct in human tumour infiltrates

Nature, Journal Year: 2018, Volume and Issue: 557(7706), P. 575 - 579

Published: May 1, 2018

Language: Английский

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Mass Cytometry: Single Cells, Many Features

Cell, Journal Year: 2016, Volume and Issue: 165(4), P. 780 - 791

Published: May 1, 2016

Language: Английский

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A gut bacterial pathway metabolizes aromatic amino acids into nine circulating metabolites

Nature, Journal Year: 2017, Volume and Issue: 551(7682), P. 648 - 652

Published: Nov. 1, 2017

Language: Английский

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Defining inflammatory cell states in rheumatoid arthritis joint synovial tissues by integrating single-cell transcriptomics and mass cytometry

Nature Immunology, Journal Year: 2019, Volume and Issue: 20(7), P. 928 - 942

Published: May 6, 2019

Language: Английский

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Pathologically expanded peripheral T helper cell subset drives B cells in rheumatoid arthritis

Nature, Journal Year: 2017, Volume and Issue: 542(7639), P. 110 - 114

Published: Jan. 31, 2017

Language: Английский

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Single-Cell Trajectory Detection Uncovers Progression and Regulatory Coordination in Human B Cell Development

Cell, Journal Year: 2014, Volume and Issue: 157(3), P. 714 - 725

Published: April 1, 2014

Language: Английский

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An Immune Atlas of Clear Cell Renal Cell Carcinoma

Cell, Journal Year: 2017, Volume and Issue: 169(4), P. 736 - 749.e18

Published: May 1, 2017

Language: Английский

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