Severe COVID-19 is marked by a dysregulated myeloid cell compartment. Schulte-Schrepping et al., 2020

Supplemental tables of the publication "Severe COVID-19 is marked by a dysregulated myeloid cell compartment." Schulte-Schrepping et al., 2020. Table S1 - Cohort details (related to all Figures) Table S2 - Detailed information on antibody panels used for mass cytometry analysis (related to Figure 1,3,6) Table S3 - List of antibodies used for multi-color flow cytometry (related to Figure 1,3,6). Table S4 - Cluster-specific marker gene lists from the scRNA-seq analyses (related to Figure 2,4,5,7 + S2-4,S6) Severe COVID-19 is marked by a dysregulated myeloid cell compartment Jonas Schulte-Schrepping, Nico Reusch, Daniela Paclik, Kevin Baßler, Stephan Schlickeiser, Bowen Zhang, Benjamin Krämer, Tobias Krammer, Sophia Brumhard, Lorenzo Bonaguro, Elena De Domenico, Daniel Wendisch, Martin Grasshoff, Theodore S. Kapellos, Michael Beckstette, Tal Pecht, Adem Saglam, Oliver Dietrich, Henrik E. Mei, Axel R. Schulz, Claudia Conrad, Désirée Kunkel, Ehsan Vafadarnejad, Cheng-Jian Xu, Arik Horne, Miriam Herbert, Anna Drews, Charlotte Thibeault, Moritz Pfeiffer, Stefan Hippenstiel, Andreas Hocke, Holger Müller-Redetzky, Katrin-Moira Heim, Felix Machleidt, Alexander Uhrig, Laure Bosquillon de Jarcy, Linda Jürgens, Miriam Stegemann, Christoph R. Glösenkamp, Hans-Dieter Volk, Christine Goffinet, Markus Landthaler, Emanuel Wyler, Philipp Georg, Maria Schneider, Chantip Dang-Heine, Nick Neuwinger, Kai Kappert, Rudolf Tauber, Victor Corman, Jan Raabe, Kim Melanie Kaiser, Michael To Vinh, Gereon Rieke, Christian Meisel, Thomas Ulas, Matthias Becker, Robert Geffers, Martin Witzenrath, Christian Drosten, Norbert Suttorp, Christof von Kalle, Florian Kurth, Kristian Händler, Joachim L. Schultze, Anna C Aschenbrenner, Yang Li, Jacob Nattermann, Birgit Sawitzki, Antoine-Emmanuel Saliba, Leif Erik Sander, Deutsche COVID-19 OMICS Initiative (DeCOI) Coronavirus Disease 2019 (COVID-19) is a mild to moderate respiratory tract infection, however, a subset of patients progresses to severe disease and respiratory failure. The mechanism of protective immunity in mild forms and the pathogenesis of severe COVID-19, associated with increased neutrophil counts and dysregulated immune responses, remains unclear. In a dual-center, two-cohort study, we combined single-cell RNA-sequencing and single-cell proteomics of whole blood and peripheral blood mononuclear cells to determine changes in immune cell composition and activation in mild vs. severe COVID-19 (242 samples from 109 individuals) over time. HLA-DR high CD11c high inflammatory monocytes with an interferon-stimulated gene signature were elevated in mild COVID-19. Severe COVID-19 was marked by occurrence of neutrophil precursors, as evidence of emergency myelopoiesis, dysfunctional mature neutrophils, and HLA-DR low monocytes. Our study provides detailed insights into the systemic immune response to SARS-CoV-2 infection and it reveals profound alterations in the myeloid cell compartment associated with severe COVID-19.

论文《重症COVID-19以失调的髓系细胞区室为特征》（*Severe COVID-19 is marked by a dysregulated myeloid cell compartment*）的补充表格，作者为Schulte-Schrepping等人，发表于2020年。表S1：队列详情（对应所有附图）；表S2：用于质谱流式细胞术（mass cytometry）分析的抗体组合详细信息（对应图1、3、6）；表S3：用于多色流式细胞术（multi-color flow cytometry）的抗体列表（对应图1、3、6）；表S4：单细胞RNA测序（single-cell RNA-sequencing, scRNA-seq）分析得到的簇特异性标记基因列表（对应图2、4、5、7及补充图S2-4、S6）。
本文作者包括：Jonas Schulte-Schrepping、Nico Reusch、Daniela Paclik、Kevin Baßler、Stephan Schlickeiser、Bowen Zhang、Benjamin Krämer、Tobias Krammer、Sophia Brumhard、Lorenzo Bonaguro、Elena De Domenico、Daniel Wendisch、Martin Grasshoff、Theodore S. Kapellos、Michael Beckstette、Tal Pecht、Adem Saglam、Oliver Dietrich、Henrik E. Mei、Axel R. Schulz、Claudia Conrad、Désirée Kunkel、Ehsan Vafadarnejad、Cheng-Jian Xu、Arik Horne、Miriam Herbert、Anna Drews、Charlotte Thibeault、Moritz Pfeiffer、Stefan Hippenstiel、Andreas Hocke、Holger Müller-Redetzky、Katrin-Moira Heim、Felix Machleidt、Alexander Uhrig、Laure Bosquillon de Jarcy、Linda Jürgens、Miriam Stegemann、Christoph R. Glösenkamp、Hans-Dieter Volk、Christine Goffinet、Markus Landthaler、Emanuel Wyler、Philipp Georg、Maria Schneider、Chantip Dang-Heine、Nick Neuwinger、Kai Kappert、Rudolf Tauber、Victor Corman、Jan Raabe、Kim Melanie Kaiser、Michael To Vinh、Gereon Rieke、Christian Meisel、Thomas Ulas、Matthias Becker、Robert Geffers、Martin Witzenrath、Christian Drosten、Norbert Suttorp、Christof von Kalle、Florian Kurth、Kristian Händler、Joachim L. Schultze、Anna C Aschenbrenner、Yang Li、Jacob Nattermann、Birgit Sawitzki、Antoine-Emmanuel Saliba、Leif Erik Sander，以及德国COVID-19组学倡议（DeCOI）。
新型冠状病毒病2019（COVID-19）多表现为轻中度呼吸道感染，但部分患者可进展为重症疾病乃至呼吸衰竭。轻症感染的保护性免疫机制，以及伴随中性粒细胞计数升高与免疫应答失调的重症COVID-19发病机制，目前仍有待阐明。本研究采用双中心、双队列设计，对全血及外周血单个核细胞（peripheral blood mononuclear cells, PBMC）开展单细胞RNA测序与单细胞蛋白质组学分析，以解析轻症与重症COVID-19患者（109名受试者共242份样本）的免疫细胞组成及激活状态随时间的动态变化。研究发现，轻症COVID-19患者体内可见高表达HLA-DR与CD11c的炎性单核细胞富集，且该类细胞携带干扰素刺激基因特征；重症COVID-19则以中性粒细胞前体（提示应急髓系造血）、功能异常的成熟中性粒细胞以及低表达HLA-DR的单核细胞出现为核心特征。本研究详细阐明了机体针对严重急性呼吸综合征冠状病毒2（SARS-CoV-2）感染的系统性免疫应答，并揭示了与重症COVID-19密切相关的髓系细胞区室的显著重塑。