Multiomic Immunophenotyping of COVID-19 Patients Reveals Early Infection Trajectories.

Yapeng Su; Daniel Chen; Christopher Lausted; Dan Yuan; Jongchan Choi; Cheng Dai; Valentin Voillet; Kelsey Scherler; Pamela Troisch; Duvvuri Venkata R; Priyanka Baloni; Guangrong Qin; Brett Smith; Sergey Kornilov; Clifford Rostomily; Alex Xu; Jing Li; Shen Dong; Alissa Rothchild; Jing Zhou; Kim Murray; Rick Edmark; Sunga Hong; Lesley Jones; Yong Zhou; Ryan Roper; Sean Mackay; O'Mahony D Shane; Christopher Dale; Wallick Julie A; Algren Heather A; Michael Zager A; Magis Andrew T; Wei Wei; Price Nathan D; Sui Huang; Naeha Subramanian; Kai Wang; Jennifer Hadlock; Leroy Hood; Alan Aderem; Bluestone Jeffrey A; Lanier Lewis L; Phil Greenberg; Raphael Gottardo; Davis Mark M; Goldman Jason D; Heath James R; ISB-Swedish COVID19 Biobanking Unit

Multiomic Immunophenotyping of COVID-19 Patients Reveals Early Infection Trajectories.

Yapeng Su
, Daniel Chen
, Christopher Lausted
, Dan Yuan
, Jongchan Choi
, Cheng Dai
, Valentin Voillet
, Kelsey Scherler
, Pamela Troisch
, Duvvuri Venkata R
, Priyanka Baloni
, Guangrong Qin
, Brett Smith
, Sergey Kornilov
, Clifford Rostomily
, Alex Xu
, Jing Li
, Shen Dong
, Alissa Rothchild
, Jing Zhou

Kim Murray, Rick Edmark, Sunga Hong, Lesley Jones, Yong Zhou, Ryan Roper, Sean Mackay, O'Mahony D Shane, Christopher Dale, Wallick Julie A, Algren Heather A, Michael Zager A, Magis Andrew T, Wei Wei, Price Nathan D, Sui Huang, Naeha Subramanian, Kai Wang, Jennifer Hadlock, Leroy Hood, Alan Aderem, Bluestone Jeffrey A, Lanier Lewis L, Phil Greenberg, Raphael Gottardo, Davis Mark M, Goldman Jason D, Heath James R, ISB-Swedish COVID19 Biobanking Unit

Research output: Contribution to journal › Article

Abstract

Host immune responses play central roles in controlling SARS-CoV2 infection, yet remain incompletely characterized and understood. Here, we present a comprehensive immune response map spanning 454 proteins and 847 metabolites in plasma integrated with single-cell multi-omic assays of PBMCs in which whole transcriptome, 192 surface proteins, and T and B cell receptor sequence were co-analyzed within the context of clinical measures from 50 COVID19 patient samples. Our study reveals novel cellular subpopulations, such as proliferative exhausted CD8 + and CD4 + T cells, and cytotoxic CD4 + T cells, that may be features of severe COVID-19 infection. We condensed over 1 million immune features into a single immune response axis that independently aligns with many clinical features and is also strongly associated with disease severity. Our study represents an important resource towards understanding the heterogeneous immune responses of COVID-19 patients and may provide key information for informing therapeutic development.

Original language	Undefined/Unknown
Journal	Articles, Abstracts, and Reports
State	Published - Jul 31 2020

Access to Document

http://digitalcommons.psjhealth.org/publications/3576

Cite this

Su, Y., Chen, D., Lausted, C., Yuan, D., Choi, J., Dai, C., Voillet, V., Scherler, K., Troisch, P., Venkata R, D., Baloni, P., Qin, G., Smith, B., Kornilov, S., Rostomily, C., Xu, A., Li, J., Dong, S., Rothchild, A., ... Unit, ISB.-S. COVID. B. (2020). Multiomic Immunophenotyping of COVID-19 Patients Reveals Early Infection Trajectories. Articles, Abstracts, and Reports. http://digitalcommons.psjhealth.org/publications/3576

@article{447e73b60d2b4a32bd8f5fd8a0270715,

title = "Multiomic Immunophenotyping of COVID-19 Patients Reveals Early Infection Trajectories.",

abstract = "Host immune responses play central roles in controlling SARS-CoV2 infection, yet remain incompletely characterized and understood. Here, we present a comprehensive immune response map spanning 454 proteins and 847 metabolites in plasma integrated with single-cell multi-omic assays of PBMCs in which whole transcriptome, 192 surface proteins, and T and B cell receptor sequence were co-analyzed within the context of clinical measures from 50 COVID19 patient samples. Our study reveals novel cellular subpopulations, such as proliferative exhausted CD8 + and CD4 + T cells, and cytotoxic CD4 + T cells, that may be features of severe COVID-19 infection. We condensed over 1 million immune features into a single immune response axis that independently aligns with many clinical features and is also strongly associated with disease severity. Our study represents an important resource towards understanding the heterogeneous immune responses of COVID-19 patients and may provide key information for informing therapeutic development.",

author = "Yapeng Su and Daniel Chen and Christopher Lausted and Dan Yuan and Jongchan Choi and Cheng Dai and Valentin Voillet and Kelsey Scherler and Pamela Troisch and \{Venkata R\}, Duvvuri and Priyanka Baloni and Guangrong Qin and Brett Smith and Sergey Kornilov and Clifford Rostomily and Alex Xu and Jing Li and Shen Dong and Alissa Rothchild and Jing Zhou and Kim Murray and Rick Edmark and Sunga Hong and Lesley Jones and Yong Zhou and Ryan Roper and Sean Mackay and \{D Shane\}, O'Mahony and Christopher Dale and \{Julie A\}, Wallick and \{Heather A\}, Algren and \{Zager A\}, Michael and \{Andrew T\}, Magis and Wei Wei and \{Nathan D\}, Price and Sui Huang and Naeha Subramanian and Kai Wang and Jennifer Hadlock and Leroy Hood and Alan Aderem and \{Jeffrey A\}, Bluestone and \{Lewis L\}, Lanier and Phil Greenberg and Raphael Gottardo and \{Mark M\}, Davis and \{Jason D\}, Goldman and \{James R\}, Heath and Unit, \{ISB-Swedish COVID19 Biobanking\}",

year = "2020",

month = jul,

day = "31",

language = "Undefined/Unknown",

journal = "Articles, Abstracts, and Reports",

}

Su, Y, Chen, D, Lausted, C, Yuan, D, Choi, J, Dai, C, Voillet, V, Scherler, K, Troisch, P, Venkata R, D, Baloni, P, Qin, G, Smith, B, Kornilov, S, Rostomily, C, Xu, A, Li, J, Dong, S, Rothchild, A, Zhou, J, Murray, K, Edmark, R, Hong, S, Jones, L, Zhou, Y, Roper, R, Mackay, S, D Shane, OM, Dale, C, Julie A, W, Heather A, A, Zager A, M, Andrew T, M, Wei, W, Nathan D, P, Huang, S, Subramanian, N, Wang, K, Hadlock, J , Hood, L, Aderem, A, Jeffrey A, B, Lewis L, L, Greenberg, P, Gottardo, R, Mark M, D, Jason D, G, James R, H & Unit, ISB-SCOVIDB 2020, 'Multiomic Immunophenotyping of COVID-19 Patients Reveals Early Infection Trajectories.', Articles, Abstracts, and Reports. <http://digitalcommons.psjhealth.org/publications/3576>

TY - JOUR

T1 - Multiomic Immunophenotyping of COVID-19 Patients Reveals Early Infection Trajectories.

AU - Su, Yapeng

AU - Chen, Daniel

AU - Lausted, Christopher

AU - Yuan, Dan

AU - Choi, Jongchan

AU - Dai, Cheng

AU - Voillet, Valentin

AU - Scherler, Kelsey

AU - Troisch, Pamela

AU - Venkata R, Duvvuri

AU - Baloni, Priyanka

AU - Qin, Guangrong

AU - Smith, Brett

AU - Kornilov, Sergey

AU - Rostomily, Clifford

AU - Xu, Alex

AU - Li, Jing

AU - Dong, Shen

AU - Rothchild, Alissa

AU - Zhou, Jing

AU - Murray, Kim

AU - Edmark, Rick

AU - Hong, Sunga

AU - Jones, Lesley

AU - Zhou, Yong

AU - Roper, Ryan

AU - Mackay, Sean

AU - D Shane, O'Mahony

AU - Dale, Christopher

AU - Julie A, Wallick

AU - Heather A, Algren

AU - Zager A, Michael

AU - Andrew T, Magis

AU - Wei, Wei

AU - Nathan D, Price

AU - Huang, Sui

AU - Subramanian, Naeha

AU - Wang, Kai

AU - Hadlock, Jennifer

AU - Hood, Leroy

AU - Aderem, Alan

AU - Jeffrey A, Bluestone

AU - Lewis L, Lanier

AU - Greenberg, Phil

AU - Gottardo, Raphael

AU - Mark M, Davis

AU - Jason D, Goldman

AU - James R, Heath

AU - Unit, ISB-Swedish COVID19 Biobanking

PY - 2020/7/31

Y1 - 2020/7/31

N2 - Host immune responses play central roles in controlling SARS-CoV2 infection, yet remain incompletely characterized and understood. Here, we present a comprehensive immune response map spanning 454 proteins and 847 metabolites in plasma integrated with single-cell multi-omic assays of PBMCs in which whole transcriptome, 192 surface proteins, and T and B cell receptor sequence were co-analyzed within the context of clinical measures from 50 COVID19 patient samples. Our study reveals novel cellular subpopulations, such as proliferative exhausted CD8 + and CD4 + T cells, and cytotoxic CD4 + T cells, that may be features of severe COVID-19 infection. We condensed over 1 million immune features into a single immune response axis that independently aligns with many clinical features and is also strongly associated with disease severity. Our study represents an important resource towards understanding the heterogeneous immune responses of COVID-19 patients and may provide key information for informing therapeutic development.

AB - Host immune responses play central roles in controlling SARS-CoV2 infection, yet remain incompletely characterized and understood. Here, we present a comprehensive immune response map spanning 454 proteins and 847 metabolites in plasma integrated with single-cell multi-omic assays of PBMCs in which whole transcriptome, 192 surface proteins, and T and B cell receptor sequence were co-analyzed within the context of clinical measures from 50 COVID19 patient samples. Our study reveals novel cellular subpopulations, such as proliferative exhausted CD8 + and CD4 + T cells, and cytotoxic CD4 + T cells, that may be features of severe COVID-19 infection. We condensed over 1 million immune features into a single immune response axis that independently aligns with many clinical features and is also strongly associated with disease severity. Our study represents an important resource towards understanding the heterogeneous immune responses of COVID-19 patients and may provide key information for informing therapeutic development.

M3 - Article

JO - Articles, Abstracts, and Reports

JF - Articles, Abstracts, and Reports

ER -