Evidence map›Paper›PMID 32788292›Full record

ArticleScience (New York, N.Y.)2020

Systems biological assessment of immunity to mild versus severe COVID-19 infection in humans.

Prabhu S Arunachalam, Florian Wimmers, Chris Ka Pun Mok, Ranawaka A P M Perera, Madeleine Scott, Thomas Hagan, Natalia Sigal, Yupeng Feng, Laurel Bristow, Owen Tak-Yin Tsang and 21 more

Open access · hybridAbstract readComparative Study
In one paragraph

Article in Science (New York, N.Y.), 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 794 papers, 1 of them a synthesis that pooled it.

0numbers the graph read from it
0cells of the map it votes in
794citing papers in PubMed, 1 pooled it
26.6field-weighted citation impact, top 1% of its field
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

794 citing papers in PubMed, 1 synthesis or guideline pooled it, 1,324 citations in OpenAlex.

  1. Pooled it
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  5. Monocytes in pneumonia: Functional plasticity and innate memory (Review).International journal of molecular medicine · 2026
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734 more citing papers are in PubMed but not listed here.

4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

31 authors at 6 institutions in 2 countries.

Prabhu S Arunachalam *Institute for Immunity, Transplantation and Infection, Stanford University School of Medicine, Stanford, CA 94305, USA.ORCID 0000-0003-0090-5689
Florian Wimmers *Institute for Immunity, Transplantation and Infection, Stanford University School of Medicine, Stanford, CA 94305, USA.ORCID 0000-0002-6482-2228
Chris Ka Pun Mok *HKU-Pasteur Research Pole, School of Public Health, HKU Li Ka Shing Faculty of Medicine, The University of Hong Kong (HKU), Hong Kong.ORCID 0000-0002-0525-6772
Ranawaka A P M Perera *Centre of Influenza Research, School of Public Health, HKU Li Ka Shing Faculty of Medicine, HKU, Hong Kong.ORCID 0000-0003-3936-1535
Madeleine Scott *Institute for Immunity, Transplantation and Infection, Stanford University School of Medicine, Stanford, CA 94305, USA.ORCID 0000-0001-9350-5451
Thomas Hagan *Institute for Immunity, Transplantation and Infection, Stanford University School of Medicine, Stanford, CA 94305, USA.ORCID 0000-0002-5254-5251
Natalia Sigal *Institute for Immunity, Transplantation and Infection, Stanford University School of Medicine, Stanford, CA 94305, USA.ORCID 0000-0003-2831-7053
Yupeng Feng *Institute for Immunity, Transplantation and Infection, Stanford University School of Medicine, Stanford, CA 94305, USA.ORCID 0000-0001-8550-2787
Laurel BristowHope Clinic of the Emory Vaccine Center, Department of Medicine, Division of Infectious Diseases, Emory University School of Medicine, Decatur, GA 30030, USA.ORCID 0000-0001-9050-0057
Owen Tak-Yin TsangInfectious Diseases Centre, Princess Margaret Hospital, Hospital Authority of Hong Kong, Hong Kong.
Dhananjay WaghStanford Functional Genomics Facility, Stanford University School of Medicine, Stanford, CA 94305, USA.ORCID 0000-0002-6937-003X
John CollerStanford Functional Genomics Facility, Stanford University School of Medicine, Stanford, CA 94305, USA.
Kathryn L PellegriniEmory Vaccine Center, Yerkes National Primate Research Center, Atlanta, GA 30329, USA.ORCID 0000-0002-5089-5477
Dmitri KazminInstitute for Immunity, Transplantation and Infection, Stanford University School of Medicine, Stanford, CA 94305, USA.
Ghina AlaaeddineHope Clinic of the Emory Vaccine Center, Department of Medicine, Division of Infectious Diseases, Emory University School of Medicine, Decatur, GA 30030, USA.ORCID 0000-0001-9570-7989
Wai Shing LeungInfectious Diseases Centre, Princess Margaret Hospital, Hospital Authority of Hong Kong, Hong Kong.ORCID 0000-0001-8377-085X
Jacky Man Chun ChanInfectious Diseases Centre, Princess Margaret Hospital, Hospital Authority of Hong Kong, Hong Kong.
Thomas Shiu Hong ChikInfectious Diseases Centre, Princess Margaret Hospital, Hospital Authority of Hong Kong, Hong Kong.ORCID 0000-0002-0481-1420
Chris Yau Chung ChoiInfectious Diseases Centre, Princess Margaret Hospital, Hospital Authority of Hong Kong, Hong Kong.ORCID 0000-0002-3695-2770
Christopher HuertaHope Clinic of the Emory Vaccine Center, Department of Medicine, Division of Infectious Diseases, Emory University School of Medicine, Decatur, GA 30030, USA.
Michele Paine McCulloughHope Clinic of the Emory Vaccine Center, Department of Medicine, Division of Infectious Diseases, Emory University School of Medicine, Decatur, GA 30030, USA.
Huibin LvHKU-Pasteur Research Pole, School of Public Health, HKU Li Ka Shing Faculty of Medicine, The University of Hong Kong (HKU), Hong Kong.
Evan AndersonDepartment of Pediatrics, Division of Infectious Disease, Emory University School of Medicine, Atlanta, GA 30322, USA.ORCID 0000-0002-1576-4420
Srilatha EdupugantiHope Clinic of the Emory Vaccine Center, Department of Medicine, Division of Infectious Diseases, Emory University School of Medicine, Decatur, GA 30030, USA.ORCID 0000-0001-6566-9969
Amit A UpadhyayEmory Vaccine Center, Yerkes National Primate Research Center, Atlanta, GA 30329, USA.ORCID 0000-0002-0952-4164
Steve E BosingerEmory Vaccine Center, Yerkes National Primate Research Center, Atlanta, GA 30329, USA.ORCID 0000-0002-2116-5061
Holden Terry MaeckerInstitute for Immunity, Transplantation and Infection, Stanford University School of Medicine, Stanford, CA 94305, USA.ORCID 0000-0003-0795-9946
Purvesh KhatriInstitute for Immunity, Transplantation and Infection, Stanford University School of Medicine, Stanford, CA 94305, USA.ORCID 0000-0002-4143-4708
Nadine RouphaelHope Clinic of the Emory Vaccine Center, Department of Medicine, Division of Infectious Diseases, Emory University School of Medicine, Decatur, GA 30030, USA.
Malik PeirisHKU-Pasteur Research Pole, School of Public Health, HKU Li Ka Shing Faculty of Medicine, The University of Hong Kong (HKU), Hong Kong.ORCID 0000-0001-8217-5995
Bali PulendranInstitute for Immunity, Transplantation and Infection, Stanford University School of Medicine, Stanford, CA 94305, USA. bpulend@stanford.edu.ORCID 0000-0001-6517-4333
Stanford University · USEmory University · USHospital Authority · HKHKU-Pasteur Research Pole · HKEmory National Primate Research CenterStanford Medicine · US

Funding

Yerkes National Primate Research Center Role of type-I IFN in regulating COVID-19 induced inflammation and pathogenesisP51OD011132 · OD · EMORY UNIVERSITY · PI Joon Sup Lee · 2012 to 2026
$167.0M
VACCINE INDUCED IMMUNITY IN THE YOUNG AND AGEDU19AI057266 · NIAID · EMORY UNIVERSITY · PI Rafi Ahmed · 2003 to 2026
$81.7M
Systems Biological Analysis of Innate and Adaptive Responses to VaccinationU19AI090023 · NIAID · EMORY UNIVERSITY · PI AHMED, RAFI, LI, SHUZHAO · 2010 to 2021
$45.0M
Vaccine and Treatment Evaluation Units - DMID 21-0012UM1AI148576 · NIAID · EMORY UNIVERSITY · PI Nadine Georges Rouphael, Carlos del Rio · 2020 to 2026
$41.7M
Simultaneous antigen receptor repertoire profiling and single-cell transcriptomics in T and B lymphocytes from limited clinical samplesU24AI120134 · NIAID · EMORY UNIVERSITY · PI BOSINGER, STEVEN EDWARD · 2015 to 2024
$6.5M
MICROBES, DENDRITIC CELL SUBSETS AND T-CELL IMMUNITYR01AI048638 · NIAID · STANFORD UNIVERSITY · PI PULENDRAN, BALI · 2001 to 2024
$4.5M
Emory R38 Research Training ProgramR38AI140299 · NIAID · EMORY UNIVERSITY · PI OFOTOKUN, IGHOVWERHA, ROUPHAEL, NADINE GEORGES · 2018 to 2021
$1.4M
Illumina NovaSeq 6000 High Throughput DNA Sequencer for Emory UniversityS10OD026799 · OD · EMORY UNIVERSITY · PI BOSINGER, STEVEN EDWARD · 2019 to 2019
$985k
High Throughput DNA Sequencer UpgradeS10OD018220 · OD · STANFORD UNIVERSITY · PI COLLER, JOHN · 2014 to 2014
$596k
Computer ClusterS10OD021763 · OD · STANFORD UNIVERSITY · PI JI, HANLEE P · 2016 to 2016
$481k
NIAID NIH HHS HHSN272201400006CNIAID NIH HHS R01 AI048638NIAID NIH HHS R38 AI140299NIAID NIH HHS U19 AI057266NIAID NIH HHS U19 AI090023NIAID NIH HHS U24 AI120134NIAID NIH HHS UM1 AI148576NIH HHS P51 OD011132NIH HHS S10 OD018220NIH HHS S10 OD021763NIH HHS S10 OD026799
6 · The paper itself

Abstract

Coronavirus disease 2019 (COVID-19) represents a global crisis, yet major knowledge gaps remain about human immunity to severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2). We analyzed immune responses in 76 COVID-19 patients and 69 healthy individuals from Hong Kong and Atlanta, Georgia, United States. In the peripheral blood mononuclear cells (PBMCs) of COVID-19 patients, we observed reduced expression of human leukocyte antigen class DR (HLA-DR) and proinflammatory cytokines by myeloid cells as well as impaired mammalian target of rapamycin (mTOR) signaling and interferon-α (IFN-α) production by plasmacytoid dendritic cells. By contrast, we detected enhanced plasma levels of inflammatory mediators-including EN-RAGE, TNFSF14, and oncostatin M-which correlated with disease severity and increased bacterial products in plasma. Single-cell transcriptomics revealed a lack of type I IFNs, reduced HLA-DR in the myeloid cells of patients with severe COVID-19, and transient expression of IFN-stimulated genes. This was consistent with bulk PBMC transcriptomics and transient, low IFN-α levels in plasma during infection. These results reveal mechanisms and potential therapeutic targets for COVID-19.

Indexed as

BetacoronavirusCoronavirus InfectionsCOVID-19CytokinesDendritic CellsDNA, BacterialFemaleFlow CytometryHLA-DR AntigensHumansImmunityImmunity, InnateImmunoglobulinsInflammation MediatorsInterferon Type ILeukocytes, MononuclearCytokinesDNA, BacterialHLA-DR AntigensImmunoglobulinsInflammation MediatorsInterferon Type ILipopolysaccharidesMTOR protein, humanTOR Serine-Threonine Kinases

Identifiers

PMID32788292
PMCPMC7665312
OpenAlexW3047880178

What OpenQuestion holds

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LicenceCC BY
Read underepoch 390

Registered trials

None linked

Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.