Virus Expression Database

GSE152418

Systems biological assessment of immunity to severe and mild COVID-19 infections

Submitted by Gregory K Tharp (Yerkes National Primate Research Center, USA) on Jun 13 2020

Platform: ngs – Illumina NovaSeq 6000 (Homo sapiens)

Pubmed: 32788292

Summary The recent emergence of COVID-19 presents a major global crisis. Profound knowledge gaps remain about the interaction between the virus and the immune system. Here, we used a systems biology approach to analyze immune responses in 76 COVID-19 patients and 69 age and sex- matched controls, from Hong Kong and Atlanta. Mass cytometry revealed prolonged plasmablast and effector T cell responses, reduced myeloid expression of HLA-DR and inhibition of mTOR signaling in plasmacytoid DCs (pDCs) during infection. Production of pro-inflammatory cytokines plasma levels of inflammatory mediators, including EN-RAGE, TNFSF14, and Oncostatin-M, which correlated with disease severity, and increased bacterial DNA and endotoxin in plasma in and reduced HLA-DR and CD86 but enhanced EN-RAGE expression in myeloid cells in severe transient expression of IFN stimulated genes in moderate infections, consistent with transcriptomic analysis of bulk PBMCs, that correlated with transient and low levels of plasma COVID-19.

34 Samples

ID Title Cell Type Timepoint Reported Virus Virus Species Exclusion Reason
GSM4614985 S145_nCOV001_C peripheral blood mononuclear cell  SARS-CoV-2 Severe acute respiratory syndrome-related coronavirus
GSM4614986 S147_nCoV001EUHM-Draw-1 peripheral blood mononuclear cell  SARS-CoV-2 Severe acute respiratory syndrome-related coronavirus
GSM4614987 S149_nCoV002EUHM-Draw-2 peripheral blood mononuclear cell  SARS-CoV-2 Severe acute respiratory syndrome-related coronavirus
GSM4614988 S150_nCoV003EUHM-Draw-1 peripheral blood mononuclear cell  SARS-CoV-2 Severe acute respiratory syndrome-related coronavirus
GSM4614989 S151_nCoV004EUHM-Draw-1 peripheral blood mononuclear cell  SARS-CoV-2 Severe acute respiratory syndrome-related coronavirus
GSM4614990 S152_nCoV006EUHM-Draw-1 peripheral blood mononuclear cell  SARS-CoV-2 Severe acute respiratory syndrome-related coronavirus
GSM4614991 S153_nCoV007EUHM-Draw-1 peripheral blood mononuclear cell  SARS-CoV-2 Severe acute respiratory syndrome-related coronavirus
GSM4614992 S154_nCoV0010EUHM-Draw-1 peripheral blood mononuclear cell  SARS-CoV-2 Severe acute respiratory syndrome-related coronavirus
GSM4614993 S155_nCOV021EUHM peripheral blood mononuclear cell  SARS-CoV-2 Severe acute respiratory syndrome-related coronavirus
GSM4614994 S156_nCOV024EUHM-Draw-1 peripheral blood mononuclear cell  SARS-CoV-2 Severe acute respiratory syndrome-related coronavirus
GSM4614995 S157_nCOV0029EUHM peripheral blood mononuclear cell  SARS-CoV-2 Severe acute respiratory syndrome-related coronavirus
GSM4614996 S175_nCoV024EUHM-Draw-2 peripheral blood mononuclear cell  SARS-CoV-2 Severe acute respiratory syndrome-related coronavirus
GSM4614997 S176_nCoV025EUHM-Draw-1 peripheral blood mononuclear cell  SARS-CoV-2 Severe acute respiratory syndrome-related coronavirus
GSM4614998 S177_nCoV025EUHM-Draw-2 peripheral blood mononuclear cell  SARS-CoV-2 Severe acute respiratory syndrome-related coronavirus
GSM4614999 S178_nCoV028EUHM-Draw-1 peripheral blood mononuclear cell  SARS-CoV-2 Severe acute respiratory syndrome-related coronavirus
GSM4615000 S179_nCoV033EUHM-Draw-1 peripheral blood mononuclear cell  SARS-CoV-2 Severe acute respiratory syndrome-related coronavirus
GSM4615001 S180_nCoV034EUHM-Draw-1 peripheral blood mononuclear cell  SARS-CoV-2 Severe acute respiratory syndrome-related coronavirus
GSM4615003 S061_257 peripheral blood mononuclear cell  uninfected Uninfected
GSM4615006 S062_258 peripheral blood mononuclear cell  uninfected Uninfected
GSM4615008 S063_259 peripheral blood mononuclear cell  uninfected Uninfected
GSM4615011 S064_260 peripheral blood mononuclear cell  uninfected Uninfected
GSM4615014 S065_261 peripheral blood mononuclear cell  uninfected Uninfected
GSM4615016 S066_265 peripheral blood mononuclear cell  uninfected Uninfected
GSM4615019 S067_270 peripheral blood mononuclear cell  uninfected Uninfected
GSM4615022 S068_272 peripheral blood mononuclear cell  uninfected Uninfected
GSM4615025 S069_273 peripheral blood mononuclear cell  uninfected Uninfected
GSM4615027 S070_279 peripheral blood mononuclear cell  uninfected Uninfected
GSM4615030 S071_280 peripheral blood mononuclear cell  uninfected Uninfected
GSM4615032 S181_255 peripheral blood mononuclear cell  uninfected Uninfected
GSM4615033 S182_SHXA10 peripheral blood mononuclear cell  uninfected Uninfected
GSM4615034 S183_263 peripheral blood mononuclear cell  uninfected Uninfected
GSM4615035 S184_SHXA18 peripheral blood mononuclear cell  uninfected Uninfected
GSM4615036 S185_266 peripheral blood mononuclear cell  uninfected Uninfected
GSM4615037 S186_SHXA14 peripheral blood mononuclear cell  uninfected Uninfected