The COVIDome Explorer researcher portal
Kelly D. Sullivan, Matthew D. Galbraith, Kohl T. Kinning, Kyle W. Bartsch, Nik Levinsky, Paula Araya, Keith P. Smith, Ross E. Granrath, Jessica R. Shaw, Ryan M. Baxter, Kimberly R. Jordan, Seth Russell, Monika Ewa Dzieciatkowska, Julie Ann Reisz, Fabia Gamboni, Francesca Cendali, Tusharkanti Ghosh, Andrew A. Monte, Tellen D. Bennett, Michael G Miller, Elena W.Y. Hsieh, Angelo D’Alessandro, Kirk C. Hansen, Joaquı́n M. Espinosa
Abstract
COVID-19 pathology involves dysregulation of diverse molecular, cellular, and physiological processes. To expedite integrated and collaborative COVID-19 research, we completed multi-omics analysis of hospitalized COVID-19 patients, including matched analysis of the whole-blood transcriptome, plasma proteomics with two complementary platforms, cytokine profiling, plasma and red blood cell metabolomics, deep immune cell phenotyping by mass cytometry, and clinical data annotation. We refer to this multidimensional dataset as the COVIDome. We then created the COVIDome Explorer, an online researcher portal where the data can be analyzed and visualized in real time. We illustrate herein the use of the COVIDome dataset through a multi-omics analysis of biosignatures associated with C-reactive protein (CRP), an established marker of poor prognosis in COVID-19, revealing associations between CRP levels and damage-associated molecular patterns, depletion of protective serpins, and mitochondrial metabolism dysregulation. We expect that the COVIDome Explorer will rapidly accelerate data sharing, hypothesis testing, and discoveries worldwide.