ABSTRACT
Clinic testing plays a critical role in containing infectious diseases such as COVID-19. However, one of the key research questions in fighting such pandemics is how to optimize testing capacities across clinics. In particular, domain experts expect to know exactly how to adjust the features that may affect testing capacities, given that dynamics and uncertainty make this a highly challenging problem. Hence, as a tool to support both policymakers and clinicians, we collaborated with domain experts to build ClinicLens, an interactive visual analytics system for exploring and optimizing the testing capacities of clinics. ClinicLens houses a range of features based on an aggregated set of COVID-19 data. It comprises Back-end Engine and Front-end Visualization that take users through an iterative exploration chain of extracting, training, and predicting testing-sensitive features and visual representations. It also combines AI4VIS and visual analytics to demonstrate how a clinic might optimize its testing capacity given the impacts of a range of features. Three qualitative case studies along with feedback from subject-matter experts validate that ClinicLens is both a useful and effective tool for exploring the trends in COVID-19 and optimizing clinic testing capacities across regions. The entire approach has been open-sourced online: https://github.com/YuDong5018/clinic-lens.
Subject(s)
COVID-19ABSTRACT
A more efficient and effective adaptive humoral immune response has been proposed as the basis of the usually favourable outcome of paediatric COVID-19. The breadth of virus and vaccine immunogenicity towards the ever-mutating Spike protein amongst variants of concern (VOC) have not yet been compared between children and adults. We utilized molecular cloning and sensitive antibody detection against conformational Spike by flow cytometry to assess Spike antibodies and delineate the immunogenic region in immune naïve children and adults vaccinated by BNT162b2 and ChAdOx1, and naturally infected with Early Clade, Delta, and Omicron variants. Patient sera were analysed against SARS-CoV-2 Spike antigens including naturally occurring VOCs Alpha, Beta, Gamma, Delta, Omicron BA.1, BA.2, and BA.5 variants of interest Epsilon, Kappa, Eta, D.2, and artificial Spike mutants. There was no notable difference between breadth and longevity of antibody responses generated against VOCs in children and adults. Vaccinated individuals displayed similar immunoreactivity profiles across variants to naturally infected individuals. Delta-infected patients had an enhanced immunogenicity toward Delta and some VOCs compared to patients infected by Early Clade SARS-CoV-2. Although Omicron BA.1, BA.2, and BA.5 antibody levels were increased after Omicron infection in both children and adults, immunogenicity against Omicron subvariants was reduced. This decrease was observed across VOC infection, immunization, and age groups. Selected epistatically combined mutations led to an increase of immunogenicity in artificial Spikes, but were unable to compensate overall within Omicron. Our results reveal important molecular features central to the generation of high antibody titers and broad immunoreactivity that should be considered in future vaccine design and global serosurveillance.
Subject(s)
Migraine Disorders , Hepatitis D , COVID-19ABSTRACT
Children infected with severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) develop less severe coronavirus disease 2019 (COVID-19) than adults. The mechanisms for the age-specific differences and the implications for infection-induced immunity are beginning to be uncovered. We show by longitudinal multimodal analysis that SARS-CoV-2 leaves a small footprint in the circulating T cell compartment in children with mild/asymptomatic COVID-19 compared to adult household contacts with the same disease severity who had more evidence of systemic T cell interferon activation, cytotoxicity and exhaustion. Children harbored diverse polyclonal SARS-CoV-2-specific naive T cells whereas adults harbored clonally expanded SARS-CoV-2-specific memory T cells. More naive interferon-activated CD4+ T cells were recruited into the memory compartment and recovery was associated with the development of robust CD4+ memory T cell responses in adults but not children. These data suggest that rapid clearance of SARS-CoV-2 in children may compromise their cellular immunity and ability to resist reinfection.