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Article
Open AccessDistinguishing features of long COVID identified through immune profiling
Post-acute infection syndromes may develop after acute viral disease1. Infection with SARS-CoV-2 can result in the development of a post-acute infection syndrome known as long COVID. Individuals with long COVID f...
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Article
Open AccessPharmacological disruption of mSWI/SNF complex activity restricts SARS-CoV-2 infection
Identification of host determinants of coronavirus infection informs mechanisms of viral pathogenesis and can provide new drug targets. Here we demonstrate that mammalian SWItch/Sucrose Non-Fermentable (mSWI/S...
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Article
Open AccessPlasmodium infection is associated with cross-reactive antibodies to carbohydrate epitopes on the SARS-CoV-2 Spike protein
Sero-surveillance can monitor and project disease burden and risk. However, SARS-CoV-2 antibody test results can produce false positive results, limiting their efficacy as a sero-surveillance tool. False posit...
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Article
Open AccessGut microbiome dysbiosis in antibiotic-treated COVID-19 patients is associated with microbial translocation and bacteremia
Although microbial populations in the gut microbiome are associated with COVID-19 severity, a causal impact on patient health has not been established. Here we provide evidence that gut microbiome dysbiosis is...
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Article
Multiscale PHATE identifies multimodal signatures of COVID-19
As the biomedical community produces datasets that are increasingly complex and high dimensional, there is a need for more sophisticated computational tools to extract biological insights. We present Multiscal...
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Article
Open AccessHigh-resolution epitope map** and characterization of SARS-CoV-2 antibodies in large cohorts of subjects with COVID-19
As Severe Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2) continues to spread, characterization of its antibody epitopes, emerging strains, related coronaviruses, and even the human proteome in naturally...
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Article
Open AccessSerological assessment of SARS-CoV-2 infection during the first wave of the pandemic in Louisville Kentucky
Serological assays intended for diagnosis, sero-epidemiologic assessment, and measurement of protective antibody titers upon infection or vaccination are essential for managing the SARS-CoV-2 pandemic. Serolog...
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Article
Reply to: A finding of sex similarities rather than differences in COVID-19 outcomes
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Article
Author Correction: Delayed production of neutralizing antibodies correlates with fatal COVID-19
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Article
Delayed production of neutralizing antibodies correlates with fatal COVID-19
Recent studies have provided insights into innate and adaptive immune dynamics in coronavirus disease 2019 (COVID-19). However, the exact features of antibody responses that govern COVID-19 disease outcomes re...
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Article
Diverse functional autoantibodies in patients with COVID-19
COVID-19 manifests with a wide spectrum of clinical phenotypes that are characterized by exaggerated and misdirected host immune responses1–6. Although pathological innate immune activation is well-documented in ...
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Article
Sex differences in immune responses that underlie COVID-19 disease outcomes
There is increasing evidence that coronavirus disease 2019 (COVID-19) produces more severe symptoms and higher mortality among men than among women1–5. However, whether immune responses against severe acute respi...
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Article
Longitudinal analyses reveal immunological misfiring in severe COVID-19
Recent studies have provided insights into the pathogenesis of coronavirus disease 2019 (COVID-19)1–4. However, the longitudinal immunological correlates of disease outcome remain unclear. Here we serially analys...
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Chapter
Genetic Programming with Historically Assessed Hardness
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Chapter
3D Multi-Agent Simulations in the breve Simulation Environment
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Chapter
Multidimensional Tags, Cooperative Populations, and Genetic Programming
We present new results on the evolution of tag-mediated cooperation, demonstrating that the use of multidimensional tags can enhance the emergence of high levels of cooperation. We discuss these results in the...
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Chapter
Trivial Geography in Genetic Programming
Geographical distribution is widely held to be a major determinant of evolutionary dynamics. Correspondingly, genetic programming theorists and practitioners have long developed, used, and studied systems in w...
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Article
Emergence of Collective Behavior in Evolving Populations of Flying Agents
We demonstrate the emergence of collective behavior in two evolutionary computation systems, one an evolutionary extension of a classic (highly constrained) flocking algorithm and the other a relatively un-con...
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Chapter and Conference Paper
Emergence of Collective Behavior in Evolving Populations of Flying Agents
We demonstrate the emergence of collective behavior in two evolutionary computation systems, one an evolutionary extension of a classic (highly constrained) flocking algorithm and the other a relatively un-con...