Venkata R. Duvvuri
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View article: Correction: Identification of patient demographic, clinical, and SARS-CoV-2 genomic factors associated with severe COVID-19 using supervised machine learning: a retrospective multicenter study
Correction: Identification of patient demographic, clinical, and SARS-CoV-2 genomic factors associated with severe COVID-19 using supervised machine learning: a retrospective multicenter study Open
View article: Complete genome sequences of two <i>Treponema pallidum</i> subsp. <i>pallidum</i> specimens from Canadian patients
Complete genome sequences of two <i>Treponema pallidum</i> subsp. <i>pallidum</i> specimens from Canadian patients Open
We report the genome sequences of two Treponema pallidum subsp. pallidum specimens in Canada, with basic details on the genetic diversity and antimicrobial resistance. This data contributes to the understanding of T. pallidum evolution and…
View article: Global Circulation of RSV-A ON1 Genotype Strains without Characteristic 72-Nucleotide Duplication in the G Gene, 2010-2023
Global Circulation of RSV-A ON1 Genotype Strains without Characteristic 72-Nucleotide Duplication in the G Gene, 2010-2023 Open
View article: Clinical presentation of Enterovirus D68 in adults with acute respiratory infections consulting in emergency departments in Quebec, Canada
Clinical presentation of Enterovirus D68 in adults with acute respiratory infections consulting in emergency departments in Quebec, Canada Open
Respiratory symptoms tended to be more common among participants with EV-D68 than those with other EV/RV, although disease severity was similar. Larger studies are needed to better characterize EV-D68 infections in adults.
View article: Identification of patient demographic, clinical, and SARS-CoV-2 genomic factors associated with severe COVID-19 using supervised machine learning: a retrospective multicenter study
Identification of patient demographic, clinical, and SARS-CoV-2 genomic factors associated with severe COVID-19 using supervised machine learning: a retrospective multicenter study Open
Viral genomic features have limited utility in predicting hospitalization across SARS-CoV-2 diversity. Combining clinical and viral genomic datasets provides perspective on patient specific and virus-related factors that impact COVID-19 di…
View article: Integrated genomic approaches improve <i>Treponema pallidum</i> phylogenetics and lineage classification
Integrated genomic approaches improve <i>Treponema pallidum</i> phylogenetics and lineage classification Open
Syphilis cases have been consistently rising since its near elimination in the late 1990s. This resurgence, along with increasing rates of macrolide resistance and congenital syphilis, has triggered renewed efforts to better understand and…
View article: Large scale analysis of the SARS-CoV-2 main protease reveals marginal presence of nirmatrelvir-resistant SARS-CoV-2 Omicron mutants in Ontario, Canada, December 2021–September 2023
Large scale analysis of the SARS-CoV-2 main protease reveals marginal presence of nirmatrelvir-resistant SARS-CoV-2 Omicron mutants in Ontario, Canada, December 2021–September 2023 Open
The observations suggest that, as of September 2023, no significant or widespread resistance to nirmatrelvir has developed among SARS-CoV-2 Omicron variants in Ontario. This study highlights the importance of creating automated monitoring …
View article: L'analyse à grande échelle de la protéase principale du virus SRAS-CoV-2 révèle la présence marginale de mutants du variant Omicron du SRAS-CoV-2 résistants au nirmatrelvir en Ontario, au Canada, de décembre 2021 à septembre 2023
L'analyse à grande échelle de la protéase principale du virus SRAS-CoV-2 révèle la présence marginale de mutants du variant Omicron du SRAS-CoV-2 résistants au nirmatrelvir en Ontario, au Canada, de décembre 2021 à septembre 2023 Open
View article: Inferring enterovirus D68 transmission dynamics from the genomic data of two 2022 North American outbreaks
Inferring enterovirus D68 transmission dynamics from the genomic data of two 2022 North American outbreaks Open
View article: Socio-demographic predictors of not having private dental insurance coverage: machine-learning algorithms may help identify the disadvantaged
Socio-demographic predictors of not having private dental insurance coverage: machine-learning algorithms may help identify the disadvantaged Open
View article: Inferring Enterovirus D68 Transmission Dynamics from the Genomic Data of Two 2022 North American outbreaks
Inferring Enterovirus D68 Transmission Dynamics from the Genomic Data of Two 2022 North American outbreaks Open
Enterovirus D68 (EV-D68) has emerged as a significant cause of acute respiratory illness in children globally, notably following its extensive outbreak in North America in 2014. A recent outbreak of EV-D68 was observed in Ontario, Canada, …
View article: Targeted amplification-based whole genome sequencing of <i>Monkeypox virus</i> in clinical specimens
Targeted amplification-based whole genome sequencing of <i>Monkeypox virus</i> in clinical specimens Open
The 2022 mpox outbreak has led to more than 91,000 cases in 115 countries. Whole genome sequencing (WGS) has been at the forefront of surveillance and outbreak investigations for different pathogens of public health significance. Many inst…
View article: Socio-demographic predictors of not having private dental insurance coverage: Machine-learning algorithms may help identify the disadvantaged
Socio-demographic predictors of not having private dental insurance coverage: Machine-learning algorithms may help identify the disadvantaged Open
Background Unlike universal health care coverage, dental care in Canada is almost wholly privately financed, with approximately 62% having employment-based insurance, 32% having no insurance, and only 6% of Canadians have some form of dent…
View article: Comparing the transmission potential from sequence and surveillance data of 2009 North American influenza pandemic waves
Comparing the transmission potential from sequence and surveillance data of 2009 North American influenza pandemic waves Open
Technological advancements in phylodynamic modeling coupled with the accessibility of real-time pathogen genetic data are increasingly important for understanding the infectious disease transmission dynamics. In this study, we compare the …
View article: Monkeypox Virus Detection in Different Clinical Specimen Types
Monkeypox Virus Detection in Different Clinical Specimen Types Open
A global monkeypox outbreak began in May 2022. Limited data exist on specimen type performance in associated molecular diagnostics. Consequently, a diverse range of specimen sources were collected in the initial weeks of the outbreak in On…
View article: Risk factors for severe COVID-19 differ by age for hospitalized adults
Risk factors for severe COVID-19 differ by age for hospitalized adults Open
View article: Time to reinfection and vaccine breakthrough SARS-CoV-2 infections: a retrospective cohort study
Time to reinfection and vaccine breakthrough SARS-CoV-2 infections: a retrospective cohort study Open
Background It is important to understand how BNT162b2, mRNA-1273, and JNJ-78436735 COVID-19 vaccines, as well as prior infection, protect against breakthrough cases and reinfections. Real world evidence on acquired immunity from vaccines, …
View article: Risk factors for severe COVID-19 differ by age: a retrospective study of hospitalized adults
Risk factors for severe COVID-19 differ by age: a retrospective study of hospitalized adults Open
Background Risk stratification for hospitalized adults with COVID-19 is essential to inform decisions for individual patients and allocation of potentially scarce resources. So far, risk models for severe COVID outcomes have included age b…
View article: Multiple early factors anticipate post-acute COVID-19 sequelae
Multiple early factors anticipate post-acute COVID-19 sequelae Open
View article: Angiotensin-Converting Enzyme (ACE) Inhibitors May Moderate COVID-19 Hyperinflammatory Response: An Observational Study with Deep Immunophenotyping
Angiotensin-Converting Enzyme (ACE) Inhibitors May Moderate COVID-19 Hyperinflammatory Response: An Observational Study with Deep Immunophenotyping Open
Background : Angiotensin-converting enzyme inhibitors (ACEi) and angiotensin-II receptor blockers (ARB), the most commonly prescribed antihypertensive medications, counter renin-angiotensin-aldosterone system (RAAS) activation via inductio…
View article: Angiotensin II receptor I auto-antibodies following SARS-CoV-2 infection
Angiotensin II receptor I auto-antibodies following SARS-CoV-2 infection Open
Background Coronavirus disease 2019 ( COVID-19 ) is associated with endothelial activation and coagulopathy, which may be related to pre-existing or infection-induced pro-thrombotic autoantibodies such as those targeting angiotensin II typ…
View article: Integrated analysis of plasma and single immune cells uncovers metabolic changes in individuals with COVID-19
Integrated analysis of plasma and single immune cells uncovers metabolic changes in individuals with COVID-19 Open
View article: Angiotensin II receptor I auto-antibodies following SARS-CoV-2 infection
Angiotensin II receptor I auto-antibodies following SARS-CoV-2 infection Open
BACKGROUND Coronavirus disease 2019 ( COVID-19 ) is associated with endothelial activation and coagulopathy, which may be related to pre-existing or infection-induced pro-thrombotic autoantibodies such as those targeting angiotensin II typ…
View article: Heterogeneous immunological recovery trajectories revealed in post-acute COVID-19
Heterogeneous immunological recovery trajectories revealed in post-acute COVID-19 Open
The immunological picture of how different patients recover from COVID-19, and how those recovery trajectories are influenced by infection severity, remain unclear. We investigated 140 COVID-19 patients from diagnosis to convalescence usin…
View article: Multi-Omics Resolves a Sharp Disease-State Shift between Mild and Moderate COVID-19
Multi-Omics Resolves a Sharp Disease-State Shift between Mild and Moderate COVID-19 Open
We present an integrated analysis of the clinical measurements, immune cells, and plasma multi-omics of 139 COVID-19 patients representing all levels of disease severity, from serial blood draws collected during the first week of infection…
View article: Multiomic Immunophenotyping of COVID-19 Patients Reveals Early Infection Trajectories
Multiomic Immunophenotyping of COVID-19 Patients Reveals Early Infection Trajectories Open
SUMMARY Host immune responses play central roles in controlling SARS-CoV2 infection, yet remain incompletely characterized and understood. Here, we present a comprehensive immune response map spanning 454 proteins and 847 metabolites in pl…
View article: Shared Antigen-specific CD8+ T cell Responses Against the SARS-COV-2 Spike Protein in HLA A*02:01 COVID-19 Participants
Shared Antigen-specific CD8+ T cell Responses Against the SARS-COV-2 Spike Protein in HLA A*02:01 COVID-19 Participants Open
We report here on antigens from the SARS-CoV-2 virus spike protein, that when presented by Class I MHC, can lead to cytotoxic CD8+ T cell anti-viral responses in COVID-19 patients. We present a method in which the SARS-CoV-2 spike protein …
View article: Agricultural and geographic factors shaped the North American 2015 highly pathogenic avian influenza H5N2 outbreak
Agricultural and geographic factors shaped the North American 2015 highly pathogenic avian influenza H5N2 outbreak Open
The 2014-2015 highly pathogenic avian influenza (HPAI) H5NX outbreak represents the largest and most expensive HPAI outbreak in the United States to date. Despite extensive traditional and molecular epidemiological studies, factors associa…
View article: Multiomic Immunophenotyping of COVID-19 Patients Reveals Early Infection Trajectories
Multiomic Immunophenotyping of COVID-19 Patients Reveals Early Infection Trajectories Open
View article: Computational Approaches and Challenges to Developing Universal Influenza Vaccines
Computational Approaches and Challenges to Developing Universal Influenza Vaccines Open
The traditional design of effective vaccines for rapidly-evolving pathogens, such as influenza A virus, has failed to provide broad spectrum and long-lasting protection. With low cost whole genome sequencing technology and powerful computi…