Conan Zhao
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View article: Mapping the respiratory microbiome in intubated children over time
Mapping the respiratory microbiome in intubated children over time Open
Children who require airway intubation are almost always treated with empiric antibiotics, pending clinical microbiology results. Positive pathogen results are near inevitable, due to the frequent presence of potential opportunistic pathog…
View article: Microbiomes without boundaries: cystic fibrosis ‘pulmotype’ classifications are dependent on algorithm choice and database size, and indicate continuous variation
Microbiomes without boundaries: cystic fibrosis ‘pulmotype’ classifications are dependent on algorithm choice and database size, and indicate continuous variation Open
A common response to microbiome sample variation is to use clustering algorithms to reduce complex and variable datasets to a smaller number of ‘types’ (e.g. enterotypes for gut samples, or pulmotypes for lung samples). In light of recent …
View article: Racial inequities and rare CFTR variants: Impact on cystic fibrosis diagnosis and treatment
Racial inequities and rare CFTR variants: Impact on cystic fibrosis diagnosis and treatment Open
View article: Mathematical models of cystic fibrosis as a systemic disease
Mathematical models of cystic fibrosis as a systemic disease Open
Cystic fibrosis (CF) is widely known as a disease of the lung, even though it is in truth a systemic disease, whose symptoms typically manifest in gastrointestinal dysfunction first. CF ultimately impairs not only the pancreas and intestin…
View article: Frequency of quorum-sensing mutations in Pseudomonas aeruginosa strains isolated from different environments
Frequency of quorum-sensing mutations in Pseudomonas aeruginosa strains isolated from different environments Open
Pseudomonas aeruginosa uses quorum sensing (QS) to coordinate the expression of multiple genes necessary for establishing and maintaining infection. It has previously been shown that lasR QS mutations frequently arise in cystic fibrosis (C…
View article: Antibiotics Drive Expansion of Rare Pathogens in a Chronic Infection Microbiome Model
Antibiotics Drive Expansion of Rare Pathogens in a Chronic Infection Microbiome Model Open
We develop and clinically benchmark an experimental model of the cystic fibrosis (CF) lung infection microbiome to investigate the impacts of antibiotic exposures on chronic, polymicrobial infections. We show that a single experimental mod…
View article: Modeling serological testing to inform relaxation of social distancing for COVID-19 control
Modeling serological testing to inform relaxation of social distancing for COVID-19 control Open
View article: 501: CFRD airway microbiomes do not differ from NGT unless diabetes is poorly controlled
501: CFRD airway microbiomes do not differ from NGT unless diabetes is poorly controlled Open
View article: Causes and Consequences of COVID-19-Associated Bacterial Infections
Causes and Consequences of COVID-19-Associated Bacterial Infections Open
The COVID-19 literature highlights that bacterial infections are more common in fatal cases than recovered cases. If bacterial infections drive mortality in COVID-19, this has clear implications for patient management. However, it is possi…
View article: Antibiotics drive expansion of rare pathogens in a chronic infection microbiome model
Antibiotics drive expansion of rare pathogens in a chronic infection microbiome model Open
Chronic (long-lasting) infections are globally a major and rising cause of morbidity and mortality. Unlike typical acute infections, chronic infections are ecologically diverse, characterized by the presence of a polymicrobial mix of oppor…
View article: Frequency of quorum sensing mutations in<i>Pseudomonas aeruginosa</i>strains isolated from different environments
Frequency of quorum sensing mutations in<i>Pseudomonas aeruginosa</i>strains isolated from different environments Open
Pseudomonas aeruginosa uses quorum sensing (QS) to coordinate the expression of multiple genes necessary for establishing and maintaining infection. It has previously been shown that lasR QS mutations frequently arise in cystic fibrosis (C…
View article: Microbiome Data Enhances Predictive Models of Lung Function in People With Cystic Fibrosis
Microbiome Data Enhances Predictive Models of Lung Function in People With Cystic Fibrosis Open
Background Microbiome sequencing has brought increasing attention to the polymicrobial context of chronic infections. However, clinical microbiology continues to focus on canonical human pathogens, which may overlook informative, but nonpa…
View article: Modeling shield immunity to reduce COVID-19 epidemic spread
Modeling shield immunity to reduce COVID-19 epidemic spread Open
View article: Code for: Modeling shield immunity to reduce COVID-19 epidemic spread
Code for: Modeling shield immunity to reduce COVID-19 epidemic spread Open
Modeling the Role of 'Shield Immunity' in Reducing COVID-19 Epidemic Spread
View article: Modeling serological testing to inform relaxation of social distancing for COVID-19 control
Modeling serological testing to inform relaxation of social distancing for COVID-19 control Open
Background While social distancing efforts have been successful at slowing the spread of SARS-CoV- 2, these measures cannot be sustained indefinitely. In this paper, we examine how serological testing can reduce the risk of relaxing social…
View article: Code for: Intervention Serology and Interaction Substitution: Modeling the Role of 'Shield Immunity' in Reducing COVID-19 Epidemic Spread
Code for: Intervention Serology and Interaction Substitution: Modeling the Role of 'Shield Immunity' in Reducing COVID-19 Epidemic Spread Open
code for : Intervention Serology and Interaction Substitution: Modeling the Role of 'Shield Immunity' in Reducing COVID-19 Epidemic Spread
View article: Intervention Serology and Interaction Substitution: Modeling the Role of ‘Shield Immunity’ in Reducing COVID-19 Epidemic Spread
Intervention Serology and Interaction Substitution: Modeling the Role of ‘Shield Immunity’ in Reducing COVID-19 Epidemic Spread Open
The COVID-19 pandemic has precipitated a global crisis, with more than 690,000 confirmed cases and more than 33,000 confirmed deaths globally as of March 30, 2020 [1–4]. At present two central public health control strategies have emerged:…