Manuscripts

Stuck in Pandemic Uncertainty: A Review of the Persistent Effects of COVID-19 Infection in Immune Deficient People.​ In Press, Clin Microbiol Infect. doi: 10.1016/j.cmi.2024.03.027.

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Bronchiectasis-associated infections and outcomes in a large, geographically diverse electronic health record cohort in the United States. Accepted, Mar 2024, BMC Pulmonary Medicine.

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Semi-parametric modeling of SARS-CoV-2 transmission using tests, cases, deaths, and seroprevalence data. Accepted, Feb 2024. Ann. Appl. Stat. Preprint available.

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Immune response to COVID-19 vaccines in people with immunodeficiencies. Sci Adv. 2023 Oct 13;9(41):eadh3150. doi: 10.1126/sciadv.adh3150.

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Observational studies must be reformed before the next pandemic. Nat Med (2023). doi: 10.1038/s41591-023-02375-8.

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COVID-19 risk perception and vaccine acceptance in individuals with chronic disease. Allergy Asthma Clin Immunol. 2023 May 4;19(1):37. doi: 10.1186/s13223-023-00791-6.

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Assessment of a machine learning model to determine species and site-specific risk factors for invasive candidiasis in US hospitals, 2009-2017. Open Forum Infec Dis. 2022 Aug 3; ofac401. doi: 10.1093/ofid/ofac401.

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Incidence of Nontuberculous Mycobacterial Pulmonary Infection, by Ethnic Group, Hawaii, USA, 2005-2019. Emerg Infect Dis. 2022 Aug;28(8):1543-1550. doi: 10.3201/eid2808.212375.

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Evaluation of viral load in patients with Ebola virus disease in Liberia: a retrospective observational study. 

Lancet Microbe​. 2022 May 23;S2666-5247(22)00065-9. doi: 10.1016/S2666-5247(22)00065-9.

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Long-term antibiotic exposure promotes mortality after systemic fungal infection by driving lymphocyte dysfunction and systemic escape of commensal bacteria. 

Cell Host Microbe​. 2022 May 7;S1931-3128(22)00219-0. doi: 10.1016/j.chom.2022.04.013.

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CFTR modulator use and risk of nontuberculous mycobacteria positivity in cystic fibrosis, 2011-2018. 

ERJ Open Res​. 2022 Apr 11;8(2):00724-2021. doi: 10.1183/23120541.00724-2021.

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Prevalence of APECED-Like Clinical Disease in an Electronic Health Record Database, USA.

J Clin Immunol​. 2022 Mar 21. doi: 10.1007/s10875-022-01254-0.

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The 6-minute walk test predicts mortality in a pulmonary nontuberculous mycobacteria-predominant bronchiectasis cohort.

BMC Infect Dis​. 2022 Jan 21;22(1):75. doi: 10.1186/s12879-022-07054-6.

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Environmental predictors of pulmonary nontuberculous mycobacteria (NTM) sputum positivity among persons with cystic fibrosis in the state of Florida.

PLoS One​. 2021 Dec 9;16(12):e0259964. doi: 10.1371/journal.pone.0259964.

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Missing diagnoses of congenital cytomegalovirus infection in electronic health records for infants with laboratory-confirmed infection. 

Curr Med Res Opin​. 2022 Feb;38(2):273-275. doi: 10.1080/03007995.2021.2006536.

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Antibody responses to the SARS-CoV-2 vaccine in individuals with various inborn errors of immunity. 

J Allergy Clin Immunol. 2021 Nov; 148(5):1192-1197. doi: 10.1016/j.jaci.2021.08.016.

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SARS-CoV-2 Seroprevalence and Drug Use in Trauma Patients from Six Sites in the United States. 

medRxiv. 2021 Aug  11; 2021.08.10.21261849. doi: 10.1101/2021.08.10.21261849. Preprint.

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Association Between Caseload Surge and COVID-19 Survival in 558 U.S. Hospitals, March to August 2020.  

Ann Intern Med. 2021 Jul 6;M21-1213. doi: 10.7326/M21-1213.

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The Impact of Corticosteroids on Secondary Infection and Mortality in Critically Ill COVID-19 Patients. 

J Intensive Care Med. 2021 Jul 12. doi: 10.1177/08850666211032175.

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Orally delivered MK-4482 inhibits SARS-CoV-2 replication in the Syrian hamster model. 

Nat Commun. 2021 Apr 16. doi: 10.1038/s41467-021-22580-8.

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An immune-based biomarker signature is associated with mortality in COVID-19 patients.

JCI Insight. 2021 Jan 11. doi: 10.1172/jci.insight.144455.

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Chronic diseases: Perceptions about Covid-19 risk and vaccination. 

medRxiv. 2021 Mar 24. doi: 10.1101/2021.03.17.21253760.

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Extrapulmonary Nontuberculous Mycobacteria Infections in Hospitalized Patients, United States, 2009-2014.

Emerg Infect Dis. 2021 Mar. doi: 10.3201/eid2703.201087.

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Inappropriate empirical antibiotic therapy for bloodstream infections based on discordant in-vitro susceptibilities: a retrospective cohort analysis of prevalence, predictors, and mortality risk in US hospitals. 

Lancet Infect Dis. 2020 Sep 8. doi: 10.1016/S1473-3099(20)30477-1.

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Using multiple data streams to estimate and forecast SARS-CoV-2 transmission dynamics, with application to the virus spread in Orange County, California. 

ArXiv​. 2020 Sep 6. Preprint.

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Invasive candidiasis species distribution and trends, United States, 2009-2017.

J Infect Dis. 2020 Aug 15. doi: 10.1093/infdis/jiaa502.

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Mycobacterial Testing Trends, United States, 2009–2015. 

Emerg Infect Dis. 2020 Aug 5. doi: 10.3201/eid2609.200749.

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Pharmacoepidemiology of Ceftazidime-avibactam Use: A Retrospective Cohort Analysis of 210 US Hospitals.

Clin Infect Dis. 2020. doi: 10.1093/cid/ciaa061.

External validation of Difficult-to-Treat Resistance prevalence and mortality risk in gram-negative bloodstream infections using electronic health record data from 140 US hospitals.

Open Forum Infect Dis. 2019 Feb 28;6(4):ofz110. doi: 10.1093/ofid/ofz110.

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Determinants of bed net use conditional on access in population surveys in Ghana.

Malar J. 2019 Mar 8;18(63). doi: 10.1186/s12936-019-2700-7.

Measuring and characterizing night time human behaviour as it relates to residual malaria transmission in sub-Saharan Africa: a review of the published literature.

Malar J. 2019 Jan 11;18(1):6. doi: 10.1186/s12936-019-2638-9.

Hospital-based antibiotic use in patients with Mycobacterium avium complex.

ERJ Open Research 2018 Nov 2;4(4). doi: 10.1183/23120541.00109-2018.

Difficult-to-treat Resistance (DTR) in gram-negative bacteremia at 173 US hospitals: Retrospective cohort analysis of prevalence, predictors and outcome of co-resistance to all first-line agents.

Clinical Infectious Diseases 2018 Nov 28;67(12):1803-1814. doi: 10.1093/cid/ciy378.

Epidemiology of nontuberculous mycobacteriosis.

Seminars in Respiratory Critical Care Medicine 2018 Jun;39(3):325-335. doi: 10.1055/s-0038-1651491.

Associations between ideational variables and bed net use in Madagascar, Mali, and Nigeria.

BMC Public Health 2018 Apr 11;18(1):484. doi: 10.1186/s12889-018-5372-2.

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Demand and willingness-to-pay for bed nets in Tanzania: results from a choice experiment

Malar J. 2017 Jul 14;16(1):285. doi: 10.1186/s12936-017-1929-2.

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Multistate outbreak of listeriosis caused by imported cheese and evidence of cross-contamination of other cheeses, USA, 2012

Epidemiol Infect. 2016 Oct;144(13):2698-708. doi: 10.1017/S095026881500117X.

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Correlates of Intra-Household ITN Use in Liberia: A Multilevel Analysis of Household Survey Data

PLoS One. 2016 Jul 12;11(7):e0158331. doi: 10.1371/journal.pone.0158331.

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Outdoor-sleeping and other night-time activities in northern Ghana: implications for residual transmission and malaria prevention

Malar J. 2015 Jan 28;14:35. doi: 10.1186/s12936-015-0543-4.

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The use of mediation analysis to assess the effects of a behaviour change communication strategy on bed net ideation and household universal coverage in Tanzania

Malar J. 2015 Jan 21;14:15. doi: 10.1186/s12936-014-0531-0.

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Epidemiology and antimicrobial resistance of international travel-associated Campylobacter infections in the United States, 2005-2011

Am J Public Health. 2014 Jul;104(7):e108-14. doi: 10.2105/AJPH.2013.301867.

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Are pregnant women prioritized for bed nets? An assessment using survey data from 10 African countries

Glob Health Sci Pract. 2014 May 13;2(2):165-72. doi: 10.9745/GHSP-D-14-00021.

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Evaluating local vegetation cover as a risk factor for malaria transmission: a new analytical approach using ImageJ

Malar J. 2014 Mar 13;13:94. doi: 10.1186/1475-2875-13-94.

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Rapid divergence of two classes of Haemophilus ducreyi

J Bacteriol. 2011 Jun;193(12):2941-7. doi: 10.1128/JB.01400-10.