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  1. Article ; Online: Genomic framework for malaria parasites: challenging but necessary.

    Camponovo, Flavia / Buckee, Caroline O / Taylor, Aimee R

    Trends in parasitology

    2023  Volume 39, Issue 4, Page(s) 231

    MeSH term(s) Animals ; Humans ; Parasites ; Malaria/prevention & control ; Plasmodium falciparum/genetics ; Genomics
    Language English
    Publishing date 2023-02-17
    Publishing country England
    Document type Letter ; Research Support, Non-U.S. Gov't ; Research Support, N.I.H., Extramural ; Comment
    ZDB-ID 2036227-4
    ISSN 1471-5007 ; 1471-4922
    ISSN (online) 1471-5007
    ISSN 1471-4922
    DOI 10.1016/j.pt.2023.01.011
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  2. Article ; Online: Measurably recombining malaria parasites.

    Camponovo, Flavia / Buckee, Caroline O / Taylor, Aimee R

    Trends in parasitology

    2022  Volume 39, Issue 1, Page(s) 17–25

    Abstract: Genomic epidemiology has guided research and policy for various viral pathogens and there has been a parallel effort towards using genomic epidemiology to combat diseases that are caused by eukaryotic pathogens, such as the malaria parasite. However, the ...

    Abstract Genomic epidemiology has guided research and policy for various viral pathogens and there has been a parallel effort towards using genomic epidemiology to combat diseases that are caused by eukaryotic pathogens, such as the malaria parasite. However, the central concept of viral genomic epidemiology, namely that of measurably mutating pathogens, does not apply easily to sexually recombining parasites. Here we introduce the related but different concept of measurably recombining malaria parasites to promote convergence around a unifying theoretical framework for malaria genomic epidemiology. Akin to viral phylodynamics, we anticipate that an inferential framework developed around recombination will help guide practical research and thus realize the full public health potential of genomic epidemiology for malaria parasites and other sexually recombining pathogens.
    MeSH term(s) Animals ; Humans ; Parasites ; Malaria/epidemiology ; Malaria/prevention & control ; Genomics ; Eukaryota
    Language English
    Publishing date 2022-11-23
    Publishing country England
    Document type Journal Article ; Review ; Research Support, N.I.H., Extramural ; Research Support, Non-U.S. Gov't
    ZDB-ID 2036227-4
    ISSN 1471-5007 ; 1471-4922
    ISSN (online) 1471-5007
    ISSN 1471-4922
    DOI 10.1016/j.pt.2022.11.002
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  3. Article ; Online: Individual model forecasts can be misleading, but together they are useful.

    Buckee, Caroline O / Johansson, Michael A

    European journal of epidemiology

    2020  Volume 35, Issue 8, Page(s) 731–732

    MeSH term(s) Betacoronavirus ; COVID-19 ; Coronavirus Infections/epidemiology ; Disease Outbreaks/prevention & control ; Forecasting/methods ; Humans ; Models, Statistical ; Models, Theoretical ; Pandemics/prevention & control ; Pneumonia, Viral/epidemiology ; SARS-CoV-2 ; United States/epidemiology
    Keywords covid19
    Language English
    Publishing date 2020-08-11
    Publishing country Netherlands
    Document type Journal Article
    ZDB-ID 632614-6
    ISSN 1573-7284 ; 0393-2990
    ISSN (online) 1573-7284
    ISSN 0393-2990
    DOI 10.1007/s10654-020-00667-8
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  4. Article ; Online: Data in Crisis - Rethinking Disaster Preparedness in the United States.

    Balsari, Satchit / Kiang, Mathew V / Buckee, Caroline O

    The New England journal of medicine

    2021  Volume 385, Issue 16, Page(s) 1526–1530

    MeSH term(s) COVID-19 ; Data Mining ; Disaster Planning/methods ; Humans ; Information Dissemination/legislation & jurisprudence ; Natural Disasters ; United States
    Language English
    Publishing date 2021-09-01
    Publishing country United States
    Document type Journal Article
    ZDB-ID 207154-x
    ISSN 1533-4406 ; 0028-4793
    ISSN (online) 1533-4406
    ISSN 0028-4793
    DOI 10.1056/NEJMms2104654
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  5. Article ; Online: Deconstructing the parasite multiplication rate of Plasmodium falciparum.

    Gnangnon, Bénédicte / Duraisingh, Manoj T / Buckee, Caroline O

    Trends in parasitology

    2021  Volume 37, Issue 10, Page(s) 922–932

    Abstract: Epidemiological indicators describing population-level malaria transmission dynamics are widely used to guide policy recommendations. However, the determinants of malaria outcomes within individuals are still poorly understood. This conceptual gap partly ...

    Abstract Epidemiological indicators describing population-level malaria transmission dynamics are widely used to guide policy recommendations. However, the determinants of malaria outcomes within individuals are still poorly understood. This conceptual gap partly reflects the fact that there are few indicators that robustly predict the trajectory of individual infections or clinical outcomes. The parasite multiplication rate (PMR) is a widely used indicator for the Plasmodium intraerythrocytic development cycle (IDC), for example, but its relationship to clinical outcomes is complex. Here, we review its calculation and use in P. falciparum malaria research, as well as the parasite and host factors that impact it. We also provide examples of metrics that can help to link within-host dynamics to malaria clinical outcomes when used alongside the PMR.
    MeSH term(s) Animals ; Erythrocytes/parasitology ; Host-Parasite Interactions ; Humans ; Malaria, Falciparum/parasitology ; Plasmodium falciparum/growth & development ; Protozoan Proteins/metabolism
    Chemical Substances Protozoan Proteins
    Language English
    Publishing date 2021-06-10
    Publishing country England
    Document type Journal Article ; Research Support, N.I.H., Extramural ; Research Support, Non-U.S. Gov't ; Review
    ZDB-ID 2036227-4
    ISSN 1471-5007 ; 1471-4922
    ISSN (online) 1471-5007
    ISSN 1471-4922
    DOI 10.1016/j.pt.2021.05.001
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  6. Article ; Online: Connecting the dots: understanding how human mobility shapes TB epidemics.

    Brown, Tyler S / Robinson, D Ashley / Buckee, Caroline O / Mathema, Barun

    Trends in microbiology

    2022  Volume 30, Issue 11, Page(s) 1036–1044

    Abstract: Tuberculosis (TB) remains a leading infectious cause of death worldwide. Reducing TB infections and TB-related deaths rests ultimately on stopping forward transmission from infectious to susceptible individuals. Critical to this effort is understanding ... ...

    Abstract Tuberculosis (TB) remains a leading infectious cause of death worldwide. Reducing TB infections and TB-related deaths rests ultimately on stopping forward transmission from infectious to susceptible individuals. Critical to this effort is understanding how human host mobility shapes the transmission and dispersal of new or existing strains of Mycobacterium tuberculosis (Mtb). Important questions remain unanswered. What kinds of mobility, over what temporal and spatial scales, facilitate TB transmission? How do human mobility patterns influence the dispersal of novel Mtb strains, including emergent drug-resistant strains? This review summarizes the current state of knowledge on mobility and TB epidemic dynamics, using examples from three topic areas, including inference of genetic and spatial clustering of infections, delineating source-sink dynamics, and mapping the dispersal of novel TB strains, to examine scientific questions and methodological issues within this topic. We also review new data sources for measuring human mobility, including mobile phone-associated movement data, and discuss important limitations on their use in TB epidemiology.
    MeSH term(s) Antitubercular Agents/therapeutic use ; Epidemics ; Humans ; Mycobacterium tuberculosis/genetics ; Tuberculosis/epidemiology ; Tuberculosis/microbiology
    Chemical Substances Antitubercular Agents
    Language English
    Publishing date 2022-05-18
    Publishing country England
    Document type Journal Article ; Review
    ZDB-ID 1158963-2
    ISSN 1878-4380 ; 0966-842X
    ISSN (online) 1878-4380
    ISSN 0966-842X
    DOI 10.1016/j.tim.2022.04.005
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  7. Article ; Online: Society: Protect privacy of mobile data.

    Buckee, Caroline O

    Nature

    2014  Volume 514, Issue 7520, Page(s) 35

    MeSH term(s) Adaptation, Psychological ; Behavior ; Global Warming/statistics & numerical data ; Humans ; Models, Psychological
    Language English
    Publishing date 2014-09-24
    Publishing country England
    Document type Letter ; Comment
    ZDB-ID 120714-3
    ISSN 1476-4687 ; 0028-0836
    ISSN (online) 1476-4687
    ISSN 0028-0836
    DOI 10.1038/514035c
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  8. Article ; Online: Distinguishing gene flow between malaria parasite populations.

    Brown, Tyler S / Arogbokun, Olufunmilayo / Buckee, Caroline O / Chang, Hsiao-Han

    PLoS genetics

    2021  Volume 17, Issue 12, Page(s) e1009335

    Abstract: Measuring gene flow between malaria parasite populations in different geographic locations can provide strategic information for malaria control interventions. Multiple important questions pertaining to the design of such studies remain unanswered, ... ...

    Abstract Measuring gene flow between malaria parasite populations in different geographic locations can provide strategic information for malaria control interventions. Multiple important questions pertaining to the design of such studies remain unanswered, limiting efforts to operationalize genomic surveillance tools for routine public health use. This report examines the use of population-level summaries of genetic divergence (FST) and relatedness (identity-by-descent) to distinguish levels of gene flow between malaria populations, focused on field-relevant questions about data size, sampling, and interpretability of observations from genomic surveillance studies. To do this, we use P. falciparum whole genome sequence data and simulated sequence data approximating malaria populations evolving under different current and historical epidemiological conditions. We employ mobile-phone associated mobility data to estimate parasite migration rates over different spatial scales and use this to inform our analysis. This analysis underscores the complementary nature of divergence- and relatedness-based metrics for distinguishing gene flow over different temporal and spatial scales and characterizes the data requirements for using these metrics in different contexts. Our results have implications for the design and implementation of malaria genomic surveillance studies.
    MeSH term(s) Animals ; Gene Flow/genetics ; Genetic Variation/genetics ; Genetics, Population ; Genome/genetics ; Geography ; Humans ; Malaria, Falciparum/epidemiology ; Malaria, Falciparum/genetics ; Malaria, Falciparum/parasitology ; Plasmodium falciparum/genetics ; Plasmodium falciparum/pathogenicity ; Whole Genome Sequencing
    Language English
    Publishing date 2021-12-20
    Publishing country United States
    Document type Journal Article ; Research Support, N.I.H., Extramural ; Research Support, Non-U.S. Gov't
    ZDB-ID 2186725-2
    ISSN 1553-7404 ; 1553-7390
    ISSN (online) 1553-7404
    ISSN 1553-7390
    DOI 10.1371/journal.pgen.1009335
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  9. Article ; Online: Quantifying the success of measles vaccination campaigns in the Rohingya refugee camps.

    Chin, Taylor / Buckee, Caroline O / Mahmud, Ayesha S

    Epidemics

    2020  Volume 30, Page(s) 100385

    Abstract: In the wake of the Rohingya population's mass migration from Myanmar, one of the world's largest refugee settlements was constructed in Cox's Bazar, Bangladesh to accommodate nearly 900,000 new refugees. Refugee populations are particularly vulnerable to ...

    Abstract In the wake of the Rohingya population's mass migration from Myanmar, one of the world's largest refugee settlements was constructed in Cox's Bazar, Bangladesh to accommodate nearly 900,000 new refugees. Refugee populations are particularly vulnerable to infectious disease outbreaks due to many population and environmental factors. A large measles outbreak, with over 1700 cases, occurred among the Rohingya population between September and November 2017. Here, we estimate key epidemiological parameters and use a dynamic mathematical model of measles transmission to evaluate the effectiveness of the reactive vaccination campaigns in the refugee camps. We also estimate the potential for subsequent outbreaks under different vaccination coverage scenarios. Our modeling results highlight the success of the vaccination campaigns in rapidly curbing transmission and emphasize the public health importance of maintaining high levels of vaccination in this population, where high birth rates and historically low vaccination coverage rates create suitable conditions for future measles outbreaks.
    Language English
    Publishing date 2020-01-09
    Publishing country Netherlands
    Document type Journal Article
    ZDB-ID 2467993-8
    ISSN 1878-0067 ; 1755-4365
    ISSN (online) 1878-0067
    ISSN 1755-4365
    DOI 10.1016/j.epidem.2020.100385
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  10. Article ; Online: The Use and Misuse of Mathematical Modeling for Infectious Disease Policymaking: Lessons for the COVID-19 Pandemic.

    James, Lyndon P / Salomon, Joshua A / Buckee, Caroline O / Menzies, Nicolas A

    Medical decision making : an international journal of the Society for Medical Decision Making

    2021  Volume 41, Issue 4, Page(s) 379–385

    Abstract: Mathematical modeling has played a prominent and necessary role in the current coronavirus disease 2019 (COVID-19) pandemic, with an increasing number of models being developed to track and project the spread of the disease, as well as major decisions ... ...

    Abstract Mathematical modeling has played a prominent and necessary role in the current coronavirus disease 2019 (COVID-19) pandemic, with an increasing number of models being developed to track and project the spread of the disease, as well as major decisions being made based on the results of these studies. A proliferation of models, often diverging widely in their projections, has been accompanied by criticism of the validity of modeled analyses and uncertainty as to when and to what extent results can be trusted. Drawing on examples from COVID-19 and other infectious diseases of global importance, we review key limitations of mathematical modeling as a tool for interpreting empirical data and informing individual and public decision making. We present several approaches that have been used to strengthen the validity of inferences drawn from these analyses, approaches that will enable better decision making in the current COVID-19 crisis and beyond.
    MeSH term(s) COVID-19/prevention & control ; COVID-19/transmission ; Communicable Disease Control ; Communicable Diseases/transmission ; Decision Making ; Forecasting ; Humans ; Models, Theoretical ; Pandemics ; Policy ; Policy Making ; Public Health ; SARS-CoV-2 ; Uncertainty
    Language English
    Publishing date 2021-02-03
    Publishing country United States
    Document type Journal Article ; Research Support, N.I.H., Extramural
    ZDB-ID 604497-9
    ISSN 1552-681X ; 0272-989X
    ISSN (online) 1552-681X
    ISSN 0272-989X
    DOI 10.1177/0272989X21990391
    Database MEDical Literature Analysis and Retrieval System OnLINE

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