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-- A --


Feature selection methods for identifying genetic determinants of host species in RNA viruses

PLoS Comput Biol.. 2013;9(10):e1003254-null



Transmission dynamics of the 2009 influenza A (H1N1) pandemic in India: The impact of holiday-related school closure.

Epidemics.. 2013;Dec;5(4):157-63.:null-null



Prediction of dengue incidence using search query surveillance

PLoS Negl Trop Dis.. 2011;5(8):null-null



Evolution in health and medicine Sackler colloquium: a public choice framework for controlling transmissible and evolving diseases

Proc Natl Acad Sci U S A. 2010;107(1):1696-1701



Mechanism of 150-cavity formation in influenza neuraminidase

Nat Commun.. 2011;2:388-null



Risk of progression to active tuberculosis following reinfection with Mycobacterium tuberculosis

Clin Infect Dis. 2012;54(6):784-791



Projecting the benefits of antiretroviral therapy for HIV prevention: the impact of population mobility and linkage to care

J Infect Dis. 2012;206(4):543-551



The cost-effectiveness of routine tuberculosis screening with Xpert MTB/RIF prior to initiation of antiretroviral therapy: a model-based analysis.

AIDS. 2012;26(8):987-995



Transmission dynamics and control of cholera in Haiti: an epidemic model

Lancet. 2011;377(9773):1248-1255



Simulating school closure policies for cost effective pandemic decision making

BMC Public Health.. 2012;12(1):449-null



Geographic prioritization of distributing pandemic influenza vaccines

Health Care Manag Sci.. 2012;15(3):175-187



Reproductive number and serial interval of the first wave of influenza A(H1N1)pdm09 virus in South Africa

PLoS One. 2012;7(11):e49482-null



Removing the regional level from the Niger vaccine supply chain.

Vaccine. 2013;31(26):2828-2834



How influenza vaccination policy may affect vaccine logistics.

Vaccine. . 2012;30(30):4517-4523



Impact of changing the measles vaccine vial size on Niger's vaccine supply chain: a computational model

BMC Public Health.. 2011;11(1):425-null



Hospital Outbreak of Middle East Respiratory Syndrome Coronavirus

N Engl J Med. . 2013;369(5):407-416



Impact of rotavirus vaccination on epidemiological dynamics in England and Wales.

Vaccine. . 2012;30(3):552-564



The incubation period of cholera: a systematic review

J Infect.. 2013;66(5):432-438


-- B --


The potential economic value of a cutaneous leishmaniasis vaccine in seven endemic countries in the Americas.

Vaccine.. 2013;31(3):480-486



Economic value of dispensing home-based preoperative chlorhexidine bathing cloths to prevent surgical site infection

Infect Control Hosp Epidemiol.. 2011;32(5):465-471



The shifting demographic landscape of influenza.

PLoS Currents: Influenza.. 2009;RRN1047:1-1



Pathogen Escape from Host Immunity by a Genome Program for Antigenic Variation.

Proc Natl Acad Sci U S A.. 2006;103(48):18290-18295



Evolving health information technology and the timely availability of visit diagnoses from ambulatory visits: a natural experiment in an integrated delivery system

BMC Med Inform Decis Mak. . 2009;9:35-35



Human initiated cascading failures in societal infrastructures

PLoS One. . 2012;7(10):e45406-null



Optimizing Epidemic Protection for Socially Essential Workers

2nd ACM SIGHIT International Health Informatics Symposium, Miami, FL. 2012;(IHI 2012):31-40



From biological and social network metaphors to coupled bio-social wireless networks

Int J Auton Adapt Commun Syst.. 2011;4(2):122-144



Information Integration to Support Model-Based Policy Informatics

Innov J. . 2011;16(1):pii: v16i1a2-null



Economic and social impact of influenza mitigation strategies by demographic class.

Epidemics. . 2011;3(1):19-31



An integrated modeling environment to study the co-evolution of networks, individual behavior and epidemics.

Al Magazine. 2010;31(1):75-87



If smallpox strikes Portland....

Scientific American. 2005;292(3):54-61



Is fidaxomicin worth the cost? An economic analysis.

Clin Infect Dis.. 2013;57(4):555-561



Strategies for pandemic and seasonal influenza vaccination of schoolchildren in the United States

American Journal of Epidemiology. 2009;170(6):679-686



Estimating influenza vaccine efficacy from challenge and community-based study data

Am J of Epidemiol. 2008;168(12):1343-1352



Economic value of seasonal and pandemic influenza vaccination during pregnancy

Clin Infect Dis. 2009;49(12):1784-1792



Molecular complexity of successive bacterial epidemics deconvoluted by comparative pathogenomics

Proc Natl Acad Sci U S A. . 2010;107(9):4371-4376



Instabilities in multiserotype disease models with antibody-dependent enhancement.

J Theor Biol. 2007;246(1):18-27



A CYBER environment to PANDEMIC

SciDAC Review. 2009;13:36-47



Sampling for Global Epidemic Models and the Topology of an International Airport Network

PLoS ONE. 2008;3(9):3154-3154



The effect of public health measures on the 1918 influenza pandemic in U.S. cities.

Proc Natl Acad Sci U S A. . 2007;104(18):7588-7593



Would school closure for the 2009 H1N1 influenza epidemic have been worth the cost?: a computational simulation of Pennsylvania.

BMC Public Health.. 2011;11:353-null



Sharing Research Models: Using Software Engineering Practices for Facilitation

Methods Rep RTI Press.. 2011;Mar:1-16



Mobile phones and malaria: modeling human and parasite travel

Travel Med Infect Dis.. 2013;11(1):15-22



Evolution of the Multi-Domain Structures of Virulence Genes in the Human Malaria Parasite, Plasmodium falciparum

PLoS Comput Biol. . 2012;8(4):e1002451-null



Toward an Integrated Meta-model of Public Health Dynamics for Preparedness Decision Support

J Public Health Manag Pract. . 2013;19 Suppl 5:S12-S15



Individual-based computational modeling of smallpox epidemic control strategies.

Acad Emerg Med. . 2006;13(11):1142-1149


-- C --


Attribute assignment to a synthetic population in support of agent-based disease modeling

RTI Press. 2010;publication No. MR-0019-1009:null-null



Transmission scenarios for Middle East Respiratory Syndrome Coronavirus (MERS-CoV) and how to tell them apart

Euro Surveill.. 2013;18(24):pii 20503-null



Middle East respiratory syndrome coronavirus: quantification of the extent of the epidemic, surveillance biases, and transmissibility.

Lancet Infect Dis.. 2013;Nov 12. pii: S1473-3099(13)70304-9.:null-null



Using routine surveillance data to estimate the epidemic potential of emerging zoonoses: application to the emergence of US swine origin influenza A H3N2v virus

PLoS Med.. 2013;10(3):e1001399-null



Influenza infection rates, measurement errors and the interpretation of paired serology.

PLoS Pathog.. 2012;8(12):e1003061-null



Role of social networks in shaping disease transmission during a community outbreak of 2009 H1N1 pandemic influenza

Proc Natl Acad Sci U S A. . 2011;108(7):2825-2830



Methods to infer transmission risk factors in complex outbreak data

J R Soc Interface.. 2011;[Epub ahead of print]:null-null



Household Transmission of 2009 Pandemic Influenza A (H1N1) Virus in the United States

N Engl J Med . 2009;361(27):2619-2627



Estimating the impact of school closure on influenza transmission from Sentinel data

Nature. 2008;452(7188):750-754



Planning for the Control of Pandemic Influenza A (H1N1) in Los Angeles County and the United States.

Am J Epidemiol. . 2011;173(10):1121-1130



The global spread of drug-resistant influenza

J R Soc Interface. 2011;2011 Aug 24 [Epub ahead of print]:1-9



Vaccination strategies for epidemic cholera in Haiti with implications for the developing world

Proc Natl Acad Sci U S A.. 2011;108(17):7081-7085



FluTE, a Publicly Available Stochastic Influenza Epidemic Simulation Model

PLoS Comput Biol. 2010;6(1):null-null



School opening dates predict pandemic influenza A(H1N1) outbreaks in the United States

J Infect Dis. 2010;202(6):877-880



Including the Group Quarters Population in the US Synthesized Population Database

Methods Rep RTI Press. . 2011;20(1102):1-26



Digital dashboard design using multiple data streams for disease surveillance with influenza surveillance as an example

J Med Internet Res.. 2011;13(4):e85-null



Using Geographic Information Systems to Define and Map Commuting Patterns as Inputs to Agent-Based Models.

Methods Rep RTI Press.. 2009;2009(12):906-930



Pathogen diversity and hidden regimes of apparent competition

Am Nat. 2013;181(1):12-24



Niche and neutral effects of acquired immunity permit coexistence of pneumococcal serotypes

Science. 2012;335(6074):1376-1380



Linking Surveillance with Action against Drug-resistant Tuberculosis

Am J Respir Crit Care Med.. 2012;186(5):399-401



Estimating the magnitude and direction of bias in tuberculosis drug resistance surveys conducted only in the public sector: a simulation study

BMC Public Health.. 2010;10:355-355



What is the mechanism for persistent coexistence of drug-susceptible and drug-resistant strains of Streptococcus pneumoniae?

J R Soc Interface. . 2010;7(47):905-919



Population subdivision and the detection of recombination in non-typable Haemophilus influenzae

Microbiology. . 2012;158(Pt 12):2958-2964



The role of subway travel in an influenza epidemic: a new york city simulation

J Urban Health. . 2011;88(5):982-995



Protecting health care workers: a pandemic simulation based on Allegheny County.

Influenza Other Respi Viruses. . 2010;4(2):61-72



Using Influenza-Like Illness Data to Reconstruct an Influenza Outbreak.

Mathematical and Computer Modeling . 2008;48(5):929-939



The model repository of the models of infectious disease agent study

IEEE Trans Inf Technol Biomed. 2008;12(4):513-522



Population structure in the Neisseria, and the biological significance of fuzzy species.

J R Soc Interface. . 2012;9(71):1208-1215



Erratic flu vaccination emerges from short-sighted behavior in contact networks

PLoS Comput Biol. 2011;7(1):1-10



Nodal dynamics, not degree distributions, determine the structural controllability of complex networks

PLoS One.. 2012;7(6):e38398-null



Preliminary inferences on the age-specific seriousness of human disease caused by avian influenza A(H7N9) infections in China, March to April 2013

Euro Surveill.. 2013;18(19):20475-null



Aerosol transmission is an important mode of influenza A virus spread.

Nat Commun. . 2013;4:1935-null



Comparative epidemiology of human infections with avian influenza A H7N9 and H5N1 viruses in China: a population-based study of laboratory-confirmed cases

Lancet.. 2013;382(9887):129-137



Increased risk of non-influenza respiratory virus infections associated with receipt of inactivated influenza vaccine

Clin Infect Dis. . 2012;54(12):1778-1783



Virus interference and estimates of influenza vaccine effectiveness from test-negative studies

Epidemiology. . 2012;23(6):930-931



Editorial commentary: airborne transmission of influenza: implications for control in healthcare and community settings

Clin Infect Dis.. 2012;54(11):1578-1580



School Closure and Mitigation of Pandemic (H1N1) 2009, Hong Kong.

Emerg Infect Dis. 2010;16(3):538-541



The effective reproduction number of pandemic influenza: prospective estimation

Epidemiology.. 2010;21(6):842-846



Entry screening to delay local transmission of 2009 pandemic influenza A (H1N1)

BMC Infect Dis. 2010;10:82-82



Estimation of the serial interval of influenza

Epidemiology. . 2009;20(3):344-347



Bacterial genomes in epidemiology--present and future

Philos Trans R Soc Lond B Biol Sci. . 2013;368(1614):20120202-null



Dynamic effects of antibody-dependent enhancement on the fitness of viruses

PNAS. 2005;102(42):15259-15264


-- D --


Enhancing User-Productivity and Capability Through Integration of Distinct Software in Epidemiological Systems

In 2nd ACM SIGHIT International Health Informatics Symposium, (IHI 2012) Miami, FL. 2012;(IHI 2012):171-180



Mathematical Approaches to Infectious Disease Prediction and Control

INFORMS. 2010;isbn 978-0-9843378-0-4:null-null



Optimizing Tactics for use of the U.S. Antiviral Strategic National Stockpile for Pandemic (H1N1) Influenza, 2009.

PLoS Curr Influenza. 2009;RRN1127.:1-1



Serial intervals and the temporal distribution of secondary infections within households of 2009 pandemic influenza A (H1N1): implications for influenza control recommendations

Clin Infect Dis.. 2011;52 Suppl 1:S123-S130



Increased transmissibility explains the third wave of infection by the 2009 H1N1 pandemic virus in England.

Proc Natl Acad Sci U S A. . 2013;110(33):13422-13427



Internet queries and methicillin-resistant Staphylococcus aureus surveillance

Emerg Infect Dis. 2011;17(6):null-null



Deriving behavior model parameters from survey data: self-protective behavior adoption during the 2009-2010 influenza A(H1N1) pandemic

Risk Anal. . 2012;32(12):2020-2031


-- E --


Spatial dynamics of the 1918 influenza pandemic in England, Wales and the United States

J R Soc Interface.. 2010;[epub ahead of print 2010 Jun 23]:233-243



Modeling the obesity epidemic: social contagion and its implications for control

Theor Biol Med Model.. 2013;10:17-null



Real-time Investigation of Measles Epidemics with Estimate of Vaccine Efficacy

Int J Biol Sci. . 2012;8(5):620-629



The time required to estimate the case fatality ratio of influenza using only the tip of an iceberg: joint estimation of the virulence and the transmission potential.

Comput Math Methods Med.. 2012;2012:978901-null



Combining Computational Fluid Dynamics and Agent-Based Modeling: a new approach to evacuation planning

PLoS One.. 2011;6(5):e20139-null



Modelling to contain pandemics

Nature. 2009;460(7256):687-687



Coupled Contagion Dynamics of Fear and Disease: Mathematical and Computational Explorations.

PLoS One. 2008;3(12):3955-3955



Controlling Pandemic Flu: The Value of International Air Travel Restrictions.

PLoS ONE. 2007;2(5):401-401



Detail in Network Models of Epidemiology: are we there yet?

J Biol Dyn.. 2010;4(5):446-455



Network based models of infectious disease spread.

Jpn J Infect Dis. 2005;58(6):9-13



Geospatial Analytics to Evaluate Point-of-Dispensing Sites for Mass Immunizations in Allegheny County, Pennsylvania.

J Public Health Manag Pract.. 2013;19 Suppl 5:s31-s36


-- F --


Strategies for mitigating an influenza pandemic

Nature . 2006;442:448-452



Strategies for containing an emerging influenza pandemic in Southeast Asia

Nature. 2005;437(7056):209-214



Public health. Public health risks from the avian H5N1 influenza epidemic.

Science. 2004;304:968-969



Potential for Rabies Control through Dog Vaccination in Wildlife-Abundant Communities of Tanzania

PLoS Negl Trop Dis. . 2012;6(8):e1796-null



Mycobacterium tuberculosis mutation rate estimates from different lineages predict substantial differences in the emergence of drug-resistant tuberculosis

Nat Genet.. 2013;45(7):784-790



Use of whole genome sequencing to estimate the mutation rate of Mycobacterium tuberculosis during latent infection

Nat Genet.. 2011;43(5):482-486



Demography and the tragedy of the commons

J Evol Biol.. 2010;23(1):32-39



Evolution in health and medicine Sackler colloquium: Somatic evolutionary genomics: mutations during development cause highly variable genetic mosaicism with risk of cancer and neurodegeneration.

Proc Natl Acad Sci U S A.. 2010;107 Suppl 1:1725-1730



The common patterns of nature

J Evol Biol.. 2009;22(8):1563-1585



Barriers to antigenic escape by pathogens: trade-off between reproductive rate and antigenic mutability.

BMC Evol Biol. 2007;7:229-229



Influenza transmission in households during the 1918 pandemic

Am J Epidemiol. . 2011;174(5):505-514



Pandemic potential of a strain of influenza A (H1N1): early findings

Science. 2009;324(5934):1557-1561



Serotype-specific differences in the risk of dengue hemorrhagic fever: an analysis of data collected in Bangkok, Thailand from 1994 to 2006

PLoS Negl Trop Dis. . 2010;4(3):e617-null


-- G --


Multiple contributory factors to the age distribution of disease cases: a modeling study in the context of influenza A(H3N2v)

Clin Infect Dis.. 2013;57 Suppl 1:S23-S27



Pathology during acute infections: contributions of intracellular pathogens and the CTL response

Biol Lett.. 2005;1(2):239-242



Estimating air temperature and its influence on malaria transmission across Africa

PLoS One.. 2013;8(2):e56487-null



Outcomes of children treated for tuberculosis with second-line medications in Georgia, 2009-2011

Int J Tuberc Lung Dis.. 2013;17(5):624-629



Mitigation strategies for pandemic influenza in the United States

Proc Natl Acad Sci . 2006;103(15):5935-5940



The Early Transmission Dynamics of H1N1pdm Influenza in the United Kingdom

PLoS Curr. 2009;RRN1130:1-1



Evolutionary biology within medicine: a perspective of growing value

BMJ.. 2011;343:d7671-null



Vaccine allocation in a declining epidemic

J R Soc Interface.. 2012;9(76):null-null



Improving the estimation of influenza-related mortality over a seasonal baseline

Epidemiology. . 2012;23(6):829-838



Factors Related to Increasing Prevalence of Resistance to Ciprofloxacin and Other Antimicrobial Drugs in Neisseria gonorrhoeae, United States.

Emerg Infect Dis.. 2012;18(8):1290-1297



Predicting the Epidemic Sizes of Influenza A/H1N1, A/H3N2, and B: A Statistical Method.

PLoS Med. . 2011;8(7):e1001051-null



Estimating incidence curves of several infections using symptom surveillance data

PLoS One. . 2011;6(8):e23380-null



Distribution of vaccine/antivirals and the 'least spread line' in a stratified population

J R Soc Interface. 2010;7(46):755-764



Oseltamivir for treatment and prevention of pandemic influenza A/H1N1 virus infection in households, Milwaukee, 2009.

BMC Infect Dis. 2010;10(1):211-211



Predispensing of antivirals to high-risk individuals in an influenza pandemic.

Influenza and Other Respiratory Viruses. 2010;4(2):101-112



Reproductive numbers, epidemic spread and control in a community of households

Math Biosci. 2009;221(1):11-25



Antiviral usage for H1N1 treatment: pros, cons and an argument for broader prescribing guidelines in the United States. Version 2.

PLoS Curr Influenza. . 2009;RRN1122.:1-1



H1N1 vaccination and adults with underlying health conditions in the US. Version 2.

PLoS Curr Influenza. . 2009;RRN1132.:1-1



Reconstructing influenza incidence by deconvolution of daily mortality time series.

Proc Natl Acad Sci U S A. . 2009;106(51):21825-21829



Comparative genomics of recent Shiga toxin-producing Escherichia coli O104:H4: short-term evolution of an emerging pathogen

MBio. 2013;4(1):e00452-12-null



Secular Trends in Helicobacter pylori Seroprevalence in Adults in the United States: Evidence for Sustained Race/Ethnic Disparities

Am J Epidemiol. . 2012;175(1):54-59



Reply to Guy et al.: Support for a bottleneck in the 2011 Escherichia coli O104:H4 outbreak in Germany.

Proc Natl Acad Sci U S A.. 2012;109(52):E3629-E3630



Cholera modeling: challenges to quantitative analysis and predicting the impact of interventions.

Epidemiology. . 2012;23(4):523-530



Genomic epidemiology of the Escherichia coli O104:H4 outbreaks in Europe, 2011.

Proc Natl Acad Sci U S A.. 2012;109(8):3065-3070



Timely detection of localized excess influenza activity in Northern California across patient care, prescription, and laboratory data.

Stat Med.. 2011;30(5):549-559



FRED (A Framework for Reconstructing Epidemic Dynamics): an open-source software system for modeling infectious diseases and control strategies using census-based populations.

BMC Public Health.. 2013;13(1):940-null



Polarization and Belief Dynamics in the Black and WHite Communities: An Agent-Based Network Model from the Data

Artifical Life. 2013;13:186-193


-- H --


Augmenting transport versus increasing cold storage to improve vaccine supply chains

PLoS One. . 2013;8(5):e64303-null



Only Adding Stationary Storage to Vaccine Supply Chains May Create and Worsen Transport Bottlenecks

J Public Health Manag Pract.. 2013;19 Suppl 5:S65-S67



Modeling targeted layered containment of an influenza pandemic in the United States

Proc Natl Acad Sci U S A. 2008;105(12):4639-4644



Efficacy of trivalent, cold adapted, influenza virus vaccine (CAIV T) against influenza A (Fujian) during 2003-2004 using surveillance cultures.

Vaccine. 2007;25(20):4038-4045



Antiviral effects on influenza viral transmission and pathogenicity: observations from household-based trials

AJE. 2007;165:212-221



Community studies for vaccinating schoolchildren against influenza

Science. 2006;311:615-616



Invited commentary: Challenges of using contact data to understand acute respiratory disease transmission.

Am J Epidemiol. 2006;164(10):945-946



Towards a quantitative understanding of the within-host dynamics of influenza A infections

J R Soc Interface. 2010;7(42):35-47



Antiviral resistance and the control of pandemic influenza: The roles of stochasticity, evolution and model details.

J Theor Biol. 2009;256(1):117-125



Intervention strategies for an influenza pandemic taking into account secondary bacterial infections.

Epidemics. 2009;1(3):185-195



What is the best control strategy for multiple infectious disease outbreaks?

Proc R Soc B. 2007;274(1611):833-837



The role of compensatory mutations in the emergence of drug resistance

PLoS Comput Biol. 2006;2(10):137-137



Modeling the human infectious reservoir for malaria control: does heterogeneity matter?

Trends Parasitol.. 2013;29(6):270-275



Public health interventions and epidemic intensity during the 1918 influenza pandemic.

Proc Natl Acad Sci USA. 2007;104(18):7582-7587



Multidrug Resistance Among New Tuberculosis Cases: Detecting Local Variation Through Lot Quality-assurance Sampling

Epidemiology. 2012;23(2):293-300



Drug resistance surveillance in resource-poor settings: current methods and considerations for TB, HIV, and malaria.

Am J Trop Med Hyg. . 2011;84(2):192-199



Oseltamivir and Risk of Lower Respiratory Tract Complications in Patients With Flu Symptoms: A Meta-analysis of Eleven Randomized Clinical Trials

Clin Infect Dis.. 2011;53(3):277-279



Reply to cochrane neuraminidase inhibitors review team

Clin Infect Dis. 2011;53(12):1303-1304



EpiFire: An open source C++ library and application for contact network epidemiology

BMC Bioinformatics.. 2012;13(17):76-null



State plans for containment of pandemic influenza

Emerg Infect Dis. 2006;12(9):1414-1417



Automated detection of infectious disease outbreaks in hospitals: a retrospective cohort study.

PLoS Med. 2010;7(2):1-10



Quantifying interhospital patient sharing as a mechanism for infectious disease spread

Infect Control Hosp Epidemiol.. 2010;31(11):1160-1169



A model-based tool to predict the propagation of infectious disease via airports

Travel Med Infect Dis.. 2012;10(1):32-41


-- I --


The dynamics of risk perceptions and precautionary behavior in response to 2009 (H1N1) pandemic influenza

BMC Infect Dis. . 2010;10(296):1-11



Detection of mild to moderate influenza A/H7N9 infection by China┐s national sentinel surveillance system for influenza-like illness: case series

BMJ. 2013;346:f3693-null



Validation of self-swab for virologic confirmation of influenza virus infections in a community setting

J Infect Dis.. 2012;205(4):631-634



Bayesian estimation of mixture models with prespecified elements to compare drug resistance in treatment-na┐ve and experienced tuberculosis cases

PLoS Comput Biol.. 2013;9(3):e1002973-null



Bayesian methods for fitting mixture models that characterize branching tree processes: An application to development of resistant TB strains.

Stat Med.. 2011;30(22):2708-2720


-- J --


Searching for Sharp Drops in the Incidence of Pandemic A/H1N1 Influenza by Single Year of Age

PLoS One.. 2012;7(8):e42328-null



Risk factors and timing of default from treatment for non-multidrug-resistant tuberculosis in Moldova

Int J Tuberc Lung Dis.. 2013;17(3):373-380



Assessing spatial heterogeneity of MDR-TB in a high burden country

Eur Respir J. 2012;[Epub ahead of print]:null-null



Quantifying the burden and trends of isoniazid resistant tuberculosis, 1994-2009.

PLoS One. . 2011;6(7):e22927-null



Models of the impact of dengue vaccines: a review of current research and potential approaches

Vaccine.. 2011;29(35):5860-5868



Local and global effects of climate on dengue transmission in Puerto Rico

PLoS Negl Trop Dis. 2009;3(2):1-1



Targeting Imperfect Vaccines against Drug-Resistance Determinants: A Strategy for Countering the Rise of Drug Resistance

PLoS One.. 2013;8(7):e68940-null



Bayesian reconstruction of disease outbreaks by combining epidemiologic and genomic data

PLoS Comput Biol.. 2014;10(1):null-null



Reconstructing disease outbreaks from genetic data: a graph approach

Heredity (Edinb). . 2011;106(2):383-390



adegenet 1.3-1: new tools for the analysis of genome-wide SNP data

Bioinformatics.. 2011;27(21):3070-3071



Using encounters versus episodes in syndromic surveillance

J Public Health (Oxf).. 2009;31(4):566-572


-- K --


Evolutionary dynamics of Vibrio cholerae O1 following a single-source introduction to Haiti

MBio. 2013;4(4):e00398-13



Patient sharing and population genetic structure of methicillin-resistant Staphylococcus aureus

Proc Natl Acad Sci U S A.. 2012;109(17):6763-6768



Insights from Europe related to pandemic influenza A(H1N1)2009 have international relevance

Euro Surveill.. 2011;16(26):pii 19899-null



Epidemic percolation networks, epidemic outcomes, and interventions.

Interdiscip Perspect Infect Dis. 2011;2011:543520-null



The global transmission and control of influenza

PLoS One. . 2011;6(5):e19515-null



Generation interval contraction and epidemic data analysis

Math Biosci. 2008;213(1):71-79



Second look at the spread of epidemics on networks.

Phys Rev E Stat Nonlin Soft Matter Phys.. 2007;76(3):36113-36113



Network-based analysis of stochastic SIR epidemic models with random and proportionate mixing.

J Theor Biol. 2007;249(4):706-722



The impact of heterogeneous transmission on the establishment and spread of antimalarial drug resistance

J Theor Biol. 2014;340:null-null



Optimal design of studies of influenza transmission in households. II: Comparison between cohort and case-ascertained studies

Epidemiol Infect.. 2013;[Epub ahead of print]:1281-9



Optimal design of studies of influenza transmission in households. I: Case-ascertained studies

Epidemiol Infect.. 2012;140(1):106-114



Optimal design of intervention studies to prevent influenza in healthy cohorts

PLoS One.. 2012;7(4):e35166-null



Transmissibility of seasonal and pandemic influenza in a cohort of households in Hong Kong in 2009

Epidemiology.. 2011;22(6):793-796



Predictors of indoor absolute humidity and estimated effects on influenza virus survival in grade schools

BMC Infect Dis.. 2013;13:71-null



Hospital-community interactions foster coexistence between methicillin-resistant strains of Staphylococcus aureus

PLoS Pathog. . 2013;9(2):e1003134-null



A General-Purpose Graph Dynamical System Modeling Framework

Proceedings of the 2011 Winter Simulation Conference (WSC 2011). Phoenix, Arizona, USA. 2011;(WSC 2011):296-308



A space-time permutation scan statistic for disease outbreak detection

PLoS Med.. 2005;2(3):e59-null



Kumar et al. respond

Am J Public Health. 2014;104(1):null-null



. Policies to reduce influenza in the workplace: impact assessments using an agent-based model.

Am J Public Health. . 2013;103(8):1406-1411



Modelling the proportion of influenza infections within households during pandemic and non-pandemic years.

PLoS One.. 2011;6(7):e22089-null


-- L --


Mobile messaging as surveillance tool during pandemic (H1N1) 2009, Mexico

Emerg Infect Dis. 2010;16(9):1488-1499



The feasibility of age-specific travel restrictions during influenza pandemics

Theor Biol Med Model. . 2011;8:44-null



Heterogeneity in viral shedding among individuals with medically attended influenza A virus infection

J Infect Dis.. 2013;207(8):1281-1285



Household Transmission of 2009 Pandemic Influenza A(H1N1): A Systematic Review and Meta-analysis

Epidemiology. 2012;23(4):531-542



Situational awareness of influenza activity based on multiple streams of surveillance data using multivariate dynamic linear model

PLoS One. 2012;7(5):e38346-null



Scarlet fever outbreak, Hong Kong, 2011

Emerg Infect Dis. 2012;18(10):1700-1702



Viral shedding and clinical illness in naturally acquired influenza virus infections.

J Infect Dis. 2010;201(10):1509-1516



. The importance of nursing homes in the spread of methicillin-resistant Staphylococcus aureus (MRSA) among hospitals

Med Care.. 2013;51(3):205-215



The economic burden of community-associated methicillin-resistant Staphylococcus aureus (CA-MRSA).

Clin Microbiol Infect.. 2013;19(6):528-536



The Potential Regional Impact of Contact Precaution Use in Nursing Homes to Control Methicillin-Resistant Staphylococcus aureus

Infect Control Hosp Epidemiol. . 2013;34(2):151-160



Global economic burden of Chagas disease: a computational simulation model.

Lancet Infect Dis.. 2013;13(4):342-348



The Regional Healthcare Ecosystem Analyst (RHEA): a simulation modeling tool to assist infectious disease control in a health system.

J Am Med Inform Assoc.. 2013;20(e1):e139-e146



Modeling the regional spread and control of vancomycin-resistant enterococci

Am J Infect Control. . 2013;41(8):668-673



Impact of Introducing the Pneumococcal and Rotavirus Vaccines Into the Routine Immunization Program in Niger

Am J Public Health.. 2012;102(2):269-276



Simulation shows hospitals that cooperate on infection control obtain better results than hospitals acting alone.

Health Aff (Millwood).. 2012;31(10):2295-2303



The impact of making vaccines thermostable in Niger's vaccine supply chain.

Vaccine. . 2012;30(38):5637-5643



The economic value of a visceral leishmaniasis vaccine in Bihar state, India

Am J Trop Med Hyg.. 2012;86(3):417-425



The benefits to all of ensuring equal and timely access to influenza vaccines in poor communities.

Health Aff (Millwood).. 2011;30(6):1141-1150



Maintaining vaccine delivery following the introduction of the rotavirus and pneumococcal vaccines in Thailand

PLoS One. . 2011;6(9):e24673-null



Economic value of Acinetobacter baumannii screening in the intensive care unit

Clin Microbiol Infect. . 2011;17(11):1691-1697



Routine pre-cesarean Staphylococcus aureus screening and decolonization: a cost-effectiveness analysis

Am J Manag Care.. 2011;17(10):693-700



The potential economic value of a 'universal' (multi-year) influenza vaccine

Influenza Other Respi Viruses.. 2011; [Epub ahead of print]:doi: 10.1111/j.1750-2659.2011.00288.x-null



Long-term care facilities: important participants of the acute care facility social network?

PLoS One. . 2011;6(12):e29342-null



Cost-effectiveness of adjuvanted versus nonadjuvanted influenza vaccine in adult hemodialysis patients

Am J Kidney Dis. . 2011;57(5):724-732



Economic value of dengue vaccine in Thailand.

Am J Trop Med Hyg.. 2011;84(5):764-772



Replacing the measles ten-dose vaccine presentation with the single-dose presentation in Thailand.

Vaccine. 2011;29(21):3811-3817



The 2009 H1N1 influenza pandemic: a case study of how modeling can assist all stages of vaccine decision-making

Hum Vaccin. . 2011;7(1):115-119



From the patient perspective: the economic value of seasonal and H1N1 influenza vaccination

Vaccine. 2011;29(11):2149-2158



Social network analysis of patient sharing among hospitals in Orange County, California

Am J Public Health. . 2011;101(4):707-713



Economic value of norovirus outbreak control measures in healthcare settings.

Clin Microbiol Infect. 2011;17(4):640-646



The economic value of screening haemodialysis patients for methicillin-resistant Staphylococcus aureus in the USA.

Clin Microbiol Infect. 2011;17(11):1717-1726



Economic model for emergency use authorization of intravenous peramivir.

Am J Manag Care.. 2011;17(1):e1-9



Modeling the Spread of Methicillin-Resistant Staphylococcus aureus (MRSA) Outbreaks throughout the Hospitals in Orange County, California.

Infect Control Hosp Epidemiol. . 2011;32(6):562-572



Economic value of Acinetobacter baumannii screening in the intensive care unit.

Clin Microbiol Infect.. 2011;17(11):1691-1698



Economic impact of outbreaks of norovirus infection in hospitals

Infect Control Hosp Epidemiol.. 2011;32(2):191-193



The potential economic value of a hookworm vaccine

Vaccine. 2011;29(6):1201-1210



Economics of employer-sponsored workplace vaccination to prevent pandemic and seasonal influenza.

Vaccine. . 2010;28(37):5952-5959



Economic impact of Acinetobacter baumannii infection in the intensive care unit

Infect Control Hosp Epidemiol.. 2010;31(10):1087-1089



The economic effect of screening orthopedic surgery patients preoperatively for methicillin-resistant Staphylococcus aureus.

Infect Control Hosp Epidemiol. . 2010;31(11):1130-1138



Screening cardiac surgery patients for MRSA: an economic computer model.

Am J Manag Care.. 2010;16(7):e163-e173



Pricing of new vaccines

Hum Vaccin. . 2010;6(8):619-626



Economics of influenza vaccine administration timing for children

Am J Manag Care. . 2010;16(3):e75-e85



Forecasting the economic value of an Enterovirus 71 (EV71) vaccine.

Vaccine. 2010;28(49):7731-7736



The potential economic value of a Trypanosoma cruzi (Chagas disease) vaccine in Latin America

PLoS Negl Trop Dis.. 2010;4(12):e916-null



Systematic review and cost analysis comparing use of chlorhexidine with use of iodine for preoperative skin antisepsis to prevent surgical site infection.

Infect Control Hosp Epidemiol. . 2010;31(12):1219-1229



Vaccination deep into a pandemic wave potential mechanisms for a "third wave" and the impact of vaccination

Am J Prev Med.. 2010;39(5):21-29



The potential economic value of a Staphylococcus aureus vaccine for neonates

Vaccine. 2010;28(29):4653-4660



Single versus multi-dose vaccine vials: an economic computational model

Vaccine. 2010;28(32):5292-5300



The potential value of Clostridium difficile vaccine: an economic computer simulation model

Vaccine. 2010;28(32):5245-5253



To test or to treat? An analysis of influenza testing and antiviral treatment strategies using economic computer modeling

PloS One. 2010;5(6):1-1



Universal methicillin-resistant Staphylococcus aureus (MRSA) surveillance for adults at hospital admission: an economic model and analysis

Infect Control Hosp Epidemiol. . 2010;31(6):598-606



A computer simulation of vaccine prioritization, allocation, and rationing during the 2009 H1N1 influenza pandemic

Vaccine. 2010;28(31):4875-4879



Staphylococcus aureus vaccine for orthopedic patients: An economic model and analysis

Vaccine. 2010;28(12):2465-2471



Simulating School Closure Strategies to Mitigate an Influenza Epidemic.

J Public Health Manag Pract. 2010;16(3):252-261



A Computer Simulation of Employee Vaccination to Mitigate an Influenza Epidemic.

Am J Prev Med. 2010;38(3):247-257



Alternative vaccination locations: who uses them and can they increase flu vaccination rates?

Vaccine. 2009;27(32):4252-4256



The timing of influenza vaccination for older adults (65 years and older).

Vaccine. 2009;27(50):7110-7115



Antiviral medications for pregnant women for pandemic and seasonal influenza: an economic computer model

Obstet Gynecol.. 2009;114(5):971-980



Should vascular surgery patients be screened preoperatively for methicillin-resistant Staphylococcus aureus?

Infect Control Hosp Epidemiol.. 2009;30(12):1158-1165



A predictive model of the economic effects of an influenza vaccine adjuvant for the older adult (age 65 and over) population.

Vaccine. 2009;27(16):2251-2257



Economic cost and health care workforce effects of school closures in the U.S.

PLoS Currents: Influenza. 2009;RRN1051:1-1



Location-specific patterns of exposure to recent pre-pandemic strains of influenza A in southern China

Nat Commun.. 2011;2:423-null



Measuring the performance of vaccination programs using cross-sectional surveys: a likelihood framework and retrospective analysis

PLoS Med.. 2011;8(10):e1001110-null



H1N1pdm in the Americas

Epidemics.. 2010;2(3):132-138



Outbreak of 2009 pandemic influenza A (H1N1) at a New York City school

N Engl J Med. 2009;361(27):2628-2636



Transmissibility of swine flu at Fort Dix, 1976.

J R Soc Interface. . 2007;4(15):755-762



Mass commuting and influenza vaccination prevalence in New York City: Protection in a mixing environment

Epidemics. doi:10.1016/j.epidem.2010.07.002. 2010;2(4):183-188



. The serial intervals of seasonal and pandemic influenza viruses in households in Bangkok, Thailand

Am J Epidemiol. . 2013;177(12):1443-1451



In silico surveillance: evaluating outbreak detection with simulation models

BMC Med Inform Decis Mak. . 2013;13(1):12-null



Who got vaccinated against H1N1 pandemic influenza? - A longitudinal study in four US cities.

Psychol Health. 2012;27(1):101-115



The Influence of Social-Cognitive Factors on Personal Hygiene Practices to Protect Against Influenzas: Using Modelling to Compare Avian A/H5N1 and 2009 Pandemic A/H1N1 Influenzas in Hong Kong.

Int J Behav Med. . 2011;18(2):93-104



Factors Affecting Intention to Receive and Self-Reported Receipt of 2009 Pandemic (H1N1) Vaccine in Hong Kong: A Longitudinal Study.

PLoS One. 2011;6(3):e17713. -null



Situational awareness and health protective responses to pandemic influenza A (H1N1) in Hong Kong: a cross-sectional study

PLoS One.. 2010;5(10):13350-13350



Expansion of host cellular niche can drive adaptation of a zoonotic malaria parasite to humans

Nat Commun. . 2013;4:1638-null



Use of spatial information to predict multidrug resistance in tuberculosis patients, Peru

Emerg Infect Dis. . 2012;18(5):811-813



Assessing spatiotemporal patterns of multidrug-resistant and drug-sensitive tuberculosis in a South American setting.

Epidemiol Infect. . 2011;139(11):1784-1793



Geographic and Temporal Trends in Antimicrobial Nonsusceptibility in Streptococcus pneumoniae in the Post-vaccine era in the United States

J Infect Dis. . 2013;208(8):1266-1273



Oseltamivir Effect on Antibiotic-Treated Lower Respiratory Tract Complications in Virologically Positive Randomized Trial Participants

Clin Infect Dis.. 2013;[Epub ahead of print]:null-null



Rethinking biosafety in research on potential pandemic pathogens

MBio.. 2012;3(5):null-null



Evolution, safety, and highly pathogenic influenza viruses.

Science. 2012;336(6088):1529-1531



Improving the Evidence Base for Decision Making During a Pandemic: The Example of 2009 Influenza A/H1N1

Biosecur Bioterror.. 2011;9(2):89-115



Negative controls: a tool for detecting confounding and bias in observational studies.

Epidemiology. 2010;21(3):383-388



Influenza seasonality: lifting the fog

PNAS. 2009;106(10):3645-3646



Managing and reducing uncertainty in an emerging influenza pandemic

N Engl J Med. 2009;361(2):112-115



Use of cumulative incidence of novel influenza A/H1N1 in foreign travelers to estimate lower bounds on cumulative incidence in Mexico.

PLoS One. 2009;4(9):6895-6895



How to maintain surveillance for novel influenza A H1N1 when there are too many cases to count.

Lancet. 2009;374(9696):1209-1211



No coexistence for free: Neutral null models for multistrain pathogens.

Epidemics. doi:10.1016/j.epidem.2008.07.001 .. 2008;1(1):2-13



Patterns of antigenic diversity and the mechanisms that maintain them

J R Soc Interface. 2007;4(16):787-802



Antiviral resistance and the control of pandemic influenza

PLoS Med.. 2007;4(1):15-15



Estimates of the basic reproductive number for 1918 pandemic influenza in the United States: implications for policy.

none- online only. 2007;0:1-1



Multiple outbreaks and flu containment plans.

Science. 2006;312(5775):845-845



Effect of the one-child policy on influenza transmission in China: a stochastic transmission model

PLoS ONE. 2014;In Press:null-null



Menstrual Cycle and Detectable Human Papillomavirus in Reproductive-age Women: A Time Series Study

J Infect Dis.. 2013;[Epub ahead of print]:null-null



A theoretic framework to consider the effect of immunizing schoolchildren against influenza: implications for research

Pediatrics.. 2012;129 Suppl 2:S63-S67



Containing a large bioterrorist smallpox attack: A computer simulation approach.

International Journal of Infectious Diseases. 2007;11:98-108



Controlling endemic cholera with oral vaccines

PLoS Med. 2007;4(11):336-null



Containing pandemic influenza at the source

Science. 2005;309:1083-1087



Strategy for distribution of Influenca Vaccine in High Risk Groups and Children

Am J Epidemiol. 2005;161(4):303-306



A Sequential Experimental Design Method to Evaluate a Combination of School Closure and Vaccination Policies to Control an H1N1-Like Pandemic

J Public Health Manag Pract.. 2013;19 Suppl 5:S37-S41



Dengue vector control strategies in an urban setting: an economic modelling assessment

Lancet.. 2011;377(9778):1673-1680


-- M --


The fitness cost of antibiotic resistance in Streptococcus pneumoniae: insight from the field

PLoS One.. 2012;7(1):e29407-null



Identifying multidrug resistant tuberculosis transmission hotspots using routinely collected data

Tuberculosis (Edinb).. 2012;92(3):273-279



Sensitivity of Household Transmission to Household Contact Structure and Size

PLoS ONE. 2011;6(8):e22461-null



Comparing effectiveness of top-down and bottom-up strategies in containing Influenza

PLoS ONE. 2011;6(9):e25149-null



An outbreak of 2009 pandemic influenza A (H1N1) virus infection in an elementary school in Pennsylvania

Clin Infect Dis.. 2011;52 Suppl 1:S154-S160



Detection of recombination events in bacterial genomes from large population samples

Nucleic Acids Res.. 2012;40(1):e6-null



Critical immune and vaccination thresholds for determining multiple influenza epidemic waves

Epidemics. 2012;4(1):22-32



Optimizing vaccine allocation at different points in time during an epidemic

PLoS One.. 2010;5(11):e13767-null



Understanding Australia's influenza pandemic policy on the strategic use of the antiviral drug stockpile.

Med J Aust.. 2009;191(3):136-137



The economic burden of Clostridium difficile

Clin Microbiol Infect. 2011;[Epub ahead of print]:doi: 10.1111/j.1469-0691.2011.03571.x. -null



Optimizing allocation for a delayed influenza vaccination campaign.

PLoS Curr Influenza. 2009;RRN1134.:1-1



Population health impact and cost-effectiveness of tuberculosis diagnosis with Xpert MTB/RIF: a dynamic simulation and economic evaluation

PLoS Med.. 2012;9(11):e1001347-null



Determinants of the spatiotemporal dynamics of the 2009 H1N1 pandemic in europe: Implications for real-time modelling

PLoS Comput Biol.. 2011;7(9):e1002205-null



Breaking the symmetry: immune enhancement increases persistence of dengue viruses in the presence of asymmetric transmission rates

J Theor Biol.. 2013;332:203-210



Cocirculation of infectious diseases on networks

Phys Rev E Stat Nonlin Soft Matter Phys.. 2013;87(6):060801-null



Edge-based compartmental modelling for infectious disease spread

J R Soc Interface.. 2012;9(70):890-906



Model hierarchies in edge-based compartmental modeling for infectious disease spread

J Math Biol. . 2012;67(4):869-899



A note on the derivation of epidemic final sizes

Bull Math Biol. . 2012;74(9):2125-2141



Student Behavior during a School Closure Caused by Pandemic Influenza A/H1N1

PLoS ONE . 2010;5(5):1-7



Community-wide isoniazid preventive therapy drives

Sci Transl Med.. 2013;5(180):180ra49-null



Modelling the performance of isoniazid preventive therapy for reducing tuberculosis in HIV endemic settings: the effects of network structure

J R Soc Interface.. 2011;8(63):1510-1520



Pandemic influenza: risk of multiple introductions and the need to prepare for them

PLoS Med. 2006;3(6):135-null



Mammalian adaptation in the PB2 gene of avian H5N1 influenza virus

J Virol. . 2013;87(19):10884-10888



Effective classification of the prevalence of Schistosoma mansoni

Trop Med Int Health. 2012;[Epub ahead of print]:null-null



Pooled testing for effective estimation of the prevalence of Schistosoma mansoni.

Am J Trop Med Hyg.. 2012;87(5):850-861



Vaccination and clinical severity: is the effectiveness of contact tracing and case isolation hampered by past vaccination?

Int J Environ Res Public Health.. 2013;10(3):816-829



Age-dependent estimates of the epidemiological impact of pandemic influenza (H1N1-2009) in Japan

Comput Math Methods Med. . 2013;2013:637064-null



Effectiveness of antiviral prophylaxis coupled with contact tracing in reducing the transmission of the influenza A (H1N1-2009): a systematic review

Theor Biol Med Model. . 2013;10:4-null



Is methicillin-resistant Staphylococcus aureus replacing methicillin-susceptible S. aureus?

J Antimicrob Chemother. . 2011;66(10):2199-2214


-- N --


The impact of imitation on vaccination behavior in social contact networks

PLoS Comput Biol. . 2012;86(4):e1002469-null



. Estimation of the Association Between Antibody Titers and Protection Against Confirmed Influenza Virus Infection in Children

J Infect Dis.. 2013;208(8):1320-1324



The effect of age and recent influenza vaccination history on the immunogenicity and efficacy of 2009-10 seasonal trivalent inactivated influenza vaccination in children

PLoS One.. 2013;8(3):e59077-null



Humoral antibody response after receipt of inactivated seasonal influenza vaccinations one year apart in children

Pediatr Infect Dis J. 2012;31(9):964-969



Effects of oseltamivir treatment on duration of clinical illness and viral shedding and household transmission of influenza virus

Clin Infect Dis. 2010;50(5):707-714



Epidemiological determinants of successful vaccine development

Int J Med Sci.. 2013;10(4):382-384



Sample size considerations for one-to-one animal transmission studies of the influenza A viruses

PLoS One.. 2013;8(1):e55358-null



Estimating the transmission potential of supercritical processes based on the final size distribution of minor outbreaks

J Theor Biol. . 2012;294:48-55



Incubation period as part of the case definition of severe respiratory illness caused by a novel coronavirus

Euro Surveill. 2012;17(42):pii: 20296-null



Assortativity and the Probability of Epidemic Extinction: A Case Study of Pandemic Influenza A (H1N1-2009).

Interdiscip Perspect Infect Dis. . 2011;2011:194507-null



Sensitivity Analysis of an Individual-Based Model for Simulation of Influenza Epidemics

PLos One. 2012;7(10):e45414-null



Prediction of an Epidemic Curve: A Supervised Classification Approach

Stat Commun Infect Dis. 2011;3(1):null-null


-- O --


Apparent declining efficacy in randomized trials: examples of the Thai RV144 HIV vaccine and South African CAPRISA 004 microbicide trials

AIDS. . 2012;26(2):123-126



The relationship between tuberculosis and influenza death during the influenza (H1N1) pandemic from 1918-19

Comput Math Methods Med.. 2012;2012:124861-null



How is vaccine effectiveness scaled by the transmission dynamics of interacting pathogen strains with cross-protective immunity?

PLoS One. 2012;7(11):e50751-null



Transmission characteristics of the 2009 H1N1 influenza pandemic: Comparison of 8 southern hemisphere countries

PLoS Pathog.. 2011;7(9):e1002225-null


-- P --


Broad conditions favor the evolution of phase-variable loci

MBio. 2013;4(1):e00430-12-null



Epidemic growth rate and household reproduction number in communities of households, schools and workplaces

J Math Biol. . 2011;63(4):691-734



Modelling seasonal variations in the age and incidence of Kawasaki disease to explore possible infectious aetiologies

Proc Biol Sci.. 2012;[Epub ahead of print]:null-null



Direct and indirect effects of rotavirus vaccination: Comparing predictions from transmission dynamic models

PLoS One.. 2012;7(8):e42320-null



Exploring the relationship between incidence and the average age of infection during seasonal epidemics

J Theor Biol.. 2009;260(2):175-185



Estimating variability in the transmission of severe acute respiratory syndrome to household contacts in Hong Kong, China.

Am J Epidemiol. 2007;166(3):355-363



Little evidence for genetic susceptibility to influenza A (H5N1) from family clustering data

Emerg Infect Dis. 2007;13(7):1074-1076



Horizontal gene transfer and the evolution of bacterial and archaeal population structure

Trends Genet.. 2013;29(3):170-175



Viral genetic sequence variations in pandemic H1N1/2009 and seasonal H3N2 influenza viruses within an individual, a household and a community

J Clin Virol. . 2011;52(2):146-150



Antituberculosis Drug Resistance Acquired During Treatment: An Analysis of Cases Reported in California, 1994-2006.

Clin Infect Dis. . 2012;[Epub ahead of print]:null-null



Dynamics of Preparedness: Systems and Impacts

J Public Health Manag Pract.. 2013;19 Suppl 5:s1-s2



Preparedness for pandemics: does variation among states affect the nation as a whole?

J Public Health Manag Pract. . 2012;18(3):233-240



Estimating within-school contact networks to understand influenza transmission

Ann Appl Stat.. 2012;6(1):1-26



School closure as an influenza mitigation strategy: how variations in legal authority and plan criteria can alter the impact.

BMC Public Health.. 2012;12:977-null



ESTIMATING WITHIN-HOUSEHOLD CONTACT NETWORKS FROM EGOCENTRIC DATA

Ann Appl Stat.. 2011;5(3):1816-1838



Initial human transmission dynamics of the pandemic (H1N1) 2009 virus in North America

Influenza and Other Respiratory Viruses. 2009;3:215-222



Changes in severity of 2009 pandemic A/H1N1 influenza in England: a Bayesian evidence synthesis

BMJ. 2011;343:d5408-null



The severity of pandemic H1N1 influenza in the United States, from April to July 2009: a Bayesian analysis.

PLoS Med. 2009;6(12):null-null



The severity of pandemic H1N1 influenza in the United States, April - July 2009.

PLoS Currents: Influenza. 2009;RRN1042:null-null


-- R --


The optimal number of routine vaccines to order at health clinics in low or middle income countries.

Vaccine. 2011;29(33):5512-5518



Estimates of the prevalence of pandemic (H1N1) 2009, United States, April-July 2009.

Emerg Infect Dis. 2009;15(12):2004-2007



The pneumococcal pilus predicts the absence of Staphylococcus aureus co-colonization in pneumococcal carriers.

Clin Infect Dis.. 2009;48(6):760-763



Visualizing clinical evidence: citation networks for the incubation periods of respiratory viral infections.

PLoS One. . 2011;6(4):e19496-null



Detecting novel associations in large data sets

Science.. 2011;334(6062):1518-1524



Epidemiological Characteristics of 2009 (H1N1) Pandemic Influenza Based on Paired Sera from a Longitudinal Community Cohort Study.

PloS Med. 2011;8(6):e1000442-null



Coping without farm location data during a foot-and-mouth outbreak.

Proc Natl Acad Sci U S A. 2010;107(3):957-958



Estimating Human Cases of Avian Influenza A(H7N9) from Poultry Exposure

PLOS Currents Outbreaks. 2013;doi: 10.1371/currents.outbreaks.264e737b489bef383fbcbaba60daf928:1-8



Distributed Agent Based Modeling.

Linux Journal. 2010;[Epub only July 21]:null-null



How the dynamics and structure of sexual contact networks shape pathogen phylogenies

PLoS Comput Biol. . 2013;9(6):e1003105-null



The Dynamics of Sexual Contact Networks: Effects on Disease Spread and Control

Theor Popul Biol. . 2012;81(2):89-96



Revisiting Rayong: Shifting Seroprofiles of Dengue in Thailand and Their Implications for Transmission and Control.

Am J Epidemiol.. 2013;[Epub ahead of print]:null-null



Potential opportunities and perils of imperfect dengue vaccines.

Vaccine.. 2013;Nov 19. pii: S0264-410X(13)01537-5. :null-null



From re-emergence to hyperendemicity: the natural history of the dengue epidemic in Brazil.

PLoS Negl Trop Dis.. 2011;5(1):e935-null



Stochastic modeling of animal epidemics using data collected over three different spatial scales

Epidemics. 2011;3:61-70



Ongoing Estimation of the Epidemic Parameters of a Stochastic, Spatial, Discrete-Time Model for a 1983-84 Avian Influenza Epidemic

Avian Diseases . 2011;55(1):35-42



Estimating the kernel parameters of premises-based stochastic models of farmed animal infectious disease epidemics using limited, incomplete, or ongoing data.

Theor Popul Biol. . 2010;78(1):46-53



Multilevel compression of random walks on networks reveals hierarchical organization in large integrated systems

PLoS One.. 2011;6(4):e18209-null



Mapping change in large networks

PLoS One.. 2010;5(1):e8694-null



Maps of random walks on complex networks reveal community structure

Proc Natl Acad Sci U S A. 2008;105(4):1118-1123



An Information-theoretic Framework for Resolving Community Structure in Complex Networks.

Proc Natl Acad Sci U S A. 2007;104(18):7327-7331


-- S --


Revealing the microscale spatial signature of dengue transmission and immunity in an urban population

Proc Natl Acad Sci U S A.. 2012;109(24):9535-9538



Variation at the capsule locus, cps, of mistyped and non-typable Streptococcus pneumoniae isolates

Microbiology.. 2012;158(Pt 6):1560-1569



Economic evaluation of influenza pandemic mitigation strategies in the United States using a stochastic microsimulation transmission model

Value Health. 2009;12(2):226-233



On estimation of vaccine efficacy using validation samples with selection bias.

Biostatistics. 2006;7(4):615-629



Pathogenesis, virulence, and infective dose.

PLoS Pathog. 2007;3(10):1372-1373



Developing a measure of local agency adaptation to emergencies: a metric

Eval Program Plann.. 2012;35(4):473-480



Chaotic desynchronization of multistrain diseases.

Phys Rev E Stat Nonlin Soft Matter Phys. 2005;72(6):66201-66201



Nontypeable pneumococcal isolates among navajo and white mountain apache communities: are these really a cause of invasive disease?

J Infect Dis.. 2012;206(1):73-80



Modeling the dynamic relationship between HIV and the risk of drug-resistant tuberculosis

Sci Transl Med. 2012;4(135):135ra67-null



Models to understand the population-level impact of mixed strain M. tuberculosis infections

J Theor Biol. . 2011;280(1):88-100



Clinical and nonclinical health care workers faced a similar risk of acquiring 2009 pandemic H1N1 infection

Clin Infect Dis. . 2011;53(3):280-283



The El Nino-Southern Oscillation (ENSO)-pandemic Influenza connection: Coincident or causal?

Proc Natl Acad Sci U S A. . 2012;[Epub ahead of print]:null-null



Forecasting seasonal outbreaks of influenza

Proc Natl Acad Sci U S A.. 2012;109(50):20425-20430



Absolute humidity and pandemic versus epidemic influenza

Am J Epidemiol.. 2011;173(2):127-135



Shortcomings of vitamin D-based model simulations of seasonal influenza

PLoS One.. 2011;6(6):e20743-null



Absolute Humidity and the Seasonal Onset of Influenza in the Continental United States

PLoS Biol. 2010;8(2):1-1



Absolute Humidity and the Seasonal Onset of Influenza in the Continental United States

PLoS Curr. 2009;null(RRN1138):1-13



Population genomics of early events in the ecological differentiation of bacteria

Science. 2012;336(6077):48-51



Historical Zoonoses and Other Changes in Host Tropism of Staphylococcus

PLoS One. 2013;8(5):E62369-null



The impact of mass gatherings and holiday traveling on the course of an influenza pandemic: a computational model.

BMC Public Health.. 2010;10:778-null



Modelling seasonality and viral mutation to predict the course of an influenza pandemic

Epidemiol Infect.. 2010;138(10):1472-1481



The influence of altruism on influenza vaccination decisions

J R Soc Interface.. 2012;9(74):2234-2243



Differential impact of sickle cell trait on symptomatic and asymptomatic malaria

Math Biosci Eng. . 2012;9(4):877-898



Distinguishing vaccine efficacy and effectiveness

Vaccine. . 2012;30(47):6700-6705



A game dynamic model for vaccine skeptics and vaccine believers: measles as an example

J Theor Biol. . 2012;295:194-203



Optimal H1N1 vaccination strategies based on self-interest versus group interest

BMC Public Health.. 2011;11(Suppl 1):S4-null



Prioritization of delayed vaccination for pandemic influenza

Math Biosci Eng.. 2011;8(1):95-112



Inference on population histories by approximating infinite alleles diffusion

Mol Biol Evol. 2013;30(2):457-468



Food- and water-borne disease: Using case control studies to estimate the force of infection that accounts for primary, sporadic cases.

Epidemics. 2013;5(2):77-84



How backyard poultry flocks influence the effort required to curtail avian influenza epidemics in commercial poultry flocks.

Epidemics. 2011;3:71-75



Vaccine production, distribution, access, and uptake

Lancet. 2011;378(9789):428-438



Cost-effectiveness of dual influenza and pneumococcal vaccination in 50-year-olds

Vaccine.. 2010;28(48):7620-7625



The potential economic value of a Staphylococcus aureus vaccine among hemodialysis patients

Vaccine. . 2012;30(24):3675-3682



Local spatial and temporal processes of influenza in Pennsylvania, USA: 2003-2009

PLoS One.. 2012;7(3):e34245-null



Local variations in spatial synchrony of influenza epidemics

PLoS One. . 2012;7(8):e43528-null



Reduction in the incidence of influenza A but not influenza B associated with use of hand sanitizer and cough hygiene in schools: a randomized controlled trial

Pediatr Infect Dis J.. 2011;30(11):921-926



Automated use of WHONET and SaTScan to detect outbreaks of Shigella spp. using antimicrobial resistance phenotypes.

Epidemiol Infect. 2010;138(6):873-883



Vaccination by delayed treatment of infection

Vaccine.. 2011;29(52):9624-9631



The effect of age on transmission of 2009 pandemic influenza A (H1N1) in a camp and associated households

Epidemiology.. 2011;22(2):180-187



Social network analysis: a novel approach to legal research on emergency public health systems

J Public Health Manag Pract.. 2013;19(6):e38-e40


-- T --


A flexibly shaped space-time scan statistic for disease outbreak detection and monitoring

Int J Health Geogr. 2008;7:14-14



Environmental predictors of seasonal influenza epidemics across temperate and tropical climates

PLoS Pathog.. 2013;9(3):e1003194-null



Socioeconomic and Outdoor Meteorological Determinants of Indoor Temperature and Humidity in New York City Dwellings

Weather, Climate, and Society. 2013;5(2):168-179



Same influenza vaccination strategies but different outcomes across US cities?

Int J Infect Dis.. 2010;14(9):e792-e795



Impact of spatial clustering on disease transmission and optimal control

Proc Natl Acad Sci U S A. . 2010;107(3):1041-1046



Is R(0) a good predictor of final epidemic size: foot-and-mouth disease in the UK

J Theor Biol.. 2009;258(4):623-629



The role of pre-emptive culling in the control of foot-and-mouth disease

Proc Biol Sci.. 2009;276(1671):3239-3248



Economic analysis of the use of facemasks during pandemic (H1N1) 2009

J Theor Biol.. 2012;300:161-172



When Does Overuse of Antibiotics Become a Tragedy of the Commons?

PLoS One.. 2012;7(12):e46505-null



Addiction dynamics may explain the slow decline of smoking prevalence

Proceedings of International Conference on Social Computing, Behavioral Modeling, and Prediction . 2012;(SBP12), :114-122


-- V --


Contagious diseases in the United States from 1888 to the present.

N Engl J Med.. 2013;369(22):2152-2158



Comment on "Seroevidence for H5N1 influenza infections in humans: meta-analysis".

Science. 2012;336(6088):1506-null



Studies Needed to Address Public Health Challenges of the 2009 H1N1 Influenza Pandemic: Insights from Modeling

PLoS Med . 2010;7(6):1-6



Effects of heterogeneous and clustered contact patterns on infectious disease dynamics

PLoS Comput Biol.. 2011;7(6):e1002042-null


-- W --


Optimizing infectious disease interventions during an emerging epidemic.

Proc Natl Acad Sci U S A. 2010;107(2):923-928



How generation intervals shape the relationship between growth rates and reproductive numbers

Proc Biol Sci. 2007;274(1609):599-604



Hand, foot, and mouth disease in China: patterns of spread and transmissibility

Epidemiology.. 2011;22(6):781-792



Circulating influenza virus, climatic factors, and acute myocardial infarction: a time series study in England and Wales and Hong Kong.

J Infect Dis.. 2011;203(12):1710-1718



Hospital-based surveillance for rotavirus gastroenteritis using molecular testing and immunoassay during the 2011 season in Botswana.

Pediatr Infect Dis J.. 2013;32(5):570-572



Impact of Imitation Processes on the Effectiveness of Ring Vaccination

Bull Math Biol.. 2011;73(11):2748-2772



ENteric Immunity SImulator: A Tool for In Silico Study of Gastroenteric Infections

IEEE Trans Nanobioscience. . 2012;11(3):273-288



Model of colonic inflammation: immune modulatory mechanisms in inflammatory bowel disease

J Theor Biol. . 2010;264(4):1225-1239



The impact of biases in mobile phone ownership on estimates of human mobility.

J R Soc Interface.. 2013;10(81):20120986-null



The use of census migration data to approximate human movement patterns across temporal scales

PLoS One. 2013;8(12):e52971-null



Heterogeneous mobile phone ownership and usage patterns in Kenya.

PLoS One.. 2012;7(4):e35319-null



Quantifying the impact of human mobility on malaria

Science. 2012;338(6104):267-270



Synthesized population databases: A US geospatial database for agent-based models

RTI Press. 2009;MR-0010-0905:2-16



Estimating the reproductive number in the presence of spatial heterogeneity of transmission patterns

Int J Health Geogr.. 2013;12:35-null



Modelling the impact of vector control interventions on anopheles gambiae population dynamics

Parasit Vectors.. 2011;4(153):null-null



Estimation of the reproductive number and the serial interval in early phase of the 2009 influenza A/H1N1 pandemic in the USA

Influenza Other Respi Viruses. 2009;3(6):267-276



Assessing the potential of a candidate dengue vaccine with mathematical modeling

PLoS Negl Trop Dis.. 2012;6(3):e1450-null



Restricted gene flow among hospital subpopulations of Enterococcus faecium

MBio. . 2012;3(4):e00151-12-null



Population biology of Gram-positive pathogens: high-risk clones for dissemination of antibiotic resistance

FEMS Microbiol Rev. . 2011;35(5):872-900



How does sex trafficking increase the risk of HIV Infection? An observational study from Southern India.

Am J Epidemiol.. 2013;177(3):232-241



Infection fatality risk of the pandemic A(H1N1)2009 virus in Hong Kong

Am J Epidemiol. . 2013;177(8):834-840



Trends in mortality from septicaemia and pneumonia with economic development: an age-period-cohort analysis

PLoS One. 2012;7(6):e38988-null



A nonlinear programming approach for estimation of transmission parameters in childhood infectious disease using a continuous time model.

J R Soc Interface.. 2012;9(73):1983-1997



The epidemiological and public health research response to 2009 pandemic influenza A(H1N1): experiences from Hong Kong.

Influenza Other Respi Viruses. 2013;7(3):367-382



Excess mortality associated with influenza A and B virus in Hong Kong, 1998-2009

J Infect Dis.. 2012;206(12):1862-1871



Aflatoxin regulations in a network of global maize trade.

PLoS One. . 2012;7(9):e45151-null



Logistical feasibility and potential benefits of a population-wide passive immunotherapy program during an influenza pandemic

Influenza Other Respi Viruses.. 2011;5 suppl 1:226-229



Estimating Infection Attack Rates and Severity in Real Time during an Influenza Pandemic: Analysis of Serial Cross-Sectional Serologic Surveillance Data

PLoS Med. . 2011;8(10):e1001103-null



The use of mathematical models to inform influenza pandemic preparedness and response

Exp Biol Med (Maywood). . 2011;236(8):955-961



The Transmission Dynamics of Tuberculosis in a Recently Developed Chinese City

PLoS ONE . 2010;5(5):1-9



The infection attack rate and severity of 2009 pandemic H1N1 influenza in Hong Kong

Clin Infect Dis. . 2010;51(10):1184-1191



Logistical feasibility and potential benefits of a population-wide passive-immunotherapy program during an influenza pandemic.

Proc Natl Acad Sci U S A. 2010;107(7):3269-3274



School Closure and Mitigation of Pandemic (H1N1) 2009, Hong Kong.

Emerg. Infect Dis . 2010;16(3):538-541



Hedging against antiviral resistance during the next influenza pandemic using small stockpiles of an alternative chemotherapy

PLos Med. doi:10.1371/journal.pmed.1000085. 2009;6:1-1


-- Y --


Identifying dynamic tuberculosis case-finding policies for HIV/TB coepidemics

Proc Natl Acad Sci U S A. . 2013;110(23):9457-9462



Generalized Markov Models of Infectious Disease Spread: A Novel Framework for Developing Dynamic Health Policies

Eur J Oper Res.. 2011;215(3):679-687



Dynamic health policies for controlling the spread of emerging infections: influenza as an example

PLoS One. . 2011;6(9):e24043-null



A Hybrid EM and Monte Carlo EM Algorithm and Its Application to Analysis of Transmission of Infectious Diseases.

Biometrics. . 2012;[Epub ahead of print]:null-null



Analysis of CDC social control measures using an agent-based simulation of an influenza epidemic in a city

BMC Infect Dis. . 2011;11:199-null



Modeling Competing Infectious Pathogens from a Bayesian Perspective: Application to Influenza Studies with Incomplete Laboratory Results.

J Am Stat Assoc. 2010;105(492):1310-1322



A Bayesian model for evaluating influenza antiviral efficacy in household studies with asymptomatic infections

Biostatistics. 2009;10(2):390-403



The transmissibility and control of pandemic influenza A (H1N1) virus

Science. 2009;326(5953):729-733



A Bayesian framework for estimating vaccine efficacy per infectious contact.

Annals of Applied Statistics. 2008;2(4):1409-1431



A resampling-based test to detect person-to-person transmission of infectious disease

Annals of Applied Statistics. 2007;1(1):211-228



Detecting human-to-human transmission of avian influenza A (H5N1)

Emerg Infect Dis. 2007;13(9):1348-1353



Design and evaluation of prophylactic interventions using infectious disease incidence data from close contact groups

Applied Statistics. 2006;55:317-330



How do pathogen evolution and host heterogeneity interact in disease emergence?

Proc Biol Sci. 2006;273(1605):3075-3083



Evaluating real-time syndromic surveillance signals from ambulatory care data in four states

Public Health Rep.. 2010;125(1):111-120



Telephone triage service data for detection of influenza-like illness

PLoS One. . 2009;4(4):e5260-null



Human infection with avian influenza A H7N9 virus: an assessment of clinical severity

Lancet.. 2013;382(9887):138-145



Transmission dynamics, border entry screening, and school holidays during the 2009 influenza A (H1N1) pandemic, China

Emerg Infect Dis. . 2012;18(5):758-766



Isoniazid-Resistant Tuberculosis in Children: A Systematic Review

Pediatr Infect Dis J. . 2013;[Epub ahead of print]:null-null


-- Z --


Ambulatory antibiotic use and prescription drug coverage in older adults

Arch Intern Med.. 2010;170(15):1308-1314



SAHad: Subgraph analysis in massive networks using hadoop.

Proc. 26th IEEE International Parallel & Distributed Processing Symposium,. 2012;(IPDPS 2012). :390-401



Years of Life Lost in the First Wave of the 2009 Influenza A(H1N1) Pandemic in Hong Kong

Am J Epidemiol.. 2013;[Epub ahead of print]:null-null



Seroprevalence following the second wave of Pandemic 2009 H1N1 influenza in Pittsburgh, PA, USA.

PLoS One.. 2010;5(7):e11601-null



Historical perspective - Emergence of Influenza A (H1N1) Viruses.

N Engl J Med. 2009;361(3):279-285



Prevalence of high-risk indications for influenza vaccine varies by age, race, and income.

Vaccine . 2010;28(39):6470-6477