category,disease,year,purpose,intervention_details,methodolgy_details,economic_analysis,keyword,reference,,,
bacterial,acinetobacter baumannii,2015,interventions,health_practice,-,-,CA,"Fresnadillo-Martinez, M. J., Garcia-Merino, E., Garcia-Sanchez, E., Martin-del Rey, A., Rodriguez-Encinas, A., Rodriguez-Sanchez, G., Garcia-Sanchez, J. E. Prevention of an outbreak of Acinetobacter baumannii in intensive care units: study of the efficacy of different mathematical methods. Revista Espanola de Quimioterapia 28, 10-20 (2015).",,,
bacterial,clostridium difficile ,2013,interventions,screening+distancing+drugs+health_practice,-,-,ABM,"Rubin, M. A., Jones, M., Leecaster, M., Khader, K., Ray, W., Huttner, A., Huttner, B., Toth, D., Sablay, T., Borotkanics, R. J., Gerding, D. N., Samore, M. H. A Simulation-Based Assessment of Strategies to Control Clostridium Difficile Transmission and Infection. Plos One 8 (2013).",,,
bacterial,clostridium difficile ,2014,interventions,screening+health_practice,-,-,ABM,"Lanzas, C., Dubberke, E. R. Effectiveness of screening hospital admissions to detect asymptomatic carriers of Clostridium difficile: a modeling evaluation. Infect Control Hosp Epidemiol 35, 1043-50 (2014).",,,
bacterial,clostridium difficile ,2015,interventions,health_practice+drugs,-,-,ABM,"Codella, J., Safdar, N., Heffernan, R., Alagoz, O. An agent-based simulation model for Clostridium difficile infection control. Med Decis Making 35, 211-29 (2015).",,,
bacterial,chlamydia,2006,interventions,screening,-,-,IBM,"Turner, K. M., Adams, E. J., Lamontagne, D. S., Emmett, L., Baster, K., Edmunds, W. J. Modelling the effectiveness of chlamydia screening in England. Sex Transm Infect 82, 496-502 (2006).",,,
bacterial,chlamydia,2006,methods,-,fitting,-,IBM,"Turner, K. M., Adams, E. J., Gay, N., Ghani, A. C., Mercer, C., Edmunds, W. J. Developing a realistic sexual network model of chlamydia transmission in Britain. Theor Biol Med Model 3, 3 (2006).",,,
bacterial,chlamydia,2007,interventions,screening,-,yes,IBM,"Adams, E. J., Turner, K. M. E., Edmunds, W. J. The cost effectiveness of opportunistic chlamydia screening in England. Sexually Transmitted Infections 83 (2007).",,,
bacterial,chlamydia,2009,interventions,vaccination,-,-,IBM,"Gray, R. T., Beagley, K. W., Timms, P., Wilson, D. P. Modeling the Impact of Potential Vaccines on Epidemics of Sexually Transmitted Chlamydia trachomatis Infection. Journal of Infectious Diseases 199, 1680-1688 (2009).",,,
bacterial,chlamydia,2009,methods,-,concept,-,IBM,"Kretzschmar, M., Turner, K. M. E., Barton, P. M., Edmunds, W. J., Low, N. Predicting the population impact of chlamydia screening programmes: comparative mathematical modelling study. Sexually Transmitted Infections 85, 359-366 (2009).",,,
bacterial,chlamydia,2012,interventions,screening,-,-,IBM,"Althaus, C. L., Heijne, J. C. M., Herzog, S. A., Roellin, A., Low, N. Individual and Population Level Effects of Partner Notification for Chlamydia trachomatis. Plos One 7 (2012).",,,
bacterial,chlamydia,2012,methods,-,fitting,-,IBM,"Althaus, C. L., Turner, K. M. E., Schmid, B. V., Heijne, J. C. M., Kretzschmar, M., Low, N. Transmission of Chlamydia trachomatis through sexual partnerships: a comparison between three individual-based models and empirical data. Journal of the Royal Society Interface 9, 136-146 (2012).",,,
bacterial,enterococcus,2013,dynamics,-,-,-,ABM,"Lee, B. Y., Yilmaz, S. L., Wong, K. F., Bartsch, S. M., Eubank, S., Song, Y., Avery, T. R., Christie, R., Brown, S. T., Epstein, J. M., Parker, J. I., Huang, S. S. Modeling the regional spread and control of vancomycin-resistant enterococci. Am J Infect Control 41, 668-73 (2013).",,,
bacterial,gonorrhoea,2015,dynamics,-,-,-,IBM,"Hui, B., Fairley, C. K., Chen, M., Grulich, A., Hocking, J., Prestage, G., Walker, S., Law, M., Regan, D. Oral and anal sex are key to sustaining gonorrhoea at endemic levels in MSM populations: a mathematical model. Sex Transm Infect (2015).",,,
bacterial,gonorrhoea,2015,interventions,vaccination,-,-,IBM,"Craig, A. P., Gray, R. T., Edwards, J. L., Apicella, M. A., Jennings, M. P., Wilson, D. P., Seib, K. L. The potential impact of vaccination on the prevalence of gonorrhea. Vaccine 33, 4520-5 (2015).",,,
bacterial,gonorrhoea,2015,interventions,screening,-,-,IBM,"Hui, B. B., Ryder, N., Su, J. Y., Ward, J., Chen, M. Y., Donovan, B., Fairley, C. K., Guy, R. J., Lahra, M. M., Law, M. G., Whiley, D. M., Regan, D. G. Exploring the Benefits of Molecular Testing for Gonorrhoea Antibiotic Resistance Surveillance in Remote Settings. Plos One 10 (2015).",,,
bacterial,lepra,2010,dynamics,-,-,-,Microsimulation,"Fischer, E., De Vlas, S., Meima, A., Habbema, D., Richardus, J. Different Mechanisms for Heterogeneity in Leprosy Susceptibility Can Explain Disease Clustering within Households. Plos One 5 (2010).",,,
bacterial,lepra,2011,interventions,vaccination+drugs+screening,-,-,Microsimulation,"Fischer, E. A., de Vlas, S. J., Habbema, J. D., Richardus, J. H. The long-term effect of current and new interventions on the new case detection of leprosy: a modeling study. PLoS Negl Trop Dis 5, e1330 (2011).",,,
bacterial,lepra,2013,dynamics,-,-,-,Other,"Chirwa, T., Floyd, S., Fine, P. Estimating the extent of household contact misclassification with index cases of disease in longitudinal studies using a stochastic simulation model. Global Health Action 6, 11-19 (2013).",,,
bacterial,lepra,2015,interventions,drugs,-,-,IBM,"Blok, D. J., De Vlas, S. J., Richardus, J. H. Global elimination of leprosy by 2020: are we. Parasites & Vectors 8 (2015).",,,
bacterial,tuberculosis,2006,methods,-,concept,-,ABM,"Patlolla, P., Gunupudi, V., Mikler, A. R., Jacob, R. T. Agent-based simulation tools in computational epidemiology. Innovative Internet Community Systems 3473, 212-223 (2006).",,,
bacterial,tuberculosis,2006,interventions,screening+drugs,-,yes,Other,"Porco, T. C., Lewis, B., Marseille, E., Grinsdale, J., Flood, J. M., Royce, S. E. Cost-effectiveness of tuberculosis evaluation and treatment of newly-arrived immigrants. BMC Public Health 6, 157 (2006).",,,
bacterial,tuberculosis,2007,methods,-,concept,-,IBM,"Colijn, C., Cohen, T., Murray, M. Mathematical Models of Tuberculosis: Accomplishments and Future Challenges. Biomat 2006, 123-148 (2007).",,,
bacterial,tuberculosis,2008,interventions,screening,-,-,IBM,"Cohen, T., Colijn, C., Finklea, B., Wright, A., Zignol, M., Pym, A., Murray, M. Are Survey-Based Estimates of the Burden of Drug Resistant TB Too Low? Insight from a Simulation Study. Plos One 3 (2008).",,,
bacterial,tuberculosis,2009,dynamics,-,-,-,IBM,"Pertsev, N. V., Leonenko, V. N. Stochastic individual-based model of spread of tuberculosis. Russian Journal of Numerical Analysis and Mathematical Modelling 24, 341-360 (2009).",,,
bacterial,tuberculosis,2010,dynamics,-,-,-,ABM,"Bishai, J. D., Bishai, W. R., Bishai, D. M. Heightened Vulnerability to MDR-TB Epidemics after Controlling Drug-Susceptible TB. Plos One 5 (2010).",,,
bacterial,tuberculosis,2010,dynamics,-,-,-,IBM,"Brooks-Pollock, E., Cohen, T., Murray, M. The Impact of Realistic Age Structure in Simple Models of Tuberculosis Transmission. Plos One 5 (2010).",,,
bacterial,tuberculosis,2011,methods,-,concept,-,ABM,"de Espindola, A. L., Bauch, C. T., Cabella, B. C. T., Martinez, A. S. An agent-based computational model of the spread of tuberculosis. Journal of Statistical Mechanics-Theory and Experiment (2011).",,,
bacterial,tuberculosis,2011,methods,-,concept,-,IBM,"Guzzetta, G., Ajelli, M., Yang, Z. H., Merler, S., Furlanello, C., Kirschner, D. Modeling socio-demography to capture tuberculosis transmission dynamics in a low burden setting. Journal of Theoretical Biology 289, 197-205 (2011).",,,
bacterial,tuberculosis,2011,interventions,drugs,-,-,Other,"Mills, H. L., Cohen, T., Colijn, C. Modelling the performance of isoniazid preventive therapy for reducing tuberculosis in HIV endemic settings: the effects of network structure. Journal of the Royal Society Interface 8, 1510-1520 (2011).",,,
bacterial,tuberculosis,2012,methods,-,concept,-,ABM,"Chung, H. Y., Chung, C. Y., Ou, S. C. Analysis of a bio-dynamic model via Lyapunov principle and small-world network for tuberculosis. IET Syst Biol 6, 196-206 (2012).",,,
bacterial,tuberculosis,2012,dynamics,-,-,-,"ABM, CA","Espindola, A. L., Girardi, D., Penna, T. J. P., Bauch, C. T., Martinez, A. S., Cabella, B. C. T. Exploration of the Parameter Space in an Agent-Based Model of Tuberculosis Spread: Emergence of Drug Resistance in Developing Vs Developed Countries. International Journal of Modern Physics C 23 (2012).",,,
bacterial,tuberculosis,2012,interventions,screening,-,yes,Microsimulation,"Andrews, J. R., Lawn, S. D., Rusu, C., Wood, R., Noubary, F., Bender, M. A., Horsburgh, C. R., Losina, E., Freedberg, K. A., Walensky, R. P. The cost-effectiveness of routine tuberculosis screening with Xpert MTB/RIF prior to initiation of antiretroviral therapy: a model-based analysis. Aids 26, 987-995 (2012).",,,
bacterial,tuberculosis,2013,dynamics,-,-,-,ABM,"Kasaie, P., Dowdy, D. W., Kelton, W. D. An Agent-Based Simulation of a Tuberculosis Epidemic: Understanding the Timing of Transmission. 2013 Winter Simulation Conference (Wsc), 2227-2238 (2013).",,,
bacterial,tuberculosis,2013,interventions,screening+drugs,-,-,IBM,"Tian, Y., Osgood, N. D., Al-Azem, A., Hoeppner, V. H. Evaluating the effectiveness of contact tracing on tuberculosis outcomes in Saskatchewan using individual-based modeling. Health Educ Behav 40, 98S-110S (2013).",,,
bacterial,tuberculosis,2014,interventions,screening,-,-,ABM,"Kasaie, P., Andrews, J. R., Kelton, W. D., Dowdy, D. W. Timing of tuberculosis transmission and the impact of household contact tracing. An agent-based simulation model. Am J Respir Crit Care Med 189, 845-52 (2014).",,,
bacterial,tuberculosis,2014,methods,-,performance,-,ABM,"Espindola, A. L., Martinez, A. S., Moghadas, S. M. An Agent-Based Modelling Framework for Tuberculosis Infection with Drug-Resistance. Biomat 2013: International Symposium on Mathematical and Computational Biology, 374-388 (2014).",,,
bacterial,tuberculosis,2014,interventions,screening+drugs,-,-,IBM,"Denholm, J. T., McBryde, E. S. Can Australia eliminate TB? Modelling immigration strategies for reaching MDG targets in a low-transmission setting. Aust N Z J Public Health 38, 78-82 (2014).",,,
bacterial,tuberculosis,2014,interventions,drugs+screening,-,-,Microsimulation,"Suen, S. C., Bendavid, E., Goldhaber-Fiebert, J. D. Disease Control Implications of India's Changing Multi-Drug Resistant Tuberculosis Epidemic. Plos One 9 (2014).",,,
bacterial,tuberculosis,2015,dynamics,-,-,-,ABM,"Rodrigues, C. C. G., Espindola, A. L., Penna, T. J. P. An agent-based computational model for tuberculosis spreading on age-structured populations. Physica a-Statistical Mechanics and Its Applications 428, 52-59 (2015).",,,
bacterial,tuberculosis,2015,methods,-,performance,-,ABM,"Cilfone, N. A., Kirschner, D. E., Linderman, J. J. Strategies for Efficient Numerical Implementation of Hybrid Multi-scale Agent-Based Models to Describe Biological Systems. Cellular and Molecular Bioengineering 8, 119-136 (2015).",,,
bacterial,tuberculosis,2015,interventions,drugs,-,-,CA,"Rehkopf, D., Furumoto-Dawson, A., Kiszewski, A., Awerbuch-Friedlander, T. Spatial Spread of Tuberculosis through Neighborhoods Segregated by Socioeconomic Position: A Stochastic Automata Model. Discrete Dynamics in Nature and Society (2015).",,,
bacterial,tuberculosis,2015,interventions,drugs+screening,-,-,IBM,"Huynh, G. H., Klein, D. J., Chin, D. P., Wagner, B. G., Eckhoff, P. A., Liu, R. Z., Wang, L. X. Tuberculosis control strategies to reach the 2035 global targets in China: the role of changing demographics and reactivation disease. Bmc Medicine 13 (2015).",,,
bacterial,tuberculosis,2015,interventions,drugs,-,yes,IBM,"Knight, G. M., Gomez, G. B., Dodd, P. J., Dowdy, D., Zwerling, A., Wells, W. A., Cobelens, F., Vassall, A., White, R. G. The Impact and Cost-Effectiveness of a Four-Month Regimen for First-Line Treatment of Active Tuberculosis in South Africa. PLoS One 10, e0145796 (2015).",,,
bacterial,tuberculosis,2015,methods,-,emulation,-,IBM,"Kasaie, P., Mathema, B., Kelton, W. D., Azman, A. S., Pennington, J., Dowdy, D. W. A Novel Tool Improves Existing Estimates of Recent Tuberculosis Transmission in Settings of Sparse Data Collection. PLoS One 10, e0144137 (2015).",,,
bacterial,tuberculosis,2015,interventions,drugs+screening,-,yes,Microsimulation,"Suen, S. C., Bendavid, E., Goldhaber-Fiebert, J. D. Cost-effectiveness of improvements in diagnosis and treatment accessibility for tuberculosis control in India. Int J Tuberc Lung Dis 19, 1115-24 (2015).",,,
bacterial,mycobacterium ulcerans ,2015,dynamics,-,-,yes,IBM,"Garchitorena, A., Ngonghala, C. N., Guegan, J. F., Texier, G., Bellanger, M., Bonds, M., Roche, B. Economic inequality caused by feedbacks between poverty and the dynamics of a rare tropical disease: the case of Buruli ulcer in sub-Saharan Africa. Proceedings of the Royal Society B-Biological Sciences 282 (2015).",,,
bacterial,meningococcus,2013,methods,-,concept,-,CA,"Martinez, M. J. F., Merino, E. G., Sanchez, E. G., Sanchez, J. E. G., del Rey, A. M., Sanchez, G. R. A mathematical model to study the meningococcal meningitis. 2013 International Conference on Computational Science 18, 2492-2495 (2013).",,,
bacterial,meningococcus,2014,interventions,vaccination,-,-,ABM,"Perez-Breva, L., Villanueva, R. J., Villanueva-Oller, J., Acedo, L., Santonja, F., Morano, J. A., Abad, R., Vazquez, J. A., Diez-Domingo, J. Optimizing strategies for meningococcal C disease vaccination in Valencia (Spain). BMC Infect Dis 14, 280 (2014).",,,
bacterial,meningococcus,2015,dynamics,-,-,-,ABM,"Poore, K. D., Bauch, C. T. The impact of aggregating serogroups in dynamic models of Neisseria meningitidis transmission. Bmc Infectious Diseases 15 (2015).",,,
bacterial,mrsa,2010,interventions,health_practice+screening,-,-,ABM,"Barnes, S., Golden, B., Wasil, E. MRSA Transmission Reduction Using Agent-Based Modeling and Simulation. Informs Journal on Computing 22, 635-646 (2010).",,,
bacterial,mrsa,2010,methods,-,concept,-,ABM,"Meng, Y., Davies, R., Hardy, K., Hawkey, P. An application of agent-based simulation to the management of hospital-acquired infection. Journal of Simulation 4, 60-67 (2010).",,,
bacterial,mrsa,2011,dynamics,-,-,-,ABM,"Lee, B. Y., McGlone, S. M., Wong, K. F., Yilmaz, S. L., Avery, T. R., Song, Y., Christie, R., Eubank, S., Brown, S. T., Epstein, J. M., Parker, J. I., Burke, D. S., Platt, R., Huang, S. S. Modeling the Spread of Methicillin-Resistant Staphylococcus aureus (MRSA) Outbreaks throughout the Hospitals in Orange County, California. Infection Control and Hospital Epidemiology 32, 562-572 (2011).",,,
bacterial,mrsa,2011,interventions,health_practice,-,-,ABM,"Barnes, S., Golden, B., Wasil, E., Furuno, J., Harris, A. An Application of Factorial Design to Compare the Relative Effectiveness of Hospital Infection Control Measures. Proceedings of the 2011 Winter Simulation Conference (Wsc), 1283-1294 (2011).",,,
bacterial,mrsa,2011,interventions,drugs,-,-,ABM,"Kardas-Sloma, L., Boelle, P. Y., Opatowski, L., Brun-Buisson, C., Guillemot, D., Temime, L. Impact of Antibiotic Exposure Patterns on Selection of Community-Associated Methicillin-Resistant Staphylococcus aureus in Hospital Settings. Antimicrobial Agents and Chemotherapy 55, 4888-4895 (2011).",,,
bacterial,mrsa,2011,interventions,health_practice,-,-,IBM,"Milazzo, L., Bown, J. L., Eberst, A., Phillips, G., Crawford, J. W. Modelling of Healthcare Associated Infections: A study on the dynamics of pathogen transmission by using an individual-based approach. Computer Methods and Programs in Biomedicine 104, 260-265 (2011).",,,
bacterial,mrsa,2012,methods,-,concept,-,ABM,"Macal, C. M., North, M. J., Collier, N., Lauderdale, D. S., David, M. Z., Daum, R. S., Shumm, P., Evans, J. A., Wilder, J. R., Dukic, V. M., Wegener, D. T. Modeling the Spread of Community-Associated Mrsa. 2012 Winter Simulation Conference (Wsc) (2012).",,,
bacterial,mrsa,2012,interventions,screening+distancing,-,-,IBM,"Hall, I. M., Barrass, I., Leach, S., Pittet, D., Hugonnet, S. Transmission dynamics of methicillin-resistant Staphylococcus aureus in a medical intensive care unit. Journal of the Royal Society Interface 9, 2639-2652 (2012).",,,
bacterial,mrsa,2013,dynamics,-,-,-,ABM,"Lee, B. Y., Bartsch, S. M., Wong, K. F., Singh, A., Avery, T. R., Kim, D. S., Brown, S. T., Murphy, C. R., Yilmaz, S. L., Potter, M. A., Huang, S. S. The importance of nursing homes in the spread of methicillin-resistant Staphylococcus aureus (MRSA) among hospitals. Med Care 51, 205-15 (2013).",,,
bacterial,mrsa,2013,interventions,distancing,-,-,ABM,"Lee, B. Y., Singh, A., Bartsch, S. M., Wong, K. F., Kim, D. S., Avery, T. R., Brown, S. T., Murphy, C. R., Yilmaz, S. L., Huang, S. S. The potential regional impact of contact precaution use in nursing homes to control methicillin-resistant Staphylococcus aureus. Infect Control Hosp Epidemiol 34, 151-60 (2013).",,,
bacterial,mrsa,2013,methods,-,concept,-,ABM,"Lee, B. Y., Wong, K. F., Bartsch, S. M., Yilmaz, S. L., Avery, T. R., Brown, S. T., Song, Y., Singh, A., Kim, D. S., Huang, S. S. The Regional Healthcare Ecosystem Analyst (RHEA): a simulation modeling tool to assist infectious disease control in a health system. J Am Med Inform Assoc 20, e139-46 (2013).",,,
bacterial,mrsa,2013,interventions,screening+drugs,-,-,IBM,"Deeny, S. R., Cooper, B. S., Cookson, B., Hopkins, S., Robotham, J. V. Targeted versus universal screening and decolonization to reduce healthcare-associated meticillin-resistant Staphylococcus aureus infection. J Hosp Infect 85, 33-44 (2013).",,,
bacterial,mrsa,2014,interventions,health_practice,-,-,ABM,"Macal, C. M., North, M. J., Collier, N., Dukic, V. M., Wegener, D. T., David, M. Z., Daum, R. S., Schumm, P., Evans, J. A., Wilder, J. R., Miller, L. G., Eells, S. J., Lauderdale, D. S. Modeling the transmission of community-associated methicillin-resistant Staphylococcus aureus: a dynamic agent-based simulation. J Transl Med 12, 124 (2014).",,,
bacterial,mrsa,2015,interventions,screening+distancing+health_practice,-,yes,Microsimulation,"Gidengil, C. A., Gay, C., Huang, S. S., Platt, R., Yokoe, D., Lee, G. M., Ctr Dis Control Prevention CDC Cost-Effectiveness of Strategies to Prevent Methicillin-Resistant Staphylococcus aureus Transmission and Infection in an Intensive Care Unit. Infection Control and Hospital Epidemiology 36, 17-27 (2015).",,,
bacterial,nosocomial infections,2008,interventions,vaccination+health_practice,-,-,Other,"Ueno, T., Masuda, N. Controlling nosocomial infection based on structure of hospital social networks. Journal of Theoretical Biology 254, 655-666 (2008).",,,
bacterial,nosocomial infections,2009,dynamics,-,-,-,ABM,"Temime, L., Opatowski, L., Pannet, Y., Brun-Buisson, C., Boelle, P. Y., Guillemot, D. Peripatetic health-care workers as potential superspreaders. Proceedings of the National Academy of Sciences of the United States of America 106, 18420-18425 (2009).",,,
bacterial,nosocomial infections,2010,methods,-,concept,-,ABM,"Temime, L., Kardas-Sloma, L., Opatowski, L., Brun-Buisson, C., Boelle, P. Y., Guillemot, D. NosoSim: an agent-based model of nosocomial pathogens circulation in hospitals. Iccs 2010 - International Conference on Computational Science, Proceedings 1, 2239-2246 (2010).",,,
bacterial,nosocomial infections,2010,dynamics,-,-,-,Other,"Beggs, C. B., Shepherd, S. J., Kerr, K. G. Potential for airborne transmission of infection in the waiting areas of healthcare premises: stochastic analysis using a Monte Carlo model. Bmc Infectious Diseases 10 (2010).",,,
bacterial,nosocomial infections,2013,methods,-,concept,-,ABM,"Caudill, L., Lawson, B. A Hybrid Agent-Based and Differential Equations Model for Simulating Antibiotic Resistance in a Hospital Ward. 2013 Winter Simulation Conference (Wsc), 1419-1430 (2013).",,,
bacterial,nosocomial infections,2013,methods,-,concept,-,ABM,"Ferrer, J., Salmon, M., Temime, L. Nosolink: An agent-based approach to link patient flows and staff organization with the circulation of nosocomial pathogens in an intensive care unit. 2013 International Conference on Computational Science 18, 1485-1494 (2013).",,,
bacterial,nosocomial infections,2014,interventions,health_practice,-,-,ABM,"Barnes, S. L., Morgan, D. J., Harris, A. D., Carling, P. C., Thom, K. A. Preventing the transmission of multidrug-resistant organisms: modeling the relative importance of hand hygiene and environmental cleaning interventions. Infect Control Hosp Epidemiol 35, 1156-62 (2014).",,,
bacterial,pertussis,2009,interventions,vaccination,-,-,ABM,"Greer, A. L., Fisman, D. N. Keeping Vulnerable Children Safe from Pertussis: Preventing Nosocomial Pertussis Transmission in the Neonatal Intensive Care Unit. Infection Control and Hospital Epidemiology 30, 1084-1089 (2009).",,,
bacterial,pertussis,2010,interventions,vaccination,-,yes,IBM,"de Vries, R., Kretzschmar, M., Schellekens, J. F. P., Versteegh, F. G. A., Westra, T. A., Roord, J. J., Postma, M. J. Cost-Effectiveness of Adolescent Pertussis Vaccination for The Netherlands: Using an Individual-Based Dynamic Model. Plos One 5 (2010).",,,
bacterial,pertussis,2015,dynamics,-,-,-,ABM,"Sanstead, E., Kenyon, C., Rowley, S., Enns, E., Miller, C., Ehresmann, K., Kulasingam, S. Understanding Trends in Pertussis Incidence: An Agent-Based Model Approach. Am J Public Health 105, e42-7 (2015).",,,
bacterial,pneumococcus,2008,interventions,distancing,-,-,IBM,"Karlsson, D., Jansson, A., Normark, B. H., Nilsson, P. An individual-based network model to evaluate interventions for controlling pneumococcal transmission. BMC Infect Dis 8, 83 (2008).",,,
bacterial,pneumococcus,2010,methods,-,concept,-,CA,"Saito, Y., da Silva, M. A. A., Alves, D. A Probabilistic Cellular Automata to Studying the Spreading of Pneumonia in a Population. Biomat 2009, 354-365 (2010).",,,
bacterial,pneumococcus,2012,interventions,vaccination,-,-,IBM,"Choi, Y. H., Jit, M., Flasche, S., Gay, N., Miller, E. Mathematical Modelling Long-Term Effects of Replacing Prevnar7 with Prevnar13 on Invasive Pneumococcal Diseases in England and Wales. Plos One 7 (2012).",,,
bacterial,pneumococcus,2013,interventions,vaccination,-,-,IBM,"Flasche, S., Edmunds, W. J., Miller, E., Goldblatt, D., Robertson, C., Choi, Y. H. The impact of specific and non-specific immunity on the ecology of Streptococcus pneumoniae and the implications for vaccination. Proc Biol Sci 280, 20131939 (2013).",,,
bacterial,pneumococcus,2013,dynamics,-,-,-,"IBM, Microsimulation","Nurhonen, M., Cheng, A. C., Auranen, K. Pneumococcal transmission and disease in silico: a microsimulation model of the indirect effects of vaccination. PLoS One 8, e56079 (2013).",,,
bacterial,typhoid,2013,dynamics,-,-,-,ABM,"Saul, A., Smith, T., Maire, N. Stochastic simulation of endemic Salmonella enterica serovar Typhi: the importance of long lasting immunity and the carrier state. PLoS One 8, e74097 (2013).",,,
bacterial,syphilis,2010,interventions,screening,-,-,IBM,"Gray, R. T., Hoare, A., Prestage, G. P., Donovan, B., Kaldor, J. M., Wilson, D. P. Frequent Testing of Highly Sexually Active Gay Men is Required to Control Syphilis. Sexually Transmitted Diseases 37, 298-305 (2010).",,,
bacterial,syphilis,2011,interventions,distancing,-,-,ABM,"Gray, R. T., Hoare, A., McCann, P. D., Bradley, J., Down, I., Donovan, B., Prestage, G., Wilson, D. P. Will Changes in Gay Men's Sexual Behavior Reduce Syphilis Rates?. Sexually Transmitted Diseases 38, 1151-1158 (2011).",,,
bacterial,syphilis,2011,interventions,drugs,-,-,IBM,"Wilson, D. P., Prestage, G. P., Gray, R. T., Hoare, A., McCann, P., Down, I., Guy, R. J., Drummond, F., Klausner, J. D., Donovan, B., Kaldor, J. M. Chemoprophylaxis Is Likely to Be Acceptable and Could Mitigate Syphilis Epidemics Among Populations of Gay Men. Sexually Transmitted Diseases 38, 573-579 (2011).",,,
bacterial,syphilis,2012,interventions,screening+distancing,-,-,IBM,"Down, I., Wilson, D. P., McCann, P. D., Gray, R., Hoare, A., Bradley, J., Donovan, B., Prestage, G. Increasing gay men's testing rates and enhancing partner notification can reduce the incidence of syphilis. Sexual Health 9, 472-480 (2012).",,,
bacterial,syphilis,2013,interventions,screening,-,-,ABM,"Tuite, A. R., Fisman, D. N., Mishra, S. Screen more or screen more often? Using mathematical models to inform syphilis control strategies. BMC Public Health 13, 606 (2013).",,,
bacterial,syphilis,2014,interventions,screening,-,yes,Microsimulation,"Tuite, A. R., Burchell, A. N., Fisman, D. N. Cost-Effectiveness of Enhanced Syphilis Screening among HIV-Positive Men Who Have Sex with Men: A Microsimulation Model. Plos One 9 (2014).",,,
bacterial,cholera,2012,dynamics,-,-,-,CA,"Sun, J., Ibrahim, A. N., Gong, J. H., Yang, L. Y., Li, Y., Zhou, J. P. Study on Spread of Vibrio Cholera in Rivers Based on Cellular Automata Model. 2012 Ieee International Geoscience and Remote Sensing Symposium (Igarss), 491-494 (2012).",,,
bacterial,cholera,2013,dynamics,-,-,-,Other,"Crooks, A., Hailegiorgis, A. Disease Modeling within Refugee Camps: A Multi-Agent Systems Approach. 2013 Winter Simulation Conference (Wsc), 1697-1706 (2013).",,,
bacterial,cholera,2014,dynamics,-,-,-,ABM,"Crooks, A. T., Hailegiorgis, A. B. An agent-based modeling approach applied to the spread of cholera. Environmental Modelling & Software 62, 164-177 (2014).",,,
bacterial,cholera,2015,dynamics,-,-,-,Other,"Li, M. L., Ma, J. L., van den Driessche, P. Model for disease dynamics of a waterborne pathogen on a random network. Journal of Mathematical Biology 71, 961-977 (2015).",,,
general,bioterrorism,2006,methods,-,concept,-,ABM,"Carley, K. M., Fridsma, D. B., Casman, E., Yahja, A., Altman, N., Chen, L. C., Kaminsky, B., Nave, D. BioWar: Scalable agent-based model of bioattacks. Ieee Transactions on Systems Man and Cybernetics Part a-Systems and Humans 36, 252-265 (2006).",,,
general,bioterrorism,2006,methods,-,concept,-,ABM,"Chen, L. C., Carley, K. M., Fridsma, D., Kaminsky, B., Yahja, A. Model alignment of anthrax attack simulations. Decision Support Systems 41, 654-668 (2006).",,,
general,bioterrorism,2007,methods,-,concept,yes,ABM,"Chaturvedi, A., Hsieh, C. H., Bhatt, T., Santone, A. Bio-terror preparedness exercise in a mixed reality environment. Computational Science - ICCS 2007, Pt 1, Proceedings 4487, 1106-1113 (2007).",,,
general,bioterrorism,2008,interventions,distancing,-,-,ABM,"Layfield, R., Kantarcioglu, M., Thuraisingham, B. Simulating bioterrorism through epidemiology approximation. Isi 2008: 2008 Ieee International Conference on Intelligence and Security Informatics, 82-87 (2008).",,,
general,bioterrorism,2011,interventions,distancing+drugs,-,-,IBM,"Williams, A. D. C., Hall, I. M., Rubin, G. J., Amlot, R., Leach, S. An individual-based simulation of pneumonic plague transmission following an outbreak and the significance of intervention compliance. Epidemics 3, 95-102 (2011).",,,
general,bioterrorism,2013,dynamics,-,-,-,Microsimulation,"Green, A., Piper, I., Keep, D. Microsimulation Study of the Release of Pneumonic Plague and Smallpox on a Synthetic Civilian Population. 20th International Congress on Modelling and Simulation (Modsim2013), 1082-1088 (2013).",,,
general,unspecified close-contact,2006,dynamics,-,-,-,ABM,"Berryman, M. J., Johnson, N. F., Abbott, D. Contagions across networks: colds and markets - art. no. 60390O. Complex Systems 6039, O390-O390 (2006).",,,
general,unspecified close-contact,2006,methods,-,concept,-,ABM,"Dunham, J. B., , Dunham, J. B. An Agent-Based Spatially Explicit Epidemiological Model in MASON. Jasss-the Journal of Artificial Societies and Social Simulation 9 (2006).",,,
general,unspecified close-contact,2006,methods,-,concept,-,ABM,"Simoes, Joana M., , Simoes, Joana M. SIMULATING SPATIAL VACCINATION STRATEGIES WITH AN AGENT BASED MODEL. International Mediterranean Modelling Multiconference 2006, 213-218 (2006).",,,
general,unspecified close-contact,2006,dynamics,-,-,-,CA,"Acedo, L., , Acedo, L. A second-order phase transition in the complete graph stochastic epidemic model. Physica a-Statistical Mechanics and Its Applications 370, 613-624 (2006).",,,
general,unspecified close-contact,2006,dynamics,-,-,-,CA,"Liu, Q. X., Jin, Z., Liu, M. X. Spatial organization and evolution period of the epidemic model using cellular automata. Phys Rev E Stat Nonlin Soft Matter Phys 74, 031110 (2006).",,,
general,unspecified close-contact,2006,dynamics,-,-,-,CA,"Monteiro, L. H. A., Chimara, H. D. B., Berlinck, J. G. C. Big cities: Shelters for contagious diseases. Ecological Modelling 197, 258-262 (2006).",,,
general,unspecified close-contact,2006,methods,-,concept,-,CA,"Pan, Q. H., Li, Y. X., He, M. F., Mu, X. J. Infection model based on Hamming Distance with age. International Journal of Modern Physics C 17, 1691-1699 (2006).",,,
general,unspecified close-contact,2006,methods,-,concept,-,CA,"Slimi, Redouane, El Yacoubi, Samira Spreadable probabilistic cellular automata models: An application in epidemiology. Cellular Automata, Proceedings 4173, 330-336 (2006).",,,
general,unspecified close-contact,2006,methods,-,concept,-,CA,"Venkatachalam, S., Mikler, A. R. An infectious disease outbreak simulator based on the cellular automata paradigm. Innovative Internet Community Systems 3473, 198-211 (2006).",,,
general,unspecified close-contact,2006,dynamics,-,-,-,IBM,"Green, D. M., Kiss, I. Z., Kao, R. R. Parameterization of individual-based models: comparisons with deterministic mean-field models. J Theor Biol 239, 289-97 (2006).",,,
general,unspecified close-contact,2006,dynamics,-,-,-,IBM,"Kiss, I. Z., Green, D. M., Kao, R. R. The effect of contact heterogeneity and multiple routes of transmission on final epidemic size. Math Biosci 203, 124-36 (2006).",,,
general,unspecified close-contact,2006,dynamics,-,-,-,IBM,"Verdasca, Jose, , Verdasca, Jose Short and long-term dynamics of childhood diseases in dynamic small-world networks. Biomat 2005, 171-197 (2006).",,,
general,unspecified close-contact,2006,dynamics,-,-,-,"IBM, CA","Jin, Z., Liu, Q. X. A cellular automata model of epidemics of a heterogeneous susceptibility. Chinese Physics 15, 1248-1256 (2006).",,,
general,unspecified close-contact,2006,dynamics,-,-,-,Other,"Belhadji, L., Lanchier, N. Individual versus cluster recoveries within a spatially structured population. Annals of Applied Probability 16, 403-422 (2006).",,,
general,unspecified close-contact,2006,dynamics,-,-,-,Other,"Read, J. M., Keeling, M. J. Disease evolution across a range of spatio-temporal scales. Theor Popul Biol 70, 201-13 (2006).",,,
general,unspecified close-contact,2006,methods,-,concept,-,Other,"Hanley, B., , Hanley, B. An object simulation model for modeling hypothetical disease epidemics - EpiFlex. Theor Biol Med Model 3, 32 (2006).",,,
general,unspecified close-contact,2007,methods,-,concept,-,ABM,"Bobashev, G. V., Goedecke, D. M., Yu, F., Epstein, J. M. A hybrid epidemic model: Combining the advantages of agent-based and equation-based approaches. Proceedings of the 2007 Winter Simulation Conference, Vols 1-5, 1511-1516 (2007).",,,
general,unspecified close-contact,2007,methods,-,performance,-,ABM,"Naron, S., Wasserkrug, S. Utilizing model characteristics to obtain efficient parallelization in the context of agent based epidemiological models. Proceedings of the 2007 Winter Simulation Conference, Vols 1-5, 1534-1540 (2007).",,,
general,unspecified close-contact,2007,methods,-,performance,-,ABM,"Parker, J., , Parker, J. A flexible, large-scale, distributed agent based epidemic model. Proceedings of the 2007 Winter Simulation Conference, Vols 1-5, 1522-1526 (2007).",,,
general,unspecified close-contact,2007,methods,-,performance,-,ABM,"Roberts, D. J., Simoni, D. A. A TeraGrid-enabled distributed discrete event agent-based epidemiological simulation. Proceedings of the 2007 Winter Simulation Conference, Vols 1-5, 1530-1533 (2007).",,,
general,unspecified close-contact,2007,methods,-,concept,-,ABM,"Schumm, P., Scoglio, C., Gruenbacher, D., Easton, T. Epidemic Spreading on Weighted Contact Networks. 2007 2nd Bio-Inspired Models of Networks, Information and Computing Systems (Bionetics), 191-198 (2007).",,,
general,unspecified close-contact,2007,methods,-,concept,-,ABM,"Skvortsov, A. T., Connell, R. B., Dawson, P. D., Gailis, R. M. Epidemic Modelling: Validation of Agent-based Simulation by Using Simple Mathematical Models. Modsim 2007: International Congress on Modelling and Simulation, 657-+ (2007).",,,
general,unspecified close-contact,2007,methods,-,concept,-,ABM,"Toroczkai, Z., Guclu, H. Proximity networks and epidemics. Physica a-Statistical Mechanics and Its Applications 378, 68-75 (2007).",,,
general,unspecified close-contact,2007,methods,-,concept,-,CA,"Monteiro, L. H. A., Sasso, J. B., Berlinck, J. G. C. Continuous and discrete approaches to the epidemiology of viral spreading in populations taking into account the delay of incubation time. Ecological Modelling 201, 553-557 (2007).",,,
general,unspecified close-contact,2007,dynamics,-,-,-,IBM,"Buckee, C., Danon, L., Gupta, S. Host community structure and the maintenance of pathogen diversity. Proceedings of the Royal Society B-Biological Sciences 274, 1715-1721 (2007).",,,
general,unspecified close-contact,2007,dynamics,-,-,-,Other,"James, A., Pitchford, J. W., Plank, M. J. An event-based model of superspreading in epidemics. Proceedings of the Royal Society B-Biological Sciences 274, 741-747 (2007).",,,
general,unspecified close-contact,2007,dynamics,-,-,-,Other,"Silva, S. L., Ferreira, J. A., Martins, M. L. Epidemic spreading in a scale-free network of regular lattices. Physica a-Statistical Mechanics and Its Applications 377, 689-697 (2007).",,,
general,unspecified close-contact,2007,dynamics,-,-,-,Other,"Tuckwell, H. C., Toubiana, L. Dynamical modeling of viral spread in spatially distributed populations: stochastic origins of oscillations and density dependence. Biosystems 90, 546-559 (2007).",,,
general,unspecified close-contact,2007,methods,-,concept,-,Other,"Alvarez, F. P., Crepey, P., Barthelemy, M., Valleron, A. J. sispread: A software to simulate infectious diseases spreading on contact networks. Methods of Information in Medicine 46, 19-26 (2007).",,,
general,unspecified close-contact,2007,methods,-,concept,-,Other,"Breban, R., Vardavas, R., Blower, S. Theory versus data: how to calculate R0?. PLoS One 2, e282 (2007).",,,
general,unspecified close-contact,2008,dynamics,-,-,-,ABM,"Bian, Wilson, D., Whalen, T., Cohen, M., Huang, Y., Lee, G., Lim, E., Mao, L., Yan, Y. Explicit Spatial-Temporal Simulation of a Rare Disease. Proceedings of the 11th Joint Conference on Information Sciences (2008).",,,
general,unspecified close-contact,2008,dynamics,-,-,-,ABM,"Huang, C. Y., Cheng, C. Y., Sun, C. T. Resource limitations, transmission costs and critical thresholds in scale-free networks. Agent and Multi-Agent Systems: Technologies and Applications, Proceedings 4953, 485-494 (2008).",,,
general,unspecified close-contact,2008,dynamics,-,-,-,ABM,"Huang, C. Y., Sun, C. T., Cheng, C. Y., Tsai, Y. S. Resources, Costs and Epidemic Thresholds in Scale-Free Social Networks. 2008 7th World Congress on Intelligent Control and Automation, Vols 1-23, 1874-1879 (2008).",,,
general,unspecified close-contact,2008,dynamics,-,-,-,ABM,"Rahmandad, H., Sterman, J. Heterogeneity and network structure in the dynamics of diffusion: Comparing agent-based and differential equation models. Management Science 54, 998-1014 (2008).",,,
general,unspecified close-contact,2008,dynamics,-,-,-,ABM,"Zanette, D., Risau-Gusman, S. Infection Spreading in a Population with Evolving Contacts. Journal of Biological Physics 34, 135-148 (2008).",,,
general,unspecified close-contact,2008,methods,-,concept,-,ABM,"Jaffry, S. W., Treur, J. Agent-Based and Population-Based Simulation: A Comparative Case Study for Epidemics. 22nd European Conference on Modelling and Simulation, Proceedings, 123-130 (2008).",,,
general,unspecified close-contact,2008,dynamics,-,-,-,CA,"He, M. H., Zhang, D. M., Pan, G. J., Yin, Y. P., Tan, X. Y. Spatiotemporal characteristic of epidemic spreading in mobile individuals. Chinese Physics Letters 25, 393-396 (2008).",,,
general,unspecified close-contact,2008,methods,-,fitting,-,CA,"Schneckenreither, G., Popper, N., Zauner, G., Breitenecker, F. Modelling SIR-type epidemics by ODEs, PDEs, difference equations and cellular automata - A comparative study. Simulation Modelling Practice and Theory 16, 1014-1023 (2008).",,,
general,unspecified close-contact,2008,dynamics,-,-,-,IBM,"Kouokam, E., Auger, P., Hbid, H., Tchuente, M. Effect of the number of patches in a multi-patch SIRS model with fast migration on the basic reproduction rate. Acta Biotheoretica 56, 75-86 (2008).",,,
general,unspecified close-contact,2008,dynamics,-,-,-,IBM,"Reppas, A., Tsoumanis, A. C., Siettos, C. I. The Influence of Infection Control Policies: A Systematic Study of the Dynamics of an Individual-based Epidemic Model with Isolation. 8th Ieee International Conference on Bioinformatics and Bioengineering, Vols 1 and 2, 699-705 (2008).",,,
general,unspecified close-contact,2008,dynamics,-,-,-,IBM,"Schutz, G. M., Brandaut, M., Trimper, S. Exact solution of a stochastic susceptible-infectious-recovered model. Physical Review E 78 (2008).",,,
general,unspecified close-contact,2008,dynamics,-,-,-,Other,"Gordillo, L. F., Marion, S. A., Greenwood, P. E. The effect of patterns of infectiousness on epidemic size. Mathematical Biosciences and Engineering 5, 429-435 (2008).",,,
general,unspecified close-contact,2008,dynamics,-,-,-,Other,"Liu, T., Li, X., Ai, B., Fu, J., Zhang, X. H. Multi-Agent Simulation of Epidemic Spatio-temporal Transmission. Icnc 2008: Fourth International Conference on Natural Computation, Vol 7, Proceedings, 357-361 (2008).",,,
general,unspecified close-contact,2008,dynamics,-,-,-,Other,"Neal, P., , Neal, P. The SIS great circle epidemic model. Journal of Applied Probability 45, 513-530 (2008).",,,
general,unspecified close-contact,2008,dynamics,-,-,-,Other,"Nielek, R., Wawer, A., Kotowski, R. Two Antigenically Indistinguishable Viruses in a Population. World Congress on Engineering 2008, Vol Iii, 1858-1863 (2008).",,,
general,unspecified close-contact,2008,interventions,distancing,-,-,Other,"Cao, G. F., Cao, L., Li, X. The Study of Epidemic Spreading on a Mobile Multi-Agent System with Infective Expressivity and its Control Strategy. 2008 Chinese Control and Decision Conference, Vols 1-11, 4086-4089 (2008).",,,
general,unspecified close-contact,2008,methods,-,concept,-,Other,"Ball, F., Neal, P. Network epidemic models with two levels of mixing. Mathematical Biosciences 212, 69-87 (2008).",,,
general,unspecified close-contact,2008,methods,-,emulation,-,Other,"Keeling, M. J., Ross, J. V. On methods for studying stochastic disease dynamics. Journal of the Royal Society Interface 5, 171-181 (2008).",,,
general,unspecified close-contact,2009,dynamics,-,-,-,ABM,"Huang, C. Y., Tsai, Y. S., Sun, C. T., Hsieh, J. L., Cheng, C. Y. Influences of Resource Limitations and Transmission Costs on Epidemic Simulations and Critical Thresholds in Scale-Free Networks. Simulation-Transactions of the Society for Modeling and Simulation International 85, 205-219 (2009).",,,
general,unspecified close-contact,2009,dynamics,-,-,-,ABM,"Riggs, T. W., , Riggs, T. W. Cyclical infection prevalence in small groups. Epidemics 1, 89-95 (2009).",,,
general,unspecified close-contact,2009,methods,-,concept,-,ABM,"Borkowski, M., Podaima, B. W., McLeod, R. D. Epidemic modeling with discrete-space scheduled walkers: extensions and research opportunities. Bmc Public Health 9 (2009).",,,
general,unspecified close-contact,2009,methods,-,concept,-,ABM,"Claude, B., Perrin, D., Ruskin, H. J. Considerations for a Social and Geographical Framework for Agent-Based Epidemics. 2009 International Conference on Computational Aspects of Social Networks, Proceedings, 149-154 (2009).",,,
general,unspecified close-contact,2009,methods,-,fitting,-,ABM,"Leamy, M. J., , Leamy, M. J. A Systematic Approach for Aligning Ode and Agent-Based Models: Application to Epidemiological Modeling. Detc 2008: Proceedings of the Asme International Design Engineering Technical Conferences and Computers and Informational in Engineering Conference, Vol 3, Pts a and B, 13-19 (2009).",,,
general,unspecified close-contact,2009,methods,-,concept,-,ABM,"Mikler, A. R., Bravo-Salgado, A., Corley, C. D. Global Stochastic Contact Modeling of Infectious Diseases. 2009 International Joint Conference on Bioinformatics, Systems Biology and Intelligent Computing, Proceedings, 327-330 (2009).",,,
general,unspecified close-contact,2009,methods,-,concept,-,ABM,"Zhang, F., Li, L., Xuan, H. Y. Agent-Based Simulation of Epidemics Intervention. International Symposium on Emergency Management 2009 (Isem'09), 656-659 (2009).",,,
general,unspecified close-contact,2009,methods,-,concept,-,ABM,"Zu, Z. H., Xu, Q., Zheng, T. The Preliminary Exploration to Agent-Based Simulation for Social Spreading of Infectious Diseases. International Symposium on Emergency Management 2009 (Isem'09), 679-682 (2009).",,,
general,unspecified close-contact,2009,dynamics,-,-,-,CA,"Dybiec, B., , Dybiec, B. SIR model of epidemic spread with accumulated exposure. European Physical Journal B 67, 377-383 (2009).",,,
general,unspecified close-contact,2009,dynamics,-,-,-,CA,"Liu, Q. X., Wang, R. H., Jin, Z. Persistence, extinction and spatio-temporal synchronization of SIRS spatial models. Journal of Statistical Mechanics-Theory and Experiment (2009).",,,
general,unspecified close-contact,2009,dynamics,-,-,-,CA,"Schimit, P. H. T., Monteiro, L. H. A. On the basic reproduction number and the topological properties of the contact network: An epidemiological study in mainly locally connected cellular automata. Ecological Modelling 220, 1034-1042 (2009).",,,
general,unspecified close-contact,2009,methods,-,concept,-,CA,"Baetens, J. M., De Baets, B. Incorporating Fuzziness in Spatial Susceptible-Infected Epidemic Models. Proceedings of the Joint 2009 International Fuzzy Systems Association World Congress and 2009 European Society of Fuzzy Logic and Technology Conference, 201-206 (2009).",,,
general,unspecified close-contact,2009,interventions,distancing,-,-,IBM,"Dawson, W., Yamamoto, K. Home Educating in an Extended Family Culture and Aging Society May Fare Best during a Pandemic. Plos One 4 (2009).",,,
general,unspecified close-contact,2009,methods,-,concept,-,IBM,"Juher, D., Ripoll, J., Saldana, J. Analysis and Monte Carlo simulations of a model for the spread of infectious diseases in heterogeneous metapopulations. Physical Review E 80 (2009).",,,
general,unspecified close-contact,2009,methods,-,performance,-,IBM,"Osgood, N., , Osgood, N. Lightening the performance burden of individual-based models through dimensional analysis and scale modeling. System Dynamics Review 25, 101-134 (2009).",,,
general,unspecified close-contact,2009,methods,-,concept,-,IBM,"Smieszek, T., Fiebig, L., Scholz, R. W. Models of epidemics: when contact repetition and clustering should be included. Theoretical Biology and Medical Modelling 6 (2009).",,,
general,unspecified close-contact,2009,dynamics,-,-,-,Other,"Ball, F., Sirl, D., Trapman, P. Threshold Behaviour and Final Outcome of an Epidemic on a Random Network with Household Structure. Advances in Applied Probability 41, 765-796 (2009).",,,
general,unspecified close-contact,2009,interventions,distancing,-,-,Other,"Dybiec, B., Kleczkowski, A., Gilligan, C. A. Modelling control of epidemics spreading by long-range interactions. Journal of the Royal Society Interface 6, 941-950 (2009).",,,
general,unspecified close-contact,2009,methods,-,concept,-,Other,"Wang, J., Wang, B. T., Fan, B. L. The Statistical Behavior of the Spread of Infection by the Contact Systems. Proceedings of the 8th Wseas International Conference on Instrumentation, Measurement, Circuits and Systems, 189-193 (2009).",,,
general,unspecified close-contact,2010,dynamics,-,-,-,ABM,"Grim, P., Reade, C., Singer, D. J., Fisher, S., Majewicz, S. What You Believe Travels Differently: Information and Infection Dynamics across Sub-networks. Connect (Tor) 30, 50-63 (2010).",,,
general,unspecified close-contact,2010,dynamics,-,-,-,ABM,"Steinmeyer, S. H., Wilke, C. O., Pepin, K. M. Methods of modelling viral disease dynamics across the within- and between-host scales: the impact of virus dose on host population immunity. Philosophical Transactions of the Royal Society B-Biological Sciences 365, 1931-1941 (2010).",,,
general,unspecified close-contact,2010,methods,-,concept,-,ABM,"Macal, C. M., , Macal, C. M. To Agent-Based Simulation from System Dynamics. Proceedings of the 2010 Winter Simulation Conference, 371-382 (2010).",,,
general,unspecified close-contact,2010,dynamics,-,-,-,"ABM, IBM","Merler, S., Ajelli, M. Human mobility and population heterogeneity in the spread of an epidemic. Iccs 2010 - International Conference on Computational Science, Proceedings 1, 2231-2238 (2010).",,,
general,unspecified close-contact,2010,methods,-,concept,-,"ABM, IBM","Ajelli, M., Goncalves, B., Balcan, D., Colizza, V., Hu, H., Ramasco, J. J., Merler, S., Vespignani, A. Comparing large-scale computational approaches to epidemic modeling: Agent-based versus structured metapopulation models. Bmc Infectious Diseases 10 (2010).",,,
general,unspecified close-contact,2010,methods,-,concept,-,"ABM, IBM","Ben-Zion, Y., Cohen, Y., Shnerb, N. M. Modeling epidemics dynamics on heterogenous networks. Journal of Theoretical Biology 264, 197-204 (2010).",,,
general,unspecified close-contact,2010,methods,-,concept,-,"ABM, IBM","Rakowski, F., Gruziel, M., Krych, M., Radomski, J. P. Large Scale Daily Contacts and Mobility Model - an Individual-Based Countrywide Simulation Study for Poland. Jasss-the Journal of Artificial Societies and Social Simulation 13 (2010).",,,
general,unspecified close-contact,2010,dynamics,-,-,-,CA,"Gagliardi, H. F., Alves, D. Small-World Effect in Epidemics Using Cellular Automata. Mathematical Population Studies 17, 79-90 (2010).",,,
general,unspecified close-contact,2010,dynamics,-,-,-,CA,"Liu, Q. X., Wang, R. H., Jin, Z., van de Koppel, J., Alonso, D. Spatial self-organization in a multi-strain host-pathogen system. Journal of Statistical Mechanics-Theory and Experiment (2010).",,,
general,unspecified close-contact,2010,interventions,distancing,-,-,CA,"Schimit, P. H. T., Monteiro, L. H. A. Who should wear mask against airborne infections? Altering the contact network for controlling the spread of contagious diseases. Ecological Modelling 221, 1329-1332 (2010).",,,
general,unspecified close-contact,2010,methods,-,performance,-,CA,"Progias, P., Vardaki, E., Sirakoulis, G. C. FPGA Realization of a Cellular Automata Based Epidemic Processor. Parallel Processing and Applied Mathematics, Part Ii 6068, 569-574 (2010).",,,
general,unspecified close-contact,2010,interventions,distancing,-,-,IBM,"Reppas, A. I., Tsoumanis, A. C., Siettos, C. I. Coarse-grained bifurcation analysis and detection of criticalities of an individual-based epidemiological network model with infection control. Applied Mathematical Modelling 34, 552-560 (2010).",,,
general,unspecified close-contact,2010,methods,-,concept,-,IBM,"Barrett, C., Bisset, K., Leidig, J., Marathe, A., Marathe, M. An Integrated Modeling Environment to Study the Coevolution of Networks, Individual Behavior, and Epidemics. Ai Magazine 31, 75-87 (2010).",,,
general,unspecified close-contact,2010,methods,-,performance,-,IBM,"Hu, B. S., Gong, J. H. Individual-Based Distributed Epidemic Spread Model. 2010 18th International Conference on Geoinformatics (2010).",,,
general,unspecified close-contact,2010,methods,-,concept,-,IBM,"Reppas, A. I., Spiliotis, K. G., Siettos, C. I. Epidemionics From the host-host interactions to the systematic analysis of the emergent macroscopic dynamics of epidemic networks. Virulence 1, 338-349 (2010).",,,
general,unspecified close-contact,2010,dynamics,-,-,-,Other,"Ball, F., Sirl, D., Trapman, P. Analysis of a stochastic SIR epidemic on a random network incorporating household structure. Mathematical Biosciences 224, 53-73 (2010).",,,
general,unspecified close-contact,2010,dynamics,-,-,-,Other,"de Souza, D. R., Tome, T. Stochastic lattice gas model describing the dynamics of the SIRS epidemic process. Physica a-Statistical Mechanics and Its Applications 389, 1142-1150 (2010).",,,
general,unspecified close-contact,2010,dynamics,-,-,-,Other,"Salathe, M., Jones, J. H. Dynamics and control of diseases in networks with community structure. PLoS Comput Biol 6, e1000736 (2010).",,,
general,unspecified close-contact,2010,dynamics,-,-,-,Other,"Stone, T. E., Jones, M. M., McKay, S. R. Comparative effects of avoidance and vaccination in disease spread on a dynamic small-world network. Physica a-Statistical Mechanics and Its Applications 389, 5515-5520 (2010).",,,
general,unspecified close-contact,2010,methods,-,concept,-,Other,"Gomez, S., Arenas, A., Borge-Holthoefer, J., Meloni, S., Moreno, Y. Discrete-time Markov chain approach to contact-based disease spreading in complex networks. Epl 89 (2010).",,,
general,unspecified close-contact,2010,methods,-,concept,-,Other,"Hernandez-Suarez, C. M., Castillo-Chavez, C., Lopez, O. M., Hernandez-Cuevas, K. An Application of Queuing Theory to Sis and Seis Epidemic Models. Mathematical Biosciences and Engineering 7, 809-823 (2010).",,,
general,unspecified close-contact,2010,methods,-,concept,-,Other,"Lipinski, B., Tarnawski, T. Concept of Analysing Spreading of an \Epidemics\"" by Means of a Multi-Agent Simulation. Agent and Multi-Agent Systems: Technologies and Applications", Pt I, Proceedings 6070," 411-419 (2010)."""
general,unspecified close-contact,2011,methods,-,emulation,-,ABM,"Buckeridge, D. L., Jauvin, C., Okhmatovskaia, A., Verma, A. D. Simulation Analysis Platform (SnAP): a tool for evaluation of public health surveillance and disease control strategies. AMIA Annu Symp Proc 2011, 161-70 (2011).",,,
general,unspecified close-contact,2011,methods,-,concept,-,ABM,"Crossley, M., Amos, M. SimZombie: A Case-Study in Agent-Based Simulation Construction. Agent and Multi-Agent Systems: Technologies and Applications 6682, 514-523 (2011).",,,
general,unspecified close-contact,2011,methods,-,concept,-,ABM,"Laskowski, M., Demianyk, B. C., Friesen, M. R., McLeod, R. D., Mukhi, S. N. Improving Agent Based Models and Validation through Data Fusion. Online J Public Health Inform 3 (2011).",,,
general,unspecified close-contact,2011,methods,-,performance,-,ABM,"Ma, Y. F., Bisset, K., Chen, J. Z., Deodhar, S., Marathe, M. Efficient Implementation of Complex Interventions in Large Scale Epidemic Simulations. Proceedings of the 2011 Winter Simulation Conference (Wsc), 1349-1361 (2011).",,,
general,unspecified close-contact,2011,methods,-,concept,-,ABM,"Maharaj, S., McCaldin, T., Kleczkowski, A. A Participatory Simulation Model for Studying Attitudes to Infection Risk. Proceedings of the 2011 Summer Computer Simulation Conference, 8-13 (2011).",,,
general,unspecified close-contact,2011,dynamics,-,-,-,CA,"Song, L. P., Jin, Z., Sun, G. Q. Reinfection induced disease in a spatial SIRI model. Journal of Biological Physics 37, 133-140 (2011).",,,
general,unspecified close-contact,2011,dynamics,-,-,-,CA,"Song, Y. R., Jiang, G. P., Xu, J. G. An epidemic spreading model in adaptive networks based on cellular automata. Acta Physica Sinica 60 (2011).",,,
general,unspecified close-contact,2011,dynamics,-,-,-,CA,"Sun, G. Q., Jin, Z., Li, L. Emergent Turing Pattern in Epidemic Spreading Using Cellular Automaton. International Journal of Modern Physics B 25, 4605-4613 (2011).",,,
general,unspecified close-contact,2011,dynamics,-,-,-,CA,"Sun, G. Q., Jin, Z., Song, L. P., Chakraborty, A., Li, B. L. Phase transition in spatial epidemics using cellular automata with noise. Ecological Research 26, 333-340 (2011).",,,
general,unspecified close-contact,2011,dynamics,-,-,-,CA,"Wang, Y. Q., Jiang, G. P. Epidemic spreading in complex networks with spreading delay based on cellular automata. Acta Physica Sinica 60 (2011).",,,
general,unspecified close-contact,2011,interventions,vaccination,-,yes,CA,"Schimit, P. H. T., Monteiro, L. H. A. A vaccination game based on public health actions and personal decisions. Ecological Modelling 222, 1651-1655 (2011).",,,
general,unspecified close-contact,2011,methods,-,fitting,-,CA,"Argolo, C., Quintino, Y., Gleria, I., Lyra, M. L. Finite-size scaling analysis of the critical behavior of a general epidemic process in 2D. Physica a-Statistical Mechanics and Its Applications 390, 1433-1439 (2011).",,,
general,unspecified close-contact,2011,methods,-,performance,-,CA,"Barrett, C., Hunt, H. B., Marathe, M. V., Ravi, S. S., Rosenkrantz, D. J., Stearns, R. E. Modeling and analyzing social network dynamics using stochastic discrete graphical dynamical systems. Theoretical Computer Science 412, 3932-3946 (2011).",,,
general,unspecified close-contact,2011,dynamics,-,-,-,IBM,"Hatzopoulos, V., Taylor, M., Simon, P. L., Kiss, I. Z. Multiple sources and routes of information transmission: Implications for epidemic dynamics. Mathematical Biosciences 231, 197-209 (2011).",,,
general,unspecified close-contact,2011,dynamics,-,-,-,IBM,"McCaig, C., Begon, M., Norman, R., Shankland, C. A Symbolic Investigation of Superspreaders. Bulletin of Mathematical Biology 73, 777-794 (2011).",,,
general,unspecified close-contact,2011,methods,-,concept,-,IBM,"Cakici, B., Boman, M. A workflow for software development within computational epidemiology. Journal of Computational Science 2, 216-222 (2011).",,,
general,unspecified close-contact,2011,methods,-,concept,-,IBM,"Sharkey, K. J., , Sharkey, K. J. Deterministic epidemic models on contact networks: Correlations and unbiological terms. Theoretical Population Biology 79, 115-129 (2011).",,,
general,unspecified close-contact,2011,methods,-,concept,-,IBM,"Siettos, C. I., , Siettos, C. I. Equation-Free multiscale computational analysis of individual-based epidemic dynamics on networks. Applied Mathematics and Computation 218, 324-336 (2011).",,,
general,unspecified close-contact,2011,methods,-,concept,-,IBM,"Simon, P. L., Taylor, M., Kiss, I. Z. Exact epidemic models on graphs using graph-automorphism driven lumping. Journal of Mathematical Biology 62, 479-508 (2011).",,,
general,unspecified close-contact,2011,methods,-,concept,-,IBM,"Vincenot, C. E., Moriya, K. Impact of the topology of metapopulations on the resurgence of epidemics rendered by a new multiscale hybrid modeling approach. Ecological Informatics 6, 177-186 (2011).",,,
general,unspecified close-contact,2011,methods,-,concept,-,IBM,"Youssef, M., Scoglio, C. An individual-based approach to SIR epidemics in contact networks. Journal of Theoretical Biology 283, 136-144 (2011).",,,
general,unspecified close-contact,2011,dynamics,-,-,-,Other,"Ball, F. G., Knock, E. S., O'Neill, P. D. Threshold Behaviour of Emerging Epidemics Featuring Contact Tracing. Advances in Applied Probability 43, 1048-1065 (2011).",,,
general,unspecified close-contact,2011,dynamics,-,-,-,Other,"Hiebeler, D. E., Michaud, I. J., Ackerman, H. H., Iosevich, S. R., Robinson, A. Multigeneration Reproduction Ratios and the Effects of Clustered Unvaccinated Individuals on Epidemic Outbreak. Bulletin of Mathematical Biology 73, 3047-3070 (2011).",,,
general,unspecified close-contact,2011,dynamics,-,-,-,Other,"Karrer, B., Newman, M. E. J. Competing epidemics on complex networks. Physical Review E 84 (2011).",,,
general,unspecified close-contact,2011,methods,-,fitting,-,Other,"Fyson, N., De Bie, T., Cristianini, N. Reconstruction of Causal Networks by Set Covering. Adaptive and Natural Computing Algorithms, Pt Ii 6594, 196-205 (2011).",,,
general,unspecified close-contact,2011,methods,-,fitting,-,Other,"Gardner, A., Deardon, R., Darlington, G. Goodness-of-fit measures for individual-level models of infectious disease in a Bayesian framework. Spat Spatiotemporal Epidemiol 2, 273-81 (2011).",,,
general,unspecified close-contact,2011,methods,-,concept,-,Other,"Tome, T., de Oliveira, M. J. Susceptible-infected-recovered and susceptible-exposed-infected models. Journal of Physics a-Mathematical and Theoretical 44 (2011).",,,
general,unspecified close-contact,2011,methods,-,concept,-,Other,"Wolkewitz, M., Schumacher, M. Simulating and analysing infectious disease data in a heterogeneous population with migration. Computer Methods and Programs in Biomedicine 104, 29-36 (2011).",,,
general,unspecified close-contact,2012,methods,-,concept,-,ABM,"Ahmed, A., Greensmith, J., Aickelin, U. Variance in System Dynamics and Agent Based Modelling Using the Sir Model of Infectious Disease. Proceedings 26th European Conference on Modelling and Simulation Ecms 2012, 9-15 (2012).",,,
general,unspecified close-contact,2012,methods,-,concept,-,ABM,"Binder, B. J., Ross, J. V., Simpson, M. J. A Hybrid Model for Studying Spatial Aspects of Infectious Diseases. Anziam Journal 54, 37-49 (2012).",,,
general,unspecified close-contact,2012,methods,-,fitting,-,ABM,"Jha, S. K., Ramanathan, A. Quantifying Uncertainty in Epidemiological Models. 2012 Ase International Conference on Biomedical Computing (Biomedcom), 80-85 (2012).",,,
general,unspecified close-contact,2012,methods,-,fitting,-,ABM,"Pullum, L. L., Ozmen, O. Early Results from Metamorphic Testing of Epidemiological Models. 2012 Ase International Conference on Biomedical Computing (Biomedcom), 62-67 (2012).",,,
general,unspecified close-contact,2012,methods,-,performance,-,"ABM, IBM","Bisset, K. R., Aji, A. M., Bohm, E., Kale, L. V., Kamal, T., Marathe, M. V., Yeom, J. S. Simulating the Spread of Infectious Disease over Large Realistic Social Networks using Charm plus. 2012 Ieee 26th International Parallel and Distributed Processing Symposium Workshops & Phd Forum (Ipdpsw), 507-518 (2012).",,,
general,unspecified close-contact,2012,methods,-,concept,-,"ABM, Microsimulation","Truscott, J., Ferguson, N. M. Evaluating the Adequacy of Gravity Models as a Description of Human Mobility for Epidemic Modelling. Plos Computational Biology 8 (2012).",,,
general,unspecified close-contact,2012,dynamics,-,-,-,CA,"Schimit, P. H. T., Monteiro, L. H. A. On estimating the basic reproduction number in distinct stages of a contagious disease spreading. Ecological Modelling 240, 156-160 (2012).",,,
general,unspecified close-contact,2012,dynamics,-,-,-,IBM,"Reppas, A. I., Spiliotis, K., Siettos, C. I. On the effect of the path length of small-world networks on epidemic dynamics. Virulence 3, 146-153 (2012).",,,
general,unspecified close-contact,2012,interventions,distancing,-,yes,IBM,"Maharaj, S., Kleczkowski, A. Controlling epidemic spread by social distancing: Do it well or not at all. Bmc Public Health 12 (2012).",,,
general,unspecified close-contact,2012,methods,-,concept,-,IBM,"Taylor, M., Simon, P. L., Green, D. M., House, T., Kiss, I. Z. From Markovian to pairwise epidemic models and the performance of moment closure approximations. Journal of Mathematical Biology 64, 1021-1042 (2012).",,,
general,unspecified close-contact,2012,dynamics,-,-,-,Other,"Britton, T., Lindenstrand, D. Inhomogeneous epidemics on weighted networks. Mathematical Biosciences 240, 124-131 (2012).",,,
general,unspecified close-contact,2012,dynamics,-,-,-,Other,"Nicolaides, C., Cueto-Felgueroso, L., Gonzalez, M. C., Juanes, R. A Metric of Influential Spreading during Contagion Dynamics through the Air Transportation Network. Plos One 7 (2012).",,,
general,unspecified close-contact,2012,dynamics,-,-,-,Other,"Wang, J. Z., Qian, M., Qian, H. Circular stochastic fluctuations in SIS epidemics with heterogeneous contacts among sub-populations. Theoretical Population Biology 81, 223-231 (2012).",,,
general,unspecified close-contact,2012,interventions,vaccination,-,yes,Other,"Kleczkowski, A., Oles, K., Gudowska-Nowak, E., Gilligan, C. A. Searching for the most cost-effective strategy for controlling epidemics spreading on regular and small-world networks. Journal of the Royal Society Interface 9, 158-169 (2012).",,,
general,unspecified close-contact,2012,interventions,vaccination,-,-,Other,"Morsky, B., Bauch, C. T. Outcome Inelasticity and Outcome Variability in Behaviour-Incidence Models: An Example from an SEIR Infection on a Dynamic Network. Computational and Mathematical Methods in Medicine (2012).",,,
general,unspecified close-contact,2012,methods,-,concept,-,Other,"Floyd, W., Kay, L., Shapiro, M. A covering-graph approach to epidemics on SIS and SIS-like networks. Bull Math Biol 74, 175-89 (2012).",,,
general,unspecified close-contact,2012,methods,-,fitting,-,Other,"Fyson, N., De Bie, T., Cristianini, N. The NETCOVER algorithm for the reconstruction of causal networks. Neurocomputing 96, 19-28 (2012).",,,
general,unspecified close-contact,2012,methods,-,performance,-,Other,"Kwong, G. P. S., Deardon, R. Linearized Forms of Individual-Level Models for Large-Scale Spatial Infectious Disease Systems. Bulletin of Mathematical Biology 74, 1912-1937 (2012).",,,
general,unspecified close-contact,2013,interventions,drugs,-,-,ABM,"Nye, B. D., , Nye, B. D. The Evolution of Multiple Resistant Strains: An Abstract Model of Systemic Treatment and Accumulated Resistance. Jasss-the Journal of Artificial Societies and Social Simulation 16 (2013).",,,
general,unspecified close-contact,2013,interventions,distancing,-,-,ABM,"Zhang, L. B., Chen, B., Liu, L., Ge, Y. Z., Qiu, X. G. An Approach to Model the Interventions of Unconventional Emergency. 2013 Ieee International Conference on Service Operations and Logistics, and Informatics (Soli), 602-606 (2013).",,,
general,unspecified close-contact,2013,methods,-,concept,-,ABM,"Fajardo, D., Gardner, L. M. Inferring Contagion Patterns in Social Contact Networks with Limited Infection Data. Networks & Spatial Economics 13, 399-426 (2013).",,,
general,unspecified close-contact,2013,methods,-,concept,-,ABM,"Saravanan, M., Karthikeyan, P., Arathi, A., Kiruthika, M., Suganya, S. Mobile Agent-Based Approach for Modeling the Epidemics of Communicable Diseases. 2013 Ieee/Acm International Conference on Advances in Social Networks Analysis and Mining (Asonam), 22-26 (2013).",,,
general,unspecified close-contact,2013,methods,-,concept,-,ABM,"Ventresca, M., Aleman, D. Evaluation of strategies to mitigate contagion spread using social network characteristics. Social Networks 35, 75-88 (2013).",,,
general,unspecified close-contact,2013,dynamics,-,-,-,CA,"Wang, Y., Zhang, R. Z. Noise-induced mitigation of epidemic outbreaks in a cellular automaton model. Indian Journal of Physics 87, 507-510 (2013).",,,
general,unspecified close-contact,2013,dynamics,-,-,-,CA,"Zhou, H. P., , Zhou, H. P. Delay Included Dynamic Virus Spreading process Simulating. 2013 25th Chinese Control and Decision Conference (Ccdc), 1310-1313 (2013).",,,
general,unspecified close-contact,2013,methods,-,concept,-,CA,"Cisse, B., El Yacoubi, S., Tridane, A. Impact of neighborhood structure on epidemic spreading by means of Cellular Automata Approach. 2013 International Conference on Computational Science 18, 2603-2606 (2013).",,,
general,unspecified close-contact,2013,methods,-,concept,-,CA,"Song, Y. R., Jiang, G. P., Gong, Y. W. Epidemic propagation on adaptive coevolutionary networks with preferential local-world reconnecting strategy. Chinese Physics B 22 (2013).",,,
general,unspecified close-contact,2013,methods,-,concept,-,CA,"Wang, N. N., Chen, G. L. A Virus Spread Model Based on Cellular Automata in Weighted Scale-Free Networks. Proceedings of the 2012 International Conference on Communication, Electronics and Automation Engineering 181, 1169-1175 (2013).",,,
general,unspecified close-contact,2013,dynamics,-,-,-,IBM,"Dalziel, B. D., Pourbohloul, B., Ellner, S. P. Human mobility patterns predict divergent epidemic dynamics among cities. Proc Biol Sci 280, 20130763 (2013).",,,
general,unspecified close-contact,2013,dynamics,-,-,-,IBM,"Plucinski, M. M., Ngonghala, C. N., Getz, W. M., Bonds, M. H. Clusters of poverty and disease emerge from feedbacks on an epidemiological network. J R Soc Interface 10, 20120656 (2013).",,,
general,unspecified close-contact,2013,methods,-,concept,-,IBM,"Rattana, P., Blyuss, K. B., Eames, K. T., Kiss, I. Z. A class of pairwise models for epidemic dynamics on weighted networks. Bull Math Biol 75, 466-90 (2013).",,,
general,unspecified close-contact,2013,dynamics,-,-,-,Other,"Rocha, L. E. C., Blondel, V. D. Bursts of Vertex Activation and Epidemics in Evolving Networks. Plos Computational Biology 9 (2013).",,,
general,unspecified close-contact,2013,interventions,vaccination,-,-,Other,"Ball, F., Sirl, D. Acquaintance Vaccination in an Epidemic on a Random Graph with Specified Degree Distribution. Journal of Applied Probability 50, 1147-1168 (2013).",,,
general,unspecified close-contact,2013,interventions,vaccination+distancing,-,-,Other,"Deng, Y., Shen, S. Q., Vorobeychik, Y. Optimization methods for decision making in disease prevention and epidemic control. Mathematical Biosciences 246, 213-227 (2013).",,,
general,unspecified close-contact,2013,interventions,distancing,-,-,Other,"Schumm, P., Schumm, W., Scoglio, C. Impact of Preventive Behavioral Responses to Epidemics in Rural Regions. 2013 International Conference on Computational Science 18, 631-640 (2013).",,,
general,unspecified close-contact,2013,methods,-,concept,-,Other,"Bifolchi, N., Deardon, R., Feng, Z. Spatial approximations of network-based individual level infectious disease models. Spat Spatiotemporal Epidemiol 6, 59-70 (2013).",,,
general,unspecified close-contact,2013,methods,-,concept,-,Other,"Shams, B., Khansari, M. Immunization of complex networks using stochastic hill-climbing algorithm. Proceedings of the 3rd International Conference on Computer and Knowledge Engineering (Iccke 2013), 283-288 (2013).",,,
general,unspecified close-contact,2014,methods,-,concept,-,ABM,"Laskowski, M., Moghadas, S. M. A General Framework for Agent-Based Modelling with Applications to Infectious Disease Dynamics. Biomat 2013: International Symposium on Mathematical and Computational Biology, 318-339 (2014).",,,
general,unspecified close-contact,2014,methods,-,concept,-,ABM,"Miksch, F., Pichler, P., Espinosa, K. J., Popper, N. Agent-Based Methods for Simulation of Epidemics with a Low Number of Infected Persons. Information and Communication Technology 8407, 21-28 (2014).",,,
general,unspecified close-contact,2014,methods,-,concept,-,ABM,"Miksch, F., Urach, C., Einzinger, P., Zauner, G. A Flexible Agent-Based Framework for Infectious Disease Modeling. Information and Communication Technology 8407, 36-45 (2014).",,,
general,unspecified close-contact,2014,dynamics,-,-,-,CA,"Silva, H. A. L. R., Monteiro, L. H. A. Self-sustained oscillations in epidemic models with infective immigrants. Ecological Complexity 17, 40-45 (2014).",,,
general,unspecified close-contact,2014,dynamics,-,-,-,IBM,"Shrestha, S., Bjornstad, O. N., King, A. A. Evolution of acuteness in pathogen metapopulations: conflicts between \classical\"" and invasion-persistence trade-offs. Theor Ecol 7"," 299-311 (2014).""",,
general,unspecified close-contact,2014,methods,-,performance,-,IBM,"Bisset, K. R., Chen, J., Deodhar, S., Feng, X., Ma, Y., Marathe, M. V. Indemics: An Interactive High-Performance Computing Framework for Data Intensive Epidemic Modeling. ACM Trans Model Comput Simul 24 (2014).",,,
general,unspecified close-contact,2014,methods,-,performance,-,IBM,"Deodhar, S., Bisset, K. R., Chen, J., Ma, Y., Marathe, M. V. An Interactive, Web-based High Performance Modeling Environment for Computational Epidemiology. ACM Trans Manag Inf Syst 5 (2014).",,,
general,unspecified close-contact,2014,methods,-,concept,-,IBM,"Knock, E. S., O'Neill, P. D. Bayesian model choice for epidemic models with two levels of mixing. Biostatistics 15, 46-59 (2014).",,,
general,unspecified close-contact,2014,methods,-,concept,-,IBM,"Magal, P., Ruan, S. G. Susceptible-infectious-recovered models revisited: From the individual level to the population level. Mathematical Biosciences 250, 26-40 (2014).",,,
general,unspecified close-contact,2014,methods,-,emulation,-,IBM,"Willem, L., Stijven, S., Vladislavleva, E., Broeckhove, J., Beutels, P., Hens, N. Active learning to understand infectious disease models and improve policy making. PLoS Comput Biol 10, e1003563 (2014).",,,
general,unspecified close-contact,2014,dynamics,-,-,-,Other,"Ball, F. G., Sirl, D. J., Trapman, P. Epidemics on Random Intersection Graphs. Annals of Applied Probability 24, 1081-1128 (2014).",,,
general,unspecified close-contact,2014,dynamics,-,-,-,Other,"Black, A. J., House, T., Keeling, M. J., Ross, J. V. The effect of clumped population structure on the variability of spreading dynamics. Journal of Theoretical Biology 359, 45-53 (2014).",,,
general,unspecified close-contact,2014,dynamics,-,-,-,Other,"Sanz, J., Xia, C. Y., Meloni, S., Moreno, Y. Dynamics of Interacting Diseases. Physical Review X 4 (2014).",,,
general,unspecified close-contact,2014,dynamics,-,-,-,Other,"Tunc, I., Shaw, L. B. Effects of community structure on epidemic spread in an adaptive network. Phys Rev E Stat Nonlin Soft Matter Phys 90, 022801 (2014).",,,
general,unspecified close-contact,2014,methods,-,concept,-,Other,"House, T., , House, T. Non-Markovian Stochastic Epidemics in Extremely Heterogeneous Populations. Mathematical Modelling of Natural Phenomena 9, 153-160 (2014).",,,
general,unspecified close-contact,2015,dynamics,-,-,-,ABM,"Shook, E., Wang, S. W. Investigating the Influence of Spatial and Temporal Granularities on Agent-Based Modeling. Geographical Analysis 47, 321-348 (2015).",,,
general,unspecified close-contact,2015,methods,-,concept,-,ABM,"Kleczkowski, A., Maharaj, S., Rasmussen, S., Williams, L., Cairns, N. Spontaneous social distancing in response to a simulated epidemic: a virtual experiment. Bmc Public Health 15 (2015).",,,
general,unspecified close-contact,2015,methods,-,performance,-,ABM,"Willem, L., Stijven, S., Tijskens, E., Beutels, P., Hens, N., Broeckhove, J. Optimizing agent-based transmission models for infectious diseases. Bmc Bioinformatics 16 (2015).",,,
general,unspecified close-contact,2015,dynamics,-,-,-,CA,"da Silva, R., Fernandes, H. A. A study of the influence of the mobility on the phase transitions of the synchronous SIR model. Journal of Statistical Mechanics-Theory and Experiment (2015).",,,
general,unspecified close-contact,2015,dynamics,-,-,-,CA,"Yang, F., Yang, Q., Liu, X. X., Wang, P. SIS evolutionary game model and multi-agent simulation of an infectious disease emergency. Technology and Health Care 23, S603-S613 (2015).",,,
general,unspecified close-contact,2015,methods,-,performance,-,CA,"Ruan, Y. H., Li, A. W., Huang, J. Analytic function of local rules of Elementary Cellular Automata. Applied Mathematics and Computation 258, 404-409 (2015).",,,
general,unspecified close-contact,2015,methods,-,concept,-,CA,"Yang, F., Yang, Q. Model for the spread of SIS epidemic based on evolution game. Technology and Health Care 23, S71-S75 (2015).",,,
general,unspecified close-contact,2015,dynamics,-,-,-,IBM,"Geard, N., Glass, K., Mccaw, J. M., McBryde, E. S., Korb, K. B., Keeling, M. J., McVernon, J. The effects of demographic change on disease transmission and vaccine impact in a household structured population. Epidemics 13, 56-64 (2015).",,,
general,unspecified close-contact,2015,dynamics,-,-,-,IBM,"Siekmann, I., , Siekmann, I. Bifurcation analysis of individual-based models in population dynamics. Ecological Complexity 21, 177-184 (2015).",,,
general,unspecified close-contact,2015,methods,-,concept,yes,IBM,"Elbasha, E. H., Chhatwal, J. Characterizing Heterogeneity Bias in Cohort-Based Models. Pharmacoeconomics 33, 857-865 (2015).",,,
general,unspecified close-contact,2015,dynamics,-,-,-,Other,"Ball, F. G., Knock, E. S., O'Neill, P. D. Stochastic epidemic models featuring contact tracing with delays. Mathematical Biosciences 266, 23-35 (2015).",,,
general,unspecified close-contact,2015,dynamics,-,-,-,Other,"Ouboter, T., Meester, R., Trapman, P. Stochastic SIR epidemics in a population with households and schools. J Math Biol (2015).",,,
general,unspecified close-contact,2015,dynamics,-,-,-,Other,"Pellis, L., Spencer, S. E. F., House, T. Real-time growth rate for general stochastic SIR epidemics on unclustered networks. Mathematical Biosciences 265, 65-81 (2015).",,,
general,unspecified close-contact,2015,dynamics,-,-,-,Other,"Wada, A. H. O., Tome, T., de Oliveira, M. J. Critical properties of the susceptible-exposed-infected model on a square lattice. Journal of Statistical Mechanics-Theory and Experiment (2015).",,,
general,unspecified close-contact,2015,methods,-,concept,-,Other,"Economoua, A., Gomez-Corral, A., Lopez-Garcia, M. A stochastic SIS epidemic model with heterogeneous contacts. Physica a-Statistical Mechanics and Its Applications 421, 78-97 (2015).",,,
general,unspecified close-contact,2015,methods,-,concept,-,Other,"Mei, S., Chen, B., Zhu, Y. F., Lees, M. H., Boukhanovsky, A. V., Sloot, P. M. A. Simulating city-level airborne infectious diseases. Computers Environment and Urban Systems 51, 97-105 (2015).",,,
general,unspecified close-contact,2015,methods,-,concept,-,Other,"Worby, C. J., Read, T. D. 'SEEDY' (Simulation of Evolutionary and Epidemiological Dynamics): An R Package to Follow Accumulation of Within-Host Mutation in Pathogens. Plos One 10 (2015).",,,
general,unspecified sexually transmitted infections,2006,dynamics,-,-,-,Other,"Eames, K. T., Keeling, M. J. Coexistence and specialization of pathogen strains on contact networks. Am Nat 168, 230-41 (2006).",,,
general,unspecified sexually transmitted infections,2006,methods,-,concept,-,Other,"Reed, W. J., , Reed, W. J. A stochastic model for the spread of a sexually transmitted disease which results in a scale-free network. Math Biosci 201, 3-14 (2006).",,,
general,unspecified sexually transmitted infections,2009,dynamics,-,-,-,ABM,"Gouveia-Oliveira, R., Pedersen, A. G. Higher variability in the number of sexual partners in males can contribute to a higher prevalence of sexually transmitted diseases in females. Journal of Theoretical Biology 261, 100-106 (2009).",,,
general,unspecified sexually transmitted infections,2011,methods,-,concept,-,ABM,"Knittel, A. K., Riolo, R. L., Snow, R. C. Development and evaluation of an agent-based model of sexual partnership. Adaptive Behavior 19, 425-450 (2011).",,,
general,unspecified sexually transmitted infections,2012,dynamics,-,-,-,ABM,"Rutherford, G., Friesen, M. R., McLeod, R. D. An agent based model for simulating the spread of sexually transmitted infections. Online J Public Health Inform 4 (2012).",,,
general,unspecified sexually transmitted infections,2012,methods,-,concept,-,IBM,"Ong, J. B. S., Fu, X. J., Lee, G. K. K., Chen, M. I. C. Comparability of Results from Pair and Classical Model Formulations for Different Sexually Transmitted Infections. Plos One 7 (2012).",,,
general,unspecified sexually transmitted infections,2012,interventions,distancing+screening+vaccination,-,-,Other,"Robinson, K., Cohen, T., Colijn, C. The dynamics of sexual contact networks: Effects on disease spread and control. Theoretical Population Biology 81, 89-96 (2012).",,,
general,unspecified sexually transmitted infections,2013,dynamics,-,-,-,IBM,"Hui, B. B., Gray, R. T., Wilson, D. P., Ward, J. S., Smith, A. M., Philip, D. J., Law, M. G., Hocking, J. S., Regan, D. G. Population movement can sustain STI prevalence in remote Australian indigenous communities. BMC Infect Dis 13, 188 (2013).",,,
general,unspecified sexually transmitted infections,2013,dynamics,-,-,-,IBM,"Hui, B. B., Gray, R. T., Wilson, D. P., Ward, J. S., Smith, A. M. A., Philp, D. J., Law, M. G., Hocking, J. S., Regan, D. G. The role of short term population movement in sustaining STI prevalence in remote Australian Indigenous communities. 20th International Congress on Modelling and Simulation (Modsim2013), 2034-2040 (2013).",,,
general,unspecified vector_borne,2008,methods,-,concept,-,Other,"Roche, B., Guegan, J. F., Bousquet, F. Multi-agent systems in epidemiology: a first step for computational biology in the study of vector-borne disease transmission. Bmc Bioinformatics 9 (2008).",,,
general,unspecified vector_borne,2010,methods,-,concept,-,IBM,"Vittorini, P., Villani, A., Di Orio, F. An Individual-Based Networked Model with Probabilistic Relocation of People and Vectors among Locations for Simulating the Spread of Infectious Diseases. Journal of Biological Systems 18, 847-866 (2010).",,,
general,unspecified vector_borne,2010,methods,-,fitting,-,"IBM, CA","Favier, C., Degallier, N., Menkes, C. E. Analytical models approximating individual processes: A validation method. Mathematical Biosciences 228, 127-135 (2010).",,,
general,unspecified vector_borne,2011,methods,-,concept,-,"ABM, IBM","Gaff, H., , Gaff, H. Preliminary Analysis of an Agent-Based Model for a Tick-Borne Disease. Mathematical Biosciences and Engineering 8, 463-473 (2011).",,,
general,unspecified vector_borne,2012,methods,-,concept,-,ABM,"Qin, H., Shapiro, A., Yang, L. Emerging Infectious Disease: A Computational Multi-agent Model. 2012 Ase International Conference on Biomedical Computing (Biomedcom), 28-33 (2012).",,,
general,unspecified vector_borne,2013,methods,-,concept,-,Other,"Perkins, T. A., Scott, T. W., Le Menach, A., Smith, D. L. Heterogeneity, Mixing, and the Spatial Scales of Mosquito-Borne Pathogen Transmission. Plos Computational Biology 9 (2013).",,,
general,unspecified vector_borne,2015,methods,-,concept,-,ABM,"Manore, C. A., Hickmann, K. S., Hyman, J. M., Foppa, I. M., Davis, J. K., Wesson, D. M., Mores, C. N. A network-patch methodology for adapting agent-based models for directly transmitted disease to mosquito-borne disease. J Biol Dyn 9, 52-72 (2015).",,,
parasitic,chagas disease,2008,methods,-,concept,-,ABM,"Devillers, H., Lobry, J. R., Menu, F. An agent-based model for predicting the prevalence of Trypanosoma cruzi I and II in their host and vector populations. Journal of Theoretical Biology 255, 307-315 (2008).",,,
parasitic,cryptosporidium,2010,methods,-,concept,-,ABM,"Okhmatovskaia, A., Verma, A. D., Barbeau, B., Carriere, A., Pasquet, R., Buckeridge, D. L. A simulation model of waterborne gastro-intestinal disease outbreaks: description and initial evaluation. AMIA Annu Symp Proc 2010, 557-61 (2010).",,,
parasitic,helminths,2008,dynamics,-,-,-,IBM,"Sabatelli, L., Ghani, A. C., Rodrigues, L. C., Hotez, P. J., Brooker, S. Modelling heterogeneity and the impact of chemotherapy and vaccination against human hookworm. Journal of the Royal Society Interface 5, 1329-1341 (2008).",,,
parasitic,helminths,2015,interventions,drugs,-,-,IBM,"Coffeng, L. E., Bakker, R., Montresor, A., de Vlas, S. J. Feasibility of controlling hookworm infection through preventive chemotherapy: a simulation study using the individual-based WORMSIM modelling framework. Parasites & Vectors 8 (2015).",,,
parasitic,Onchocerca,2013,interventions,drugs,-,yes,Microsimulation,"Coffeng, L. E., Stolk, W. A., Zoure, H. G. M., Veerman, J. L., Agblewonu, K. B., Murdoch, M. E., Noma, M., Fobi, G., Richardus, J. H., Bundy, D. A. P., Habbema, D., de Vlas, S. J., Amazigo, U. V. African Programme for Onchocerciasis Control 1995-2015: Model-Estimated Health Impact and Cost. Plos Neglected Tropical Diseases 7 (2013).",,,
parasitic,Onchocerca,2015,interventions,drugs,-,-,"IBM, Microsimulation","Stolk, W. A., Walker, M., Coffeng, L. E., Basanez, M. G., de Vlas, S. J. Required duration of mass ivermectin treatment for onchocerciasis elimination in Africa: a comparative modelling analysis. Parasites & Vectors 8 (2015).",,,
parasitic,Schistosoma ,2010,methods,-,concept,-,ABM,"Hu, H. T., Gong, P., Xu, B. Spatially explicit agent-based modelling for schistosomiasis transmission: Human-environment interaction simulation and control strategy assessment. Epidemics 2, 49-65 (2010).",,,
parasitic,Schistosoma ,2013,methods,-,concept,-,CA,"Wan, C., Liu, Y., Tu, X. M., Zhang, Y. Y., Xu, J. M., Lin, D. D., Luo, J. P., Chen, F., Wu, H. W. A cellular automaton model of Schistosoma japonicum infection. Acta Tropica 126, 256-264 (2013).",,,
parasitic,Schistosoma ,2015,dynamics,-,-,-,IBM,"Wang, S., Spear, R. C. Exploring the Contribution of Host Susceptibility to Epidemiological Patterns of Schistosoma japonicum Infection Using an Individual-Based Model. American Journal of Tropical Medicine and Hygiene 92, 1245-1252 (2015).",,,
parasitic,toxocara,2013,dynamics,-,-,-,ABM,"Kanobana, K., Devleesschauwer, B., Polman, K., Speybroeck, N. An agent-based model of exposure to human toxocariasis: a multi-country validation. Parasitology 140, 986-98 (2013).",,,
parasitic,Wuchereria ,2006,methods,-,concept,-,IBM,"Stolk, W. A., de Vlas, S. J., Habbema, J. D. Advances and challenges in predicting the impact of lymphatic filariasis elimination programmes by mathematical modelling. Filaria J 5, 5 (2006).",,,
parasitic,Wuchereria ,2015,interventions,drugs+vector_control,-,-,IBM,"Irvine, M. A., Reimer, L. J., Njenga, S. M., Gunawardena, S., Kelly-Hope, L., Bockarie, M., Hollingsworth, T. D. Modelling strategies to break transmission of lymphatic filariasis - aggregation, adherence and vector competence greatly alter elimination. Parasites & Vectors 8 (2015).",,,
parasitic,Wuchereria ,2015,methods,-,concept,-,IBM,"Stolk, W. A., Stone, C., de Vlas, S. J. Modelling lymphatic filariasis transmission and control: modelling frameworks, lessons learned and future directions. Adv Parasitol 87, 249-91 (2015).",,,
vector-borne,chikungunya,2014,interventions,distancing,-,-,ABM,"Dommar, C. J., Lowe, R., Robinson, M., Rodo, X. An agent-based model driven by tropical rainfall to understand the spatio-temporal heterogeneity of a chikungunya outbreak. Acta Trop 129, 61-73 (2014).",,,
vector-borne,dengue,2009,interventions,vector_control,-,-,ABM,"Isidoro, C., Fachada, N., Barata, F., Rosa, A. Artificial Life Model of Dengue Host-Vector Disease Propagation. Ijcci 2009: Proceedings of the International Joint Conference on Computational Intelligence, 243-247 (2009).",,,
vector-borne,dengue,2009,methods,-,concept,-,CA,"Santos, L. B. L., Costa, M. C., Pinho, S. T. R., Andrade, R. F. S., Barreto, F. R., Teixeira, M. G., Barreto, M. L. Periodic forcing in a three-level cellular automata model for a vector-transmitted disease. Physical Review E 80 (2009).",,,
vector-borne,dengue,2011,dynamics,-,-,-,CA,"Botari, T., Alves, S. G., Leonel, E. D. Explaining the high number of infected people by dengue in Rio de Janeiro in 2008 using a susceptible-infective-recovered model. Physical Review E 83 (2011).",,,
vector-borne,dengue,2011,methods,-,concept,-,CA,"Gerardi, D. O., Monteiro, L. H. A. System Identification and Prediction of Dengue Fever Incidence in Rio de Janeiro. Mathematical Problems in Engineering (2011).",,,
vector-borne,dengue,2011,methods,-,concept,-,IBM,"Otero, M., Barmak, D. H., Dorso, C. O., Solari, H. G., Natiello, M. A. Modeling dengue outbreaks. Mathematical Biosciences 232, 87-95 (2011).",,,
vector-borne,dengue,2012,dynamics,-,-,-,ABM,"Padmanabha, H., Durham, D., Correa, F., Diuk-Wasser, M., Galvani, A. The Interactive Roles of Aedes aegypti Super-Production and Human Density in Dengue Transmission. Plos Neglected Tropical Diseases 6 (2012).",,,
vector-borne,dengue,2012,interventions,vaccination,-,-,Other,"Chao, D. L., Halstead, S. B., Halloran, M. E., Longini, I. M. Controlling Dengue with Vaccines in Thailand. Plos Neglected Tropical Diseases 6 (2012).",,,
vector-borne,dengue,2013,dynamics,-,-,-,IBM,"Chao, D. L., Longini, I. M., Jr., Halloran, M. E. The effects of vector movement and distribution in a mathematical model of dengue transmission. PLoS One 8, e76044 (2013).",,,
vector-borne,dengue,2014,dynamics,-,-,-,ABM,"Reiner, R. C., Jr., Stoddard, S. T., Scott, T. W. Socially structured human movement shapes dengue transmission despite the diffusive effect of mosquito dispersal. Epidemics 6, 30-6 (2014).",,,
vector-borne,dengue,2014,interventions,vaccination+vector_control,-,-,IBM,"Thavara, U., Tawatsin, A., Nagao, Y. Simulations to compare efficacies of tetravalent dengue vaccines and mosquito vector control. Epidemiology and Infection 142, 1245-1258 (2014).",,,
vector-borne,dengue,2014,methods,-,concept,-,IBM,"Karl, S., Halder, N., Kelso, J. K., Ritchie, S. A., Milne, G. J. A spatial simulation model for dengue virus infection in urban areas. BMC Infect Dis 14, 447 (2014).",,,
vector-borne,dengue,2014,interventions,vector_control,-,-,Other,"Barmak, D. H., Dorso, C. O., Otero, M., Solari, H. G. Modelling interventions during a dengue outbreak. Epidemiology and Infection 142, 545-561 (2014).",,,
vector-borne,dengue,2015,dynamics,-,-,-,ABM,"Padmanabha, H., Correa, F., Rubio, C., Baeza, A., Osorio, S., Mendez, J., Jones, J. H., Diuk-Wasser, M. A. Human Social Behavior and Demography Drive Patterns of Fine-Scale Dengue Transmission in Endemic Areas of Colombia. PLoS One 10, e0144451 (2015).",,,
vector-borne,malaria,2006,methods,-,performance,-,IBM,"Smith, T., Maire, N., Ross, A., Tanner, M., Medimond, A platform for stochastic modeling of malaria epidemiology and control. ICOPA XI: Proceedings of the 11th International Congress of Parasitology, 189-193 (2006).",,,
vector-borne,malaria,2008,interventions,drugs,-,-,IBM,"Ross, A., Penny, M., Maire, N., Studer, A., Carneiro, I., Schellenberg, D., Greenwood, B., Tanner, M., Smith, T. Modelling the Epidemiological Impact of Intermittent Preventive Treatment against Malaria in Infants. Plos One 3 (2008).",,,
vector-borne,malaria,2008,methods,-,fitting,yes,IBM,"Smith, T., Maire, N., Ross, A., Penny, M., Chitnis, N., Schapira, A., Studer, A., Genton, B., Lengeler, C., Tediosi, F., De Savigny, D., Tanner, M. Towards a comprehensive simulation model of malaria epidemiology and control. Parasitology 135, 1507-1516 (2008).",,,
vector-borne,malaria,2009,interventions,vector_control,-,-,ABM,"Gu, W. D., Novak, R. J. Predicting the impact of insecticide-treated bed nets on malaria transmission: the devil is in the detail. Malaria Journal 8 (2009).",,,
vector-borne,malaria,2009,methods,-,concept,-,ABM,"Linard, C., Poncon, N., Fontenille, D., Lambin, E. F. A multi-agent simulation to assess the risk of malaria re-emergence in southern France. Ecological Modelling 220, 160-174 (2009).",,,
vector-borne,malaria,2009,interventions,vaccination,-,yes,IBM,"Tediosi, F., Maire, N., Penny, M., Studer, A., Smith, T. A. Simulation of the cost-effectiveness of malaria vaccines. Malaria Journal 8 (2009).",,,
vector-borne,malaria,2010,dynamics,-,-,-,IBM,"Ross, A., Smith, T. Interpreting malaria age-prevalence and incidence curves: a simulation study of the effects of different types of heterogeneity. Malaria Journal 9 (2010).",,,
vector-borne,malaria,2010,interventions,drugs+vector_control,-,-,IBM,"Gatton, M. L., Cheng, Q. Interrupting Malaria Transmission: Quantifying the Impact of Interventions in Regions of Low to Moderate Transmission. Plos One 5 (2010).",,,
vector-borne,malaria,2010,interventions,drugs+screening+vector_control+vaccination,-,-,IBM,"Griffin, J. T., Hollingsworth, T. D., Okell, L. C., Churcher, T. S., White, M., Hinsley, W., Bousema, T., Drakeley, C. J., Ferguson, N. M., Basanez, M. G., Ghani, A. C. Reducing Plasmodium falciparum Malaria Transmission in Africa: A Model-Based Evaluation of Intervention Strategies. Plos Medicine 7 (2010).",,,
vector-borne,malaria,2011,interventions,vector_control,-,-,IBM,"Eckhoff, P. A., , Eckhoff, P. A. A malaria transmission-directed model of mosquito life cycle and ecology. Malaria Journal 10 (2011).",,,
vector-borne,malaria,2011,interventions,vaccination,-,yes,IBM,"Maire, N., Shillcutt, S. D., Walker, D. G., Tediosi, F., Smith, T. A. Cost-Effectiveness of the Introduction of a Pre-Erythrocytic Malaria Vaccine into the Expanded Program on Immunization in Sub-Saharan Africa: Analysis of Uncertainties Using a Stochastic Individual-Based Simulation Model of Plasmodium falciparum Malaria. Value in Health 14, 1028-1038 (2011).",,,
vector-borne,malaria,2011,interventions,drugs,-,yes,IBM,"Ross, A., Maire, N., Sicuri, E., Smith, T., Conteh, L. Determinants of the Cost-Effectiveness of Intermittent Preventive Treatment for Malaria in Infants and Children. Plos One 6 (2011).",,,
vector-borne,malaria,2012,methods,-,concept,-,ABM,"Gurarie, D., Karl, S., Zimmerman, P. A., King, C. H., Pierre, T. G. S., Davis, T. M. E. Mathematical Modeling of Malaria Infection with Innate and Adaptive Immunity in Individuals and Agent-Based Communities. Plos One 7 (2012).",,,
vector-borne,malaria,2012,methods,-,concept,-,ABM,"Reyes, A. M., Diaz, H., Olarte, A. An Agent-Based Model for the Control of Malaria Using Genetically Modified Vectors. Proceedings 26th European Conference on Modelling and Simulation Ecms 2012, 31-36 (2012).",,,
vector-borne,malaria,2012,interventions,vector_control,-,-,IBM,"Briet, O. J. T., Hardy, D., Smith, T. A. Importance of factors determining the effective lifetime of a mass, long-lasting, insecticidal net distribution: a sensitivity analysis. Malaria Journal 11 (2012).",,,
vector-borne,malaria,2012,interventions,vector_control,-,-,IBM,"Chitnis, N., Hardy, D., Smith, T. A Periodically-Forced Mathematical Model for the Seasonal Dynamics of Malaria in Mosquitoes. Bulletin of Mathematical Biology 74, 1098-1124 (2012).",,,
vector-borne,malaria,2012,interventions,vaccination,-,-,IBM,"Smith, T., Ross, A., Maire, N., Chitnis, N., Studer, A., Hardy, D., Brooks, A., Penny, M., Tanner, M. Ensemble Modeling of the Likely Public Health Impact of a Pre- Erythrocytic Malaria Vaccine. Plos Medicine 9 (2012).",,,
vector-borne,malaria,2012,methods,-,fitting,-,IBM,"Stuckey, E. M., Stevenson, J. C., Cooke, M. K., Owaga, C., Marube, E., Oando, G., Hardy, D., Drakeley, C., Smith, T. A., Cox, J., Chitnis, N. Simulation of malaria epidemiology and control in the highlands of western Kenya. Malaria Journal 11 (2012).",,,
vector-borne,malaria,2013,interventions,vector_control,-,-,IBM,"Briet, O. J., Penny, M. A. Repeated mass distributions and continuous distribution of long-lasting insecticidal nets: modelling sustainability of health benefits from mosquito nets, depending on case management. Malar J 12, 401 (2013).",,,
vector-borne,malaria,2014,dynamics,-,-,-,ABM,"Klein, E. Y., , Klein, E. Y. The impact of heterogeneous transmission on the establishment and spread of antimalarial drug resistance. J Theor Biol 340, 177-85 (2014).",,,
vector-borne,malaria,2015,interventions,vector_control,-,-,ABM,"Gentile, J. E., Rund, S. S. C., Madey, G. R. Modelling sterile insect technique to control the population of Anopheles gambiae. Malaria Journal 14 (2015).",,,
vector-borne,malaria,2015,interventions,drugs,-,-,ABM,"Gerardin, J., Eckhoff, P., Wenger, E. A. Mass campaigns with antimalarial drugs: a modelling comparison of artemether-lumefantrine and DHA-piperaquine with and without primaquine as tools for malaria control and elimination. Bmc Infectious Diseases 15 (2015).",,,
vector-borne,malaria,2015,interventions,vector_control+drugs,-,-,ABM,"Gerardin, J., Ouedraogo, A. L., McCarthy, K. A., Eckhoff, P. A., Wenger, E. A. Characterization of the infectious reservoir of malaria with an agent-based model calibrated to age-stratified parasite densities and infectiousness. Malaria Journal 14 (2015).",,,
vector-borne,malaria,2015,dynamics,-,-,-,"ABM, IBM","Zhu, L., Qualls, W. A., Marshall, J. M., Arheart, K. L., DeAngelis, D. L., McManus, J. W., Traore, S. F., Doumbia, S., Schlein, Y., Muller, G. C., Beier, J. C. A spatial individual-based model predicting a great impact of copious sugar sources and resting sites on survival of Anopheles gambiae and malaria parasite transmission. Malar J 14, 59 (2015).",,,
vector-borne,malaria,2015,interventions,vector_control,-,-,"ABM, IBM","Zhu, L., Marshall, J. M., Qualls, W. A., Schlein, Y., McManus, J. W., Arheart, K. L., Hlaing, W. M., Traore, S. F., Doumbia, S., Muller, G. C., Beier, J. C. Modelling optimum use of attractive toxic sugar bait stations for effective malaria vector control in Africa. Malaria Journal 14 (2015).",,,
vector-borne,malaria,2015,methods,-,fitting,-,"ABM, Microsimulation","Cameron, E., Battle, K. E., Bhatt, S., Weiss, D. J., Bisanzio, D., Mappin, B., Dalrymple, U., Hay, S. I., Smith, D. L., Griffin, J. T., Wenger, E. A., Eckhoff, P. A., Smith, T. A., Penny, M. A., Gething, P. W. Defining the relationship between infection prevalence and clinical incidence of Plasmodium falciparum malaria. Nature Communications 6 (2015).",,,
vector-borne,malaria,2015,dynamics,-,-,-,IBM,"Penny, M. A., Pemberton-Ross, P., Smith, T. A. The time-course of protection of the RTS,S vaccine against malaria infections and clinical disease. Malaria Journal 14 (2015).",,,
vector-borne,malaria,2015,interventions,drugs,-,-,IBM,"Cairns, M. E., Walker, P. G. T., Okell, L. C., Griffin, J. T., Garske, T., Asante, K. P., Owusu-Agyei, S., Diallo, D., Dicko, A., Cisse, B., Greenwood, B. M., Chandramohan, D., Ghani, A. C., Milligan, P. J. Seasonality in malaria transmission: implications for case-management with long-acting artemisinin combination therapy in sub-Saharan Africa. Malaria Journal 14 (2015).",,,
vector-borne,malaria,2015,interventions,vaccination,-,-,IBM,"McCarthy, K. A., Wenger, E. A., Huynh, G. H., Eckhoff, P. A. Calibration of an intrahost malaria model and parameter ensemble evaluation of a pre-erythrocytic vaccine. Malar J 14, 6 (2015).",,,
vector-borne,malaria,2015,interventions,drugs+vaccination,-,-,IBM,"Pemberton-Ross, P., Smith, T. A., Hodel, E. M., Kay, K., Penny, M. A. Age-shifting in malaria incidence as a result of induced immunological deficit: a simulation study. Malaria Journal 14 (2015).",,,
vector-borne,malaria,2015,interventions,vaccination,-,-,IBM,"Penny, M. A., Galactionova, K., Tarantino, M., Tanner, M., Smith, T. A. The public health impact of malaria vaccine RTS, S in malaria endemic Africa: country-specific predictions using 18 month follow-up Phase III data and simulation models. Bmc Medicine 13 (2015).",,,
vector-borne,malaria,2015,interventions,screening+drugs,-,-,IBM,"Silal, S. P., Little, F., Barnes, K. I., White, L. J. Predicting the impact of border control on malaria transmission: a simulated focal screen and treat campaign. Malaria Journal 14 (2015).",,,
vector-borne,malaria,2015,interventions,drugs,-,-,"IBM, Microsimulation","Nguyen, T. D., Olliaro, P., Dondorp, A. M., Baird, J. K., Lam, H. M., Farrar, J., Thwaites, G. E., White, N. J., Boni, M. F. Optimum population-level use of artemisinin combination therapies: a modelling study. Lancet Global Health 3, E758-E766 (2015).",,,
vector-borne,malaria,2015,dynamics,-,-,-,Microsimulation,"Penny, M. A., Maire, N., Bever, C. A., Pemberton-Ross, P., Briet, O. J. T., Smith, D. L., Gething, P. W., Smith, T. A. Distribution of malaria exposure in endemic countries in Africa considering country levels of effective treatment. Malaria Journal 14 (2015).",,,
vector-borne,malaria,2015,interventions,screening+drugs,-,yes,Microsimulation,"Phillips, V., Njau, J., Li, S., Kachur, P. Simulations Show Diagnostic Testing For Malaria In Young African Children Can Be Cost-Saving Or Cost-Effective. Health Aff (Millwood) 34, 1196-203 (2015).",,,
viral,acute_hemorrhagic_conjunctivitis,2014,methods,-,concept,-,ABM,"Chen, B., Ge, Y. Z., Zhang, L. B., Zhang, Y. Z., Zhong, Z. M., Liu, X. C. A Modeling and Experiment Framework for the Emergency Management in AHC Transmission. Computational and Mathematical Methods in Medicine (2014).",,,
viral,acute_hemorrhagic_conjunctivitis,2015,methods,-,concept,-,ABM,"Li, Y., Jing, L. Several Influence Factors on Acute Hemorrhagic Conjunctivitis Diffusion within Airport Terminal with Agent-based SEIR Model. Proceedings of the 5th International Conference on Information Engineering for Mechanics and Materials 21, 858-866 (2015).",,,
viral,ebola,2015,dynamics,-,-,-,ABM,"Merler, S., Ajelli, M., Fumanelli, L., Gomes, M. F. C., Piontti, A. P. Y., Rossi, L., Chao, D. L., Longini, I. M., Halloran, M. E., Vespignani, A. Spatiotemporal spread of the 2014 outbreak of Ebola virus disease in Liberia and the effectiveness of non-pharmaceutical interventions: a computational modelling analysis. Lancet Infectious Diseases 15, 204-211 (2015).",,,
viral,ebola,2015,dynamics,-,-,-,ABM,"Siettos, C., Anastassopoulou, C., Russo, L., Grigoras, C., Mylonakis, E. Modeling the 2014 Ebola Virus Epidemic - Agent-Based Simulations, Temporal Analysis and Future Predictions for Liberia and Sierra Leone. PLoS Curr 7 (2015).",,,
viral,ebola,2015,interventions,vaccination+drugs+health_practice,-,-,"ABM, IBM","Kurahashi, S., Terano, T. A Health Policy Simulation Model of Smallpox and Ebola Haemorrhagic Fever. Agent and Multi-Agent Systems: Technologies and Applications 38, 405-415 (2015).",,,
viral,ebola,2015,dynamics,-,-,-,CA,"Lu, F., , Lu, F. The Ebola virus model based on the cellular automata. Proceedings of the 2015 2nd International Conference on Electrical, Computer Engineering and Electronics (Icecee 2015) 24, 1486-1489 (2015).",,,
viral,ebola,2015,interventions,drugs,-,-,CA,"Lu, F., , Lu, F. The medicine distribution scheme to eradicate Ebola. Proceedings of the 1st International Symposium on Social Science (Isss-15) 24, 445-449 (2015).",,,
viral,ebola,2015,dynamics,-,-,-,IBM,"Kiskowski, M., Chowell, G. Modeling household and community transmission of Ebola virus disease: epidemic growth, spatial dynamics and insights for epidemic control. Virulence, 1-11 (2015).",,,
viral,ebola,2015,dynamics,-,-,-,Microsimulation,"Ajelli, M., Parlamento, S., Bome, D., Kebbi, A., Atzori, A., Frasson, C., Putoto, G., Carraro, D., Merler, S. The 2014 Ebola virus disease outbreak in Pujehun, Sierra Leone: epidemiology and impact of interventions. Bmc Medicine 13 (2015).",,,
viral,ebola,2015,interventions,distancing,-,-,Other,"Yamin, D., Gertler, S., Ndeffo-Mbah, M. L., Skrip, L. A., Fallah, M., Nyenswah, T. G., Altice, F. L., Galvani, A. P. Effect of Ebola Progression on Transmission and Control in Liberia. Annals of Internal Medicine 162, 11-U140 (2015).",,,
viral,hepatitis_a,2009,interventions,vaccination+distancing+health_practice,-,-,IBM,"Ajelli, M., Merler, S. An individual-based model of hepatitis A transmission. Journal of Theoretical Biology 259, 478-488 (2009).",,,
viral,hepatitis_c,2009,interventions,vaccination,-,-,IBM,"Hahn, J. A., Wylie, D., Dill, J., Sanchez, M. S., Lloyd-Smith, J. O., Page-Shafer, K., Getz, W. M. Potential impact of vaccination on the hepatitis C virus epidemic in injection drug users. Epidemics 1, 47-57 (2009).",,,
viral,hepatitis_c,2012,dynamics,-,-,-,"ABM, IBM","Rolls, D. A., Daraganova, G., Sacks-Davis, R., Hellard, M., Jenkinson, R., McBryde, E., Pattison, P. E., Robins, G. L. Modelling hepatitis C transmission over a social network of injecting drug users. Journal of Theoretical Biology 297, 73-87 (2012).",,,
viral,hepatitis_c,2013,interventions,drugs,-,-,IBM,"Rolls, D. A., Sacks-Davis, R., Jenkinson, R., McBryde, E., Pattison, P., Robins, G., Hellard, M. Hepatitis C transmission and treatment in contact networks of people who inject drugs. PLoS One 8, e78286 (2013).",,,
viral,hepatitis_c,2014,interventions,drugs,-,-,Other,"Hellard, M., Rolls, D. A., Sacks-Davis, R., Robins, G., Pattison, P., Higgs, P., Aitken, C., McBryde, E. The Impact of Injecting Networks on Hepatitis C Transmission and Treatment in People Who Inject Drugs. Hepatology 60, 1861-1870 (2014).",,,
viral,hepatitis_c,2014,interventions,screening+drugs,-,-,Other,"Kabiri, M., Jazwinski, A. B., Roberts, M. S., Schaefer, A. J., Chhatwal, J. The Changing Burden of Hepatitis C Virus Infection in the United States: Model-Based Predictions. Annals of Internal Medicine 161, 170-U120 (2014).",,,
viral,hepatitis_c,2014,methods,-,concept,-,Other,"Wasik, S., Jackowiak, P., Figlerowicz, M., Blazewicz, J. Multi-agent model of hepatitis C virus infection. Artificial Intelligence in Medicine 60, 123-131 (2014).",,,
viral,hepatitis_c,2015,dynamics,-,-,-,ABM,"Gutfraind, A., Boodram, B., Prachand, N., Hailegiorgis, A., Dahari, H., Major, M. E. Agent-Based Model Forecasts Aging of the Population of People Who Inject Drugs in Metropolitan Chicago and Changing Prevalence of Hepatitis C Infections. Plos One 10 (2015).",,,
viral,hepatitis_c,2015,methods,-,performance,-,ABM,"Wong, W. W., Feng, Z., Thein, H. H. A parallel sliding region algorithm to make agent-based modeling possible for large-scale simulation: Modeling hepatitis C epidemics in Canada. IEEE J Biomed Health Inform (2015).",,,
viral,hepatitis_c,2015,interventions,drugs+screening,-,yes,"ABM, Microsimulation","He, T., Li, K., Roberts, M. S., Spaulding, A. C., Ayer, T., Grefenstette, J. J., Chhatwal, J. Prevention of Hepatitis C by Screening and Treatment in U.S. Prisons. Ann Intern Med (2015).",,,
viral,hepatitis_c,2015,dynamics,-,-,-,IBM,"Hellard, M., McBryde, E., Sacks Davis, R., Rolls, D. A., Higgs, P., Aitken, C., Thompson, A., Doyle, J., Pattison, P., Robins, G. Hepatitis C transmission and treatment as prevention - The role of the injecting network. Int J Drug Policy (2015).",,,
viral,hepatitis_c,2015,interventions,drugs,-,yes,Microsimulation,"Chhatwal, J., Kanwal, F., Roberts, M. S., Dunn, M. A. Cost-effectiveness and budget impact of hepatitis C virus treatment with sofosbuvir and ledipasvir in the United States. Ann Intern Med 162, 397-406 (2015).",,,
viral,hepatitis_c,2015,interventions,drugs,-,yes,Microsimulation,"Rein, D. B., Wittenborn, J. S., Smith, B. D., Liffmann, D. K., Ward, J. W. The cost-effectiveness, health benefits, and financial costs of new antiviral treatments for hepatitis C virus. Clin Infect Dis 61, 157-68 (2015).",,,
viral,hiv,2006,dynamics,-,-,-,ABM,"Sumodhee, C., Hsieh, J. L., Sun, C. T., Huang, C. Y., Chen, Arthur Y. M. Impact of social behaviors on HIV epidemic: A computer simulation view. International Conference on Computational Intelligence for Modelling, Control & Automation Jointly with International Conference on Intelligent Agents, Web Technologies & Internet Commerce, Vol 2, Proceedings, 550-556 (2006).",,,
viral,hiv,2006,methods,-,performance,-,ABM,"Perrin, Dimitri, Ruskin, Heather J., Crane, Martin HIV Modelling - Parallel Implementation Strategies. Proceedings of World Academy of Science, Engineering and Technology, Vol 16 16, 84-89 (2006).",,,
viral,hiv,2007,methods,-,concept,-,ABM,"Alam, S. J., Meyer, R., Ziervogel, G., Moss, S. The Impact of HIV/AIDS in the Context of Socioeconomic Stressors: an Evidence-Driven Approach. Jasss-the Journal of Artificial Societies and Social Simulation 10 (2007).",,,
viral,hiv,2007,dynamics,-,-,-,IBM,"Orroth, K. K., Freeman, E. E., Bakker, R., Buve, A., Glynn, J. R., Boily, M. C., White, R. G., Habbema, J. D. F., Hayes, R. J. Understanding the differences between contrasting HIV epidemics in east and west Africa: results from a simulation model of the Four Cities Study. Sexually Transmitted Infections 83, I5-I16 (2007).",,,
viral,hiv,2007,methods,-,concept,yes,Microsimulation,"Kuehne, F. C., Chancellor, J., Mollon, P., Weinstein, M. C. Microsimulation or cohort modeling? A comparative case study in HIV infection. Value in Health 10, A170-A170 (2007).",,,
viral,hiv,2007,interventions,distancing,-,-,Other,"Hallett, T. B., Gregson, S., Lewis, J. J. C., Lopman, B. A., Garnett, G. P. Behaviour change in generalised HIV epidemics: impact of reducing cross-generational sex and delaying age at sexual debut. Sexually Transmitted Infections 83, I50-I54 (2007).",,,
viral,hiv,2008,methods,-,concept,-,CA,"Corne, D. W., Frisco, P. Dynamics of HIV infection studied with cellular automata and conformon-P systems. Biosystems 91, 531-544 (2008).",,,
viral,hiv,2008,interventions,circumcision,-,yes,IBM,"White, R. G., Glynn, J. R., Orroth, K. K., Freeman, E. E., Bakker, R., Weiss, H. A., Kumaranayake, L., Habbema, J. D. F., Buve, A., Hayes, R. J. Male circumcision for HIV prevention in sub-Saharan Africa: who, what and when?. Aids 22, 1841-1850 (2008).",,,
viral,hiv,2008,interventions,drugs,-,yes,Microsimulation,"Jefferis, K., Kinghorn, A., Siphambe, H., Thurlow, J. Macroeconomic and household-level impacts of HIV/AIDS in Botswana. AIDS 22 Suppl 1, S113-9 (2008).",,,
viral,hiv,2008,interventions,circumcision,-,-,Other,"Boily, M. C., Desai, K., Masse, B., Gumel, A. Incremental role of male circumcision on a generalised HIV epidemic through its protective effect against other sexually transmitted infections: from efficacy to effectiveness to population-level impact. Sexually Transmitted Infections 84, Ii28-Ii34 (2008).",,,
viral,hiv,2008,interventions,drugs,-,-,Other,"White, R. G., Freeman, E. E., Orroth, K. K., Bakker, R., Weiss, H. A., O'Farrell, N., Buve, A., Hayes, R. J., Glynn, J. R. Population-level effect of HSV-2 therapy on the incidence of HIV in sub-Saharan Africa. Sexually Transmitted Infections 84, Ii12-Ii18 (2008).",,,
viral,hiv,2009,methods,-,concept,-,ABM,"Alam, S. J., Meyer, R., Norling, E. A Model for HIV Spread in a South African Village. Multi-Agent-Based Simulation Ix 5269, 33-45 (2009).",,,
viral,hiv,2009,methods,-,concept,-,ABM,"Cui, Q. X., Wang, J., Tan, J. X., Li, J. R., Yang, K. Exploring HIV/AIDS Epidemic complex network of IDU Using ABM and GIS. Ccdc 2009: 21st Chinese Control and Decision Conference, Vols 1-6, Proceedings, 1090-1095 (2009).",,,
viral,hiv,2009,dynamics,-,-,-,CA,"Xuan, H. Y., Xu, L. D., Li, L. A CA-based epidemic model for HIV/AIDS transmission with heterogeneity. Annals of Operations Research 168, 81-99 (2009).",,,
viral,hiv,2009,methods,-,performance,-,IBM,"Quax, R., Bader, D. A., Sloot, P. M. A. Simulating Individual-Based Models of Epidemics in Hierarchical Networks. Computational Science - Iccs 2009, Part I 5544, 725-734 (2009).",,,
viral,hiv,2009,methods,-,concept,-,"IBM, Microsimulation","Leclerc, P. M., Matthews, A. P., Garenne, M. L. Fitting the HIV Epidemic in Zambia: A Two-Sex Micro-Simulation Model. Plos One 4 (2009).",,,
viral,hiv,2009,interventions,health_practice,-,yes,Microsimulation,"Barnighausen, T., Bloom, D. E. \Conditional scholarships\"" for HIV/AIDS health workers: educating and retaining the workforce to provide antiretroviral treatment in sub-Saharan Africa. Soc Sci Med 68"," 544-51 (2009).""",,
viral,hiv,2009,methods,-,concept,-,Other,"Gordon, R., Bjorklund, N. K., Smith, R. J., Blyden, E. R. Halting HIV/AIDS with avatars and havatars: a virtual world approach to modelling epidemics. BMC Public Health 9 Suppl 1, S13 (2009).",,,
viral,hiv,2010,dynamics,-,-,-,ABM,"Xiong, J. H., Wang, J. S., Yang, K., Peng, S. Y., Xu, Q. L. Multiagent-Based Simulation of the HIV/AIDS Spatial and Temporal Transmission among Injection Drug Users. 2010 18th International Conference on Geoinformatics (2010).",,,
viral,hiv,2010,methods,-,concept,-,ABM,"Kamp, C., , Kamp, C. Untangling the Interplay between Epidemic Spread and Transmission Network Dynamics. Plos Computational Biology 6 (2010).",,,
viral,hiv,2010,dynamics,-,-,-,IBM,"Kim, J. H., Riolo, R. L., Koopman, J. S. HIV Transmission by Stage of Infection and Pattern of Sexual Partnerships. Epidemiology 21, 676-684 (2010).",,,
viral,hiv,2010,interventions,drugs,-,yes,Microsimulation,"Johnston, K. M., Levy, A. R., Lima, V. D., Hogg, R. S., Tyndall, M. W., Gustafson, P., Briggs, A., Montaner, J. S. Expanding access to HAART: a cost-effective approach for treating and preventing HIV. Aids 24, 1929-1935 (2010).",,,
viral,hiv,2010,interventions,drugs,-,yes,Microsimulation,"Kuhne, F. C., Chancellor, J., Mollon, P., Myers, D. E., Louie, M., Powderly, W. G. A Microsimulation of the Cost-effectiveness of Maraviroc for Antiretroviral Treatment-Experienced HIV-Infected Individuals. Hiv Clinical Trials 11, 80-99 (2010).",,,
viral,hiv,2010,dynamics,-,-,-,Other,"Mei, S., Sloot, P. M. A., Quax, R., Zhu, Y. F., Wang, W. P. Complex agent networks explaining the HIV epidemic among homosexual men in Amsterdam. Mathematics and Computers in Simulation 80, 1018-1030 (2010).",,,
viral,hiv,2010,methods,-,concept,-,Other,"Johnson, B. T., Redding, C. A., DiClemente, R. J., Mustanski, B. S., Dodge, B., Sheeran, P., Warren, M. R., Zimmerman, R. S., Fisher, W. A., Conner, M. T., Carey, M. P., Fisher, J. D., Stall, R. D., Fishbein, M. A Network-Individual-Resource Model for HIV Prevention. Aids and Behavior 14, S204-S221 (2010).",,,
viral,hiv,2011,interventions,vaccination,-,-,IBM,"Gray, R. T., Ghaus, M. H., Hoare, A., Wilson, D. P. Expected epidemiological impact of the introduction of a partially effective HIV vaccine among men who have sex with men in Australia. Vaccine 29, 6125-6129 (2011).",,,
viral,hiv,2011,interventions,screening,-,-,IBM,"White, P., Fox, J., MacDonald, N., Weber, J., McClure, M., Fidler, S., Ward, H. How Many Infections Are Averted by Behaviour Change after Early Hiv Diagnosis & Counselling of Msm? Estimates from a Stochastic Individual-Based Model. Sexually Transmitted Infections 87, A51-A52 (2011).",,,
viral,hiv,2011,interventions,vaccination,-,yes,"IBM, Microsimulation","Hontelez, J. A. C., Nagelkerke, N., Barnighausen, T., Bakker, R., Tanser, F., Newell, M. L., Lurie, M. N., Baltussen, R., de Vlas, S. J. The potential impact of RV144-like vaccines in rural South Africa: A study using the STDSIM microsimulation model. Vaccine 29, 6100-6106 (2011).",,,
viral,hiv,2011,dynamics,-,-,-,Microsimulation,"Hontelez, J. A., Lurie, M. N., Newell, M. L., Bakker, R., Tanser, F., Barnighausen, T., Baltussen, R., de Vlas, S. J. Ageing with HIV in South Africa. AIDS 25, 1665-7 (2011).",,,
viral,hiv,2011,interventions,drugs,-,yes,Microsimulation,"Broder, M. S., Chang, E. Y., Bentley, T. G., Juday, T., Uy, J. Cost effectiveness of atazanavir-ritonavir versus lopinavir-ritonavir in treatment-naive human immunodeficiency virus-infected patients in the United States. J Med Econ 14, 167-78 (2011).",,,
viral,hiv,2011,interventions,distancing,-,yes,Other,"Enns, E. A., Brandeau, M. L., Igeme, T. K., Bendavid, E. Assessing effectiveness and cost-effectiveness of concurrency reduction for HIV prevention. Int J STD AIDS 22, 558-67 (2011).",,,
viral,hiv,2011,methods,-,concept,-,Other,"Auvert, B., Sitta, R., Zarca, K., Mahiane, S. G., Pretorius, C., Lissouba, P. The effect of heterogeneity on HIV prevention trials. Clinical Trials 8, 144-154 (2011).",,,
viral,hiv,2011,methods,-,concept,-,Other,"Li, W., Zhang, S. M., Bi, G. H. Analysis and Simulation of the HIV Transmission among Homosexual Based on Agent Dynamical Small World Network. Ceis 2011 15 (2011).",,,
viral,hiv,2012,dynamics,-,-,-,ABM,"Beyrer, C., Baral, S. D., van Griensven, F., Goodreau, S. M., Chariyalertsak, S., Wirtz, A. L., Brookmeyer, R. Global epidemiology of HIV infection in men who have sex with men. Lancet 380, 367-77 (2012).",,,
viral,hiv,2012,dynamics,-,-,-,ABM,"Graw, F., Leitner, T., Ribeiro, R. M. Agent-based and phylogenetic analyses reveal how HIV-1 moves between risk groups: injecting drug users sustain the heterosexual epidemic in Latvia. Epidemics 4, 104-16 (2012).",,,
viral,hiv,2012,dynamics,-,-,-,ABM,"Hoare, A., Gray, R. T., Wilson, D. P. Could implementation of Australia's national gay men's syphilis action plan have an indirect effect on the HIV epidemic?. Sex Health 9, 144-51 (2012).",,,
viral,hiv,2012,dynamics,-,-,-,ABM,"Jansson, J., Wilson, D. P. Projected demographic profile of people living with HIV in Australia: planning for an older generation. PLoS One 7, e38334 (2012).",,,
viral,hiv,2012,dynamics,-,-,-,ABM,"Marshall, B. D., Paczkowski, M. M., Seemann, L., Tempalski, B., Pouget, E. R., Galea, S., Friedman, S. R. A complex systems approach to evaluate HIV prevention in metropolitan areas: preliminary implications for combination intervention strategies. PLoS One 7, e44833 (2012).",,,
viral,hiv,2012,dynamics,-,-,-,ABM,"Richardson, L., Grund, T. Modeling the impact of supra-structural network nodes: The case of anonymous syringe sharing and HIV among people who inject drugs. Social Science Research 41, 624-636 (2012).",,,
viral,hiv,2012,methods,-,concept,-,ABM,"Klein, D. J., , Klein, D. J. Relationship Formation and Flow Control Algorithms for Generating Age-Structured Networks in HIV Modeling. 2012 Ieee 51st Annual Conference on Decision and Control (Cdc), 1041-1046 (2012).",,,
viral,hiv,2012,methods,-,concept,-,ABM,"Nagoski, E., Janssen, E., Lohrmann, D., Nichols, E. Risk, individual differences, and environment: an Agent-Based Modeling approach to sexual risk-taking. Arch Sex Behav 41, 849-60 (2012).",,,
viral,hiv,2012,methods,-,concept,-,CA,"Mago, V. K., Bakker, L., Papageorgiou, E. I., Alimadad, A., Borwein, P., Dabbaghian, V. Fuzzy cognitive maps and cellular automata: An evolutionary approach for social systems modelling. Applied Soft Computing 12, 3771-3784 (2012).",,,
viral,hiv,2012,interventions,distancing,-,-,IBM,"McCreesh, N., O'Brien, K., Nsubuga, R. N., Shafer, L. A., Bakker, R., Seeley, J., Hayes, R. J., White, R. G. Exploring the Potential Impact of a Reduction in Partnership Concurrency on HIV Incidence in Rural Uganda: A Modeling Study. Sexually Transmitted Diseases 39, 407-413 (2012).",,,
viral,hiv,2012,dynamics,-,-,-,Microsimulation,"Hontelez, J. A., de Vlas, S. J., Baltussen, R., Newell, M. L., Bakker, R., Tanser, F., Lurie, M., Barnighausen, T. The impact of antiretroviral treatment on the age composition of the HIV epidemic in sub-Saharan Africa. AIDS 26 Suppl 1, S19-30 (2012).",,,
viral,hiv,2012,interventions,drugs+screening,-,yes,Microsimulation,"Cragin, L., Pan, F., Peng, S. Y., Zenilnnan, J. M., Green, J., Doucet, C., Chalfin, D. B., de Lissovoy, G. Cost-effectiveness of a Fourth-Generation Combination Immunoassay for Human Immunodeficiency Virus (HIV) Antibody and p24 Antigen for the Detection of HIV Infections in the United States. Hiv Clinical Trials 13, 11-22 (2012).",,,
viral,hiv,2012,interventions,drugs,-,yes,Microsimulation,"Ventelou, B., Arrighi, Y., Greener, R., Lamontagne, E., Carrieri, P., Moatti, J. P. The macroeconomic consequences of renouncing to universal access to antiretroviral treatment for HIV in Africa: a micro-simulation model. PLoS One 7, e34101 (2012).",,,
viral,hiv,2012,dynamics,-,-,-,Other,"Wagner, B. G., Garcia-Lerma, J. G., Blower, S. Factors limiting the transmission of HIV mutations conferring drug resistance: fitness costs and genetic bottlenecks. Scientific Reports 2 (2012).",,,
viral,hiv,2012,interventions,screening+drugs,-,-,Other,"Estill, J., Aubriere, C., Egger, M., Johnson, L., Wood, R., Garone, D., Gsponer, T., Wandeler, G., Boulle, A., Davies, M. A., Hallett, T. B., Keiser, O., IeDEA So Africa Viral load monitoring of antiretroviral therapy, cohort viral load and HIV transmission in Southern Africa: a mathematical modelling analysis. Aids 26, 1403-1413 (2012).",,,
viral,hiv,2012,interventions,drugs,-,yes,Other,"Palombi, L., Bernava, G. M., Nucita, A., Giglio, P., Liotta, G., Nielsen-Saines, K., Orlando, S., Mancinelli, S., Buonomo, E., Scarcella, P., Altan, A. M. D., Guidotti, G., Ceffa, S., Haswell, J., Zimba, I., Magid, N. A., Marazzi, M. C. Predicting Trends in HIV-1 Sexual Transmission in Sub-Saharan Africa Through the Drug Resource Enhancement Against AIDS and Malnutrition Model: Antiretrovirals for Reduction of Population Infectivity, Incidence and Prevalence at the District Level. Clinical Infectious Diseases 55, 268-275 (2012).",,,
viral,hiv,2013,dynamics,-,-,-,ABM,"Tully, S., Cojocaru, M., Bauch, C. T. Coevolution of risk perception, sexual behaviour, and HIV transmission in an agent-based model. J Theor Biol 337, 125-32 (2013).",,,
viral,hiv,2013,methods,-,concept,-,ABM,"Peng, S. Y., Yang, K., Wang, J. S., Huang, B. M. The Research and Development of the Time-space Simulation of AIDS Transmission and Assistant Decision Support System in Kunming. 2013 Fourth Global Congress on Intelligent Systems (Gcis), 317-321 (2013).",,,
viral,hiv,2013,dynamics,-,-,-,IBM,"Romero-Severson, E. O., Alam, S. J., Volz, E., Koopman, J. Acute-stage transmission of HIV: effect of volatile contact rates. Epidemiology 24, 516-21 (2013).",,,
viral,hiv,2013,interventions,screening+drugs,-,-,IBM,"Gray, R. T., Prestage, G. P., Down, I., Ghaus, M. H., Hoare, A., Bradley, J., Wilson, D. P. Increased HIV testing will modestly reduce HIV incidence among gay men in NSW and would be acceptable if HIV testing becomes convenient. PLoS One 8, e55449 (2013).",,,
viral,hiv,2013,interventions,drugs+screening+distancing,-,-,IBM,"Phillips, A. N., Cambiano, V., Nakagawa, F., Brown, A. E., Lampe, F., Rodger, A., Miners, A., Elford, J., Hart, G., Johnson, A. M., Lundgren, J., Delpech, V. C. Increased HIV incidence in men who have sex with men despite high levels of ART-induced viral suppression: analysis of an extensively documented epidemic. PLoS One 8, e55312 (2013).",,,
viral,hiv,2013,methods,-,concept,-,"IBM, Microsimulation","Demongeot, J., Hansen, O., Hessami, H., Jannot, A. S., Mintsa, J., Rachdi, M., Taramasco, C. Random modelling of contagious diseases. Acta Biotheor 61, 141-72 (2013).",,,
viral,hiv,2013,dynamics,-,-,-,Microsimulation,"Bershteyn, A., Klein, D. J., Eckhoff, P. A. Age-dependent partnering and the HIV transmission chain: a microsimulation analysis. Journal of the Royal Society Interface 10 (2013).",,,
viral,hiv,2013,interventions,screening+drugs,-,yes,Microsimulation,"Hontelez, J. A. C., Lurie, M. N., Barnighausen, T., Bakker, R., Baltussen, R., Tanser, F., Hallett, T. B., Newell, M. L., de Vlas, S. J. Elimination of HIV in South Africa through Expanded Access to Antiretroviral Therapy: A Model Comparison Study. Plos Medicine 10 (2013).",,,
viral,hiv,2013,interventions,drugs+distancing,-,yes,Microsimulation,"Kessler, J., Myers, J. E., Nucifora, K. A., Mensah, N., Kowalski, A., Sweeney, M., Toohey, C., Khademi, A., Shepard, C., Cutler, B., Braithwaite, R. S. Averting HIV Infections in New York City: A Modeling Approach Estimating the Future Impact of Additional Behavioral and Biomedical HIV Prevention Strategies. Plos One 8 (2013).",,,
viral,hiv,2013,interventions,drugs,-,yes,Microsimulation,"Schneider, K., Nwizu, C., Kaplan, R., Anderson, J., Wilson, D. P., Emery, S., Cooper, D. A., Boyd, M. A. The Potential Cost and Benefits of Raltegravir in Simplified Second-Line Therapy among HIV Infected Patients in Nigeria and South Africa. Plos One 8 (2013).",,,
viral,hiv,2013,dynamics,-,-,-,Other,"Khan, B., Dombrowski, K., Saad, M., McLean, K., Friedman, S. Network Firewall Dynamics and the Subsaturation Stabilization of HIV. Discrete Dynamics in Nature and Society (2013).",,,
viral,hiv,2013,interventions,drugs,-,-,Other,"Yeghiazarian, L., Cumberland, W. G., Yang, O. O. A Stochastic Multi-Scale Model of HIV-1 Transmission for Decision-Making: Application to a MSM Population. Plos One 8 (2013).",,,
viral,hiv,2014,interventions,screening+distancing+drugs,-,-,ABM,"Brookmeyer, R., Boren, D., Baral, S. D., Bekker, L. G., Phaswana-Mafuya, N., Beyrer, C., Sullivan, P. S. Combination HIV prevention among MSM in South Africa: results from agent-based modeling. PLoS One 9, e112668 (2014).",,,
viral,hiv,2014,interventions,drugs,-,yes,ABM,"Schneider, K., Gray, R. T., Wilson, D. P. A cost-effectiveness analysis of HIV preexposure prophylaxis for men who have sex with men in Australia. Clin Infect Dis 58, 1027-34 (2014).",,,
viral,hiv,2014,methods,-,concept,-,ABM,"Boren, D., Sullivan, P. S., Beyrer, C., Baral, S. D., Bekker, L. G., Brookmeyer, R. Stochastic variation in network epidemic models: implications for the design of community level HIV prevention trials. Stat Med 33, 3894-904 (2014).",,,
viral,hiv,2014,methods,-,concept,-,ABM,"Khan, B., Dombrowski, K., Saad, M. A stochastic agent-based model of pathogen propagation in dynamic multi-relational social networks. Simulation-Transactions of the Society for Modeling and Simulation International 90, 460-484 (2014).",,,
viral,hiv,2014,methods,-,concept,-,ABM,"Wang, R., Goyal, R., Lei, Q. H., Essex, M., De Gruttola, V. Sample size considerations in the design of cluster randomized trials of combination HIV prevention. Clinical Trials 11, 309-318 (2014).",,,
viral,hiv,2014,interventions,screening+drugs,-,-,IBM,"de Vos, A. S., Prins, M., Coutinho, R. A., van der Helm, J. J., Kretzschmar, M. E. E. Treatment as prevention among injecting drug users. extrapolating from the Amsterdam cohort study. Aids 28, 911-918 (2014).",,,
viral,hiv,2014,interventions,distancing+screening,-,-,IBM,"White, P. J., Fox, J., Weber, J., Fidler, S., Ward, H. How Many HIV infections may be averted by targeting primary infection in men who have sex with men? Quantification of changes in transmission-risk behavior, using an individual-based model. J Infect Dis 210 Suppl 2, S594-9 (2014).",,,
viral,hiv,2014,methods,-,fitting,-,IBM,"McCormick, A. W., Abuelezam, N. N., Rhode, E. R., Hou, T. G., Walensky, R. P., Pei, P. P., Becker, J. E., DiLorenzo, M. A., Losina, E., Freedberg, K. A., Lipsitch, M., Seage, G. R. Development, Calibration and Performance of an HIV Transmission Model Incorporating Natural History and Behavioral Patterns: Application in South Africa. Plos One 9 (2014).",,,
viral,hiv,2014,interventions,distancing+drugs,-,-,Microsimulation,"Steen, R., Hontelez, J. A. C., Veraart, A., White, R. G., de Vlas, S. J. Looking upstream to prevent HIV transmission: can interventions with sex workers alter the course of HIV epidemics in Africa as they did in Asia?. Aids 28, 891-899 (2014).",,,
viral,hiv,2014,dynamics,-,-,-,Other,"Young, A. M., Halgin, D. S., DiClemente, R. J., Sterk, C. E., Havens, J. R. Will HIV Vaccination Reshape HIV Risk Behavior Networks? A Social Network Analysis of Drug Users' Anticipated Risk Compensation. Plos One 9 (2014).",,,
viral,hiv,2014,interventions,circumcision,-,-,Other,"Goodreau, S. M., Carnegie, N. B., Vittinghoff, E., Lama, J. R., Fuchs, J. D., Sanchez, J., Buchbinder, S. P. Can Male Circumcision Have an Impact on the HIV Epidemic in Men Who Have Sex with Men?. Plos One 9 (2014).",,,
viral,hiv,2014,interventions,drugs+screening,-,yes,Other,"Phillips, A., Cambiano, V., Nakagawa, F., Magubu, T., Miners, A., Ford, D., Pillay, D., De Luca, A., Lundgren, J., Revill, P. Cost-Effectiveness of HIV Drug Resistance Testing to Inform Switching to Second Line Antiretroviral Therapy in Low Income Settings. Plos One 9 (2014).",,,
viral,hiv,2014,interventions,vaccination,-,-,Other,"Phillips, A. N., Cambiano, V., Nakagawa, F., Ford, D., Lundgren, J. D., Roset-Bahmanyar, E., Roman, F., Effelterre, T. Potential Future Impact of a Partially Effective HIV Vaccine in a Southern African Setting. Plos One 9 (2014).",,,
viral,hiv,2015,dynamics,-,-,-,ABM,"Beck, E. C., Birkett, M., Armbruster, B., Mustanski, B. A Data-Driven Simulation of HIV Spread Among Young Men Who Have Sex With Men: Role of Age and Race Mixing and STIs. Jaids-Journal of Acquired Immune Deficiency Syndromes 70, 186-194 (2015).",,,
viral,hiv,2015,dynamics,-,-,-,ABM,"Reniers, G., Armbruster, B., Lucas, A. Sexual networks, partnership mixing, and the female-to-male ratio of HIV infections in generalized epidemics: An agent-based simulation study. Demographic Research 33, 425-450 (2015).",,,
viral,hiv,2015,dynamics,-,-,-,ABM,"Tully, S., Cojocaru, M., Bauch, C. T. Sexual behavior, risk perception, and HIV transmission can respond to HIV antiviral drugs and vaccines through multiple pathways. Scientific Reports 5 (2015).",,,
viral,hiv,2015,methods,-,concept,-,ABM,"Huang, C. Y., , Huang, C. Y. An Agent-Based Epidemic Simulation of Social Behaviors Affecting HIV Transmission among Taiwanese Homosexuals. Computational and Mathematical Methods in Medicine (2015).",,,
viral,hiv,2015,interventions,distancing,-,-,CA,"Gang, J. T., Liu, S. S., Lu, J., Zhao, Z. W., Tan, X. X. Simulation of AIDS Spread Model Based on Cellular Automata. Proceedings of the 2015 International Forum on Bioinformatics and Medical Engineering 25, 1-7 (2015).",,,
viral,hiv,2015,dynamics,-,-,-,IBM,"Dimitrov, D., Donnell, D., Brown, E. R. High incidence is not high exposure: what proportion of prevention trial participants are exposed to HIV?. PLoS One 10, e0115528 (2015).",,,
viral,hiv,2015,dynamics,-,-,-,IBM,"Smit, M., Brinkman, K., Geerlings, S., Smit, C., Thyagarajan, K., van Sighem, A., de Wolf, F., Hallett, T. B., Athena Observational Cohort Future challenges for clinical care of an ageing population infected with HIV: a modelling study. Lancet Infectious Diseases 15, 810-818 (2015).",,,
viral,hiv,2015,interventions,drugs,-,yes,IBM,"Klein, D. J., Eckhoff, P. A., Bershteyn, A. Targeting HIV services to male migrant workers in southern Africa would not reverse generalized HIV epidemics in their home communities: a mathematical modeling analysis. Int Health 7, 107-13 (2015).",,,
viral,hiv,2015,interventions,screening+distancing+drugs,-,-,IBM,"Monteiro, J. F. G., Galea, S., Flanigan, T., Monteiro, M. D., Friedman, S. R., Marshall, B. D. L. Evaluating HIV prevention strategies for populations in key affected groups: the example of Cabo Verde. International Journal of Public Health 60, 457-466 (2015).",,,
viral,hiv,2015,interventions,drugs+screening,-,yes,IBM,"Phillips, A. N., Cambiano, V., Miners, A., Lampe, F. C., Rodger, A., Nakagawa, F., Brown, A., Gill, O. N., De Angelis, D., Elford, J., Hart, G., Johnson, A. M., Lundgren, J. D., Collins, S., Delpech, V. Potential impact on HIV incidence of higher HIV testing rates and earlier antiretroviral therapy initiation in MSM. Aids 29, 1855-1862 (2015).",,,
viral,hiv,2015,interventions,screening,-,yes,IBM,"Smith, J. A., Sharma, M., Levin, C., Baeten, J. M., van Rooyen, H., Celum, C., Hallett, T. B., Barnabas, R. V. Cost-effectiveness of community-based strategies to strengthen the continuum of HIV care in rural South Africa: a health economic modelling analysis. Lancet HIV 2, e159-e168 (2015).",,,
viral,hiv,2015,interventions,drugs,-,yes,IBM,"Tweya, H., Keiser, O., Haas, A. D., Tenthani, L., Phiri, S., Egger, M., Estill, J. Comparative cost-effectiveness of Option B+ for prevention of mother to child transmission of HIV in Malawi: Mathematical modelling study. AIDS (2015).",,,
viral,hiv,2015,methods,-,fitting,-,IBM,"Andrianakis, I., Vernon, I. R., McCreesh, N., McKinley, T. J., Oakley, J. E., Nsubuga, R. N., Goldstein, M., White, R. G. Bayesian history matching of complex infectious disease models using emulation: a tutorial and a case study on HIV in Uganda. PLoS Comput Biol 11, e1003968 (2015).",,,
viral,hiv,2015,methods,-,concept,-,IBM,"Nakagawa, F., van Sighem, A., Thiebaut, R., Smith, C., Ratmann, O., Cambiano, V., Albert, J., Amato-Gauci, A., Bezemer, D., Campbell, C., Commenges, D., Donoghoe, M., Ford, D., Kouyos, R., Lodwick, R., Lundgren, J., Pantazis, N., Pharris, A., Quinten, C., Thorne, C., Touloumi, G., Delpech, V., Phillips, A., Ssophie project working group in EuroCoord A method to estimate the size and characteristics of HIV-positive populations using an individual-based stochastic simulation model. Epidemiology (2015).",,,
viral,hiv,2015,interventions,drugs,-,yes,Microsimulation,"Kessler, J., Nucifora, K., Li, L., Uhler, L., Braithwaite, S. Impact and Cost-Effectiveness of Hypothetical Strategies to Enhance Retention in Care within HIV Treatment Programs in East Africa. Value Health 18, 946-55 (2015).",,,
viral,hiv,2015,interventions,screening,-,yes,Other,"Cambiano, V., Ford, D., Mabugu, T., Napierala Mavedzenge, S., Miners, A., Mugurungi, O., Nakagawa, F., Revill, P., Phillips, A. Assessment of the Potential Impact and Cost-effectiveness of Self-Testing for HIV in Low-Income Countries. J Infect Dis 212, 570-7 (2015).",,,
viral,hiv,2015,interventions,screening,-,-,Other,"Khanna, A., Goodreau, S. M., Wohlfeiler, D., Daar, E., Little, S., Gorbach, P. M. Individualized diagnosis interventions can add significant effectiveness in reducing human immunodeficiency virus incidence among men who have sex with men: insights from Southern California. Annals of Epidemiology 25, 1-6 (2015).",,,
viral,hiv+hepatitis_c,2010,methods,-,concept,-,IBM,"Coutin, L., Decreusefond, L., Dhersin, J. S. A Markov Model for the Spread of Viruses in an Open Population. Journal of Applied Probability 47, 976-996 (2010).",,,
viral,hiv+hepatitis_c,2013,interventions,distancing,-,-,IBM,"de Vos, A. S., van der Helm, J. J., Matser, A., Prins, M., Kretzschmar, M. E. Decline in incidence of HIV and hepatitis C virus infection among injecting drug users in Amsterdam. evidence for harm reduction?. Addiction 108, 1070-81 (2013).",,,
viral,hiv+hepatitis_c,2015,dynamics,-,-,-,CA,"Hawkins, J., Molinek, D. Markov cellular automata models for chronic disease progression. International Journal of Biomathematics 8 (2015).",,,
viral,hiv+hsv,2007,dynamics,-,-,-,IBM,"Freeman, E. E., Orroth, K. K., White, R. G., Glynn, J. R., Bakker, R., Boily, M. C., Habbema, D., Buve, A., Hayes, R. J. Proportion of new HIV infections attributable to herpes simplex 2 increases over time: simulations of the changing role of sexually transmitted infections in sub-Saharan African HIV epidemics. Sexually Transmitted Infections 83, I17-I24 (2007).",,,
viral,hiv+hsv,2009,interventions,vaccination,-,-,IBM,"Freeman, E. E., White, R. G., Bakker, R., Orroth, K. K., Weiss, H. A., Buve, A., Hayes, R. J., Glynn, J. R. Population-level effect of potential HSV2 prophylactic vaccines on HIV incidence in sub-Saharan Africa. Vaccine 27, 940-946 (2009).",,,
viral,hiv+hsv,2015,interventions,drugs,-,yes,Microsimulation,"Jewell, B. L., Cremin, I., Pickles, M., Celum, C., Baeten, J. M., Delany-Moretlwe, S., Hallett, T. B. Estimating the Cost-Effectiveness of Pre-Exposure Prophylaxis to Reduce HIV-1 and HSV-2 Incidence in HIV-Serodiscordant Couples in South Africa. Plos One 10 (2015).",,,
viral,hpv,2007,methods,-,fitting,-,Microsimulation,"Goldhaber-Fiebert, J. D., Stout, N. K., Ortendahl, J., Kuntz, K. M., Goldie, S. J., Salomon, J. A. Modeling human papillomavirus and cervical cancer in the United States for analyses of screening and vaccination. Popul Health Metr 5, 11 (2007).",,,
viral,hpv,2007,interventions,vaccination,-,yes,Other,"Kim, J. J., Andres-Beck, B., Goldie, S. J. The value of including boys in an HPV vaccination programme: a cost-effectiveness analysis in a low-resource setting. British Journal of Cancer 97, 1322-1328 (2007).",,,
viral,hpv,2009,interventions,vaccination,-,yes,Microsimulation,"de Kok, I. M., van Ballegooijen, M., Habbema, J. D. Cost-effectiveness analysis of human papillomavirus vaccination in the Netherlands. J Natl Cancer Inst 101, 1083-92 (2009).",,,
viral,hpv,2010,interventions,vaccination,-,yes,ABM,"Olsen, J., Jepsen, M. R. Human papillomavirus transmission and cost-effectiveness of introducing quadrivalent HPV vaccination in Denmark. International Journal of Technology Assessment in Health Care 26, 183-191 (2010).",,,
viral,hpv,2010,interventions,vaccination+screening,-,yes,Microsimulation,"Accetta, G., Biggeri, A., Carreras, G., Lippi, G., Carozzi, F. M., Confortini, M., Zappa, M., Paci, E. Is human papillomavirus screening preferable to current policies in vaccinated and unvaccinated women? A cost-effectiveness analysis. Journal of Medical Screening 17, 181-189 (2010).",,,
viral,hpv,2010,interventions,vaccination+screening,-,yes,Microsimulation,"Diaz, M., de Sanjose, S., Ortendahl, J., O'Shea, M., Goldie, S. J., Bosch, F. X., Kim, J. J. Cost-effectiveness of human papillomavirus vaccination and screening in Spain. European Journal of Cancer 46, 2973-2985 (2010).",,,
viral,hpv,2011,interventions,vaccination+screening,-,yes,IBM,"Bogaards, J. A., Coupe, V. M. H., Meijer, C. J. L. M., Berkhof, J. The clinical benefit and cost-effectiveness of human papillomavirus vaccination for adult women in the Netherlands. Vaccine 29, 8929-8936 (2011).",,,
viral,hpv,2011,interventions,vaccination,-,-,IBM,"Bogaards, J. A., Coupe, V. M. H., Xiridou, M., Meijer, C. J. L. M., Wallinga, J., Berkhof, J. Long-term Impact of Human Papillomavirus Vaccination on Infection Rates, Cervical Abnormalities, and Cancer Incidence. Epidemiology 22, 505-515 (2011).",,,
viral,hpv,2011,interventions,vaccination,-,-,IBM,"Brisson, M., Van de Velde, N., Boily, M. C. Different population-level vaccination effectiveness for HPV types 16, 18, 6 and 11. Sexually Transmitted Infections 87, 41-43 (2011).",,,
viral,hpv,2011,interventions,vaccination,-,-,IBM,"Brisson, M., van de Velde, N., Franco, E. L., Drolet, M., Boily, M. C. Incremental Impact of Adding Boys to Current Human Papillomavirus Vaccination Programs: Role of Herd Immunity. Journal of Infectious Diseases 204, 372-376 (2011).",,,
viral,hpv,2011,methods,-,concept,yes,Microsimulation,"O'Mahony, J. F., de Kok, I. M., van Rosmalen, J., Habbema, J. D., Brouwer, W., van Ballegooijen, M. Practical implications of differential discounting in cost-effectiveness analyses with varying numbers of cohorts. Value Health 14, 438-42 (2011).",,,
viral,hpv,2012,interventions,vaccination,-,-,IBM,"Choi, Y. H., Chapman, R., Gay, N., Jit, M. Potential overestimation of HPV vaccine impact due to unmasking of non-vaccine types: Quantification using a multi-type mathematical model. Vaccine 30, 3383-3388 (2012).",,,
viral,hpv,2012,interventions,vaccination+screening,-,yes,IBM,"Coupe, V. M. H., Bogaards, J. A., Meijer, C. J. L. M., Berkhof, J. Impact of vaccine protection against multiple HPV types on the cost-effectiveness of cervical screening. Vaccine 30, 1813-1822 (2012).",,,
viral,hpv,2012,interventions,vaccination,-,-,IBM,"Van de Velde, N., Boily, M. C., Drolet, M., Franco, E. L., Mayrand, M. H., Kliewer, E. V., Coutlee, F., Laprise, J. F., Malagon, T., Brisson, M. Population-Level Impact of the Bivalent, Quadrivalent, and Nonavalent Human Papillomavirus Vaccines: A Model-Based Analysis. Journal of the National Cancer Institute 104, 1712-1723 (2012).",,,
viral,hpv,2012,interventions,vaccination+screening,-,yes,IBM,"Vanni, T., Luz, P. M., Foss, A., Mesa-Frias, M., Legood, R. Economic modelling assessment of the HPV quadrivalent vaccine in Brazil: A dynamic individual-based approach. Vaccine 30, 4866-4871 (2012).",,,
viral,hpv,2012,interventions,vaccination,-,-,Microsimulation,"Kiatpongsan, S., Campos, N. G., Kim, J. J. Potential Benefits of Second-Generation Human Papillomavirus Vaccines. Plos One 7 (2012).",,,
viral,hpv,2013,dynamics,-,-,-,IBM,"Malagon, T., Joumier, V., Boily, M. C., Van de Velde, N., Drolet, M., Brisson, M. The impact of differential uptake of HPV vaccine by sexual risks on health inequalities: a model-based analysis. Vaccine 31, 1740-7 (2013).",,,
viral,hpv,2013,interventions,vaccination,-,yes,IBM,"Brisson, M., Laprise, J. F., Drolet, M., Van de Velde, N., Franco, E. L., Kliewer, E. V., Ogilvie, G., Deeks, S. L., Boily, M. C. Comparative cost-effectiveness of the quadrivalent and bivalent human papillomavirus vaccines: a transmission-dynamic modeling study. Vaccine 31, 3863-71 (2013).",,,
viral,hpv,2013,interventions,vaccination,-,-,IBM,"Drolet, M., Boily, M. C., Van de Velde, N., Franco, E. L., Brisson, M. Vaccinating Girls and Boys with Different Human Papillomavirus Vaccines: Can It Optimise Population-Level Effectiveness?. PLoS One 8, e67072 (2013).",,,
viral,hpv,2014,interventions,vaccination,-,yes,IBM,"Drolet, M., Laprise, J. F., Boily, M. C., Franco, E. L., Brisson, M. Potential cost-effectiveness of the nonavalent human papillomavirus (HPV) vaccine. Int J Cancer 134, 2264-8 (2014).",,,
viral,hpv,2014,interventions,vaccination,-,yes,IBM,"Laprise, J. F., Drolet, M., Boily, M. C., Jit, M., Sauvageau, C., Franco, E. L., Lemieux-Mellouki, P., Malagon, T., Brisson, M. Comparing the cost-effectiveness of two- and three-dose schedules of human papillomavirus vaccination: a transmission-dynamic modelling study. Vaccine 32, 5845-53 (2014).",,,
viral,hpv,2015,interventions,vaccination,-,yes,ABM,"Olsen, J., Jorgensen, T. R. Revisiting the cost-effectiveness of universal HPV-vaccination in Denmark accounting for all potentially vaccine preventable HPV-related diseases in males and females. Cost Eff Resour Alloc 13, 4 (2015).",,,
viral,hpv,2015,interventions,vaccination,-,yes,ABM,"Ryser, M. D., McGoff, K., Herzog, D. P., Sivakoff, D. J., Myers, E. R. Impact of coverage-dependent marginal costs on optimal HPV vaccination strategies. Epidemics 11, 32-47 (2015).",,,
viral,hpv,2015,interventions,vaccination+screening,-,yes,IBM,"Levin, C. E., Sharma, M., Olson, Z., Verguet, S., Shi, J. F., Wang, S. M., Qiao, Y. L., Jamison, D., Kim, J. J. An extended cost-effectiveness analysis of publicly financed HPV vaccination to prevent cervical cancer in China. Vaccine (2015).",,,
viral,hpv,2015,interventions,vaccination+screening,-,-,IBM,"Malagon, T., Drolet, M., Boily, M. C., Laprise, J. F., Brisson, M. Changing inequalities in cervical cancer: modeling the impact of vaccine uptake, vaccine herd effects, and cervical cancer screening in the post-vaccination era. Cancer Epidemiol Biomarkers Prev 24, 276-85 (2015).",,,
viral,hpv,2015,dynamics,-,-,-,Microsimulation,"Matthijsse, S. M., van Rosmalen, J., Hontelez, J. A. C., Bakker, R., de Kok, I. M. C. M., van Ballegooijen, M., de Vlas, S. J. The Role of Acquired Immunity in the Spread of Human Papillomavirus (HPV): Explorations with a Microsimulation Model. Plos One 10 (2015).",,,
viral,hpv,2015,interventions,vaccination,-,-,Microsimulation,"Matthijsse, S. M., Hontelez, J. A. C., Naber, S. K., van Rosmalen, J., Rozemeijer, K., Penning, C., Bakker, R., van Ballegooijen, M., de Kok, I. M. C. M., de Vlas, S. J. The estimated impact of natural immunity on the effectiveness of human papillomavirus vaccination. Vaccine 33, 5357-5364 (2015).",,,
viral,influenza,2006,interventions,distancing,-,-,ABM,"Deguchi, Hiroshi, Kanatani, Yasuhiro, Kaneda, Toshiyuki, Koyama, Yusuke, Ichikawa, Manabu, Tanuma, Hideki, Ieee, Anti pandemic simulation by SOARS. 2006 SICE-ICASE International Joint Conference, Vols 1-13, 2224-2229 (2006).",,,
viral,influenza,2006,dynamics,-,-,-,CA,"Lawniczak, A. T., Fuks, H., Di Stefano, B. Individually based SIR models, their motivation, and their spatio-temporal dynamics. Dynamics of Continuous Discrete and Impulsive Systems-Series a-Mathematical Analysis 13, 437-455 (2006).",,,
viral,influenza,2006,interventions,vaccination+drugs+distancing,-,-,IBM,"Merler, Stefano, Jurman, Giuseppe, Furlanello, Cesare, Ieee, Strategies for containing an influenza pandemic: the case of Italy. 2006 1st Bio-Inspired Models of Network, Information and Computing Systems, 40-46 (2006).",,,
viral,influenza,2006,interventions,vaccination+drugs+distancing,-,-,Other,"Carrat, F., Luong, J., Lao, H., Salle, A. V., Lajaunie, C., Wackernagel, H. A 'small-world-like' model for comparing interventions aimed at preventing and controlling influenza pandemics. BMC Med 4, 26 (2006).",,,
viral,influenza,2006,interventions,vaccination+drugs+distancing,-,-,Other,"Germann, T. C., Kadau, K., Longini, I. M., Jr., Macken, C. A. Mitigation strategies for pandemic influenza in the United States. Proc Natl Acad Sci U S A 103, 5935-40 (2006).",,,
viral,influenza,2007,dynamics,-,-,-,ABM,"Stroud, P., Del Valle, S., Sydoriak, S., Riese, J., Mniszewski, S. Spatial Dynamics of Pandemic Influenza in a Massive Artificial Society. Jasss-the Journal of Artificial Societies and Social Simulation 10 (2007).",,,
viral,influenza,2007,methods,-,performance,-,ABM,"Dibble, C., Wendel, S., Carle, K. Simulating pandemic influenza risks of US cities. Proceedings of the 2007 Winter Simulation Conference, Vols 1-5, 1527-1529 (2007).",,,
viral,influenza,2007,methods,-,concept,-,ABM,"Rao, D. M., Chernyakhovsky, A., Rao, V. SEARUMS: Studying epidemiology of avian influenza rapidly using modeling and simulation. Wcecs 2007: World Congress on Engineering and Computer Science, 667-672 (2007).",,,
viral,influenza,2007,methods,-,concept,-,IBM,"Ohkusa, Y., Sugawara, T. Application of an individual-based model with real data for transportation mode and location to pandemic influenza. J Infect Chemother 13, 380-9 (2007).",,,
viral,influenza,2007,methods,-,concept,-,IBM,"Sattenspiel, L., , Sattenspiel, L. Modeling the Geographic Spread of Infectious Diseases Using Population- and Individual-Based Approaches. Biomat 2006, 103-121 (2007).",,,
viral,influenza,2007,interventions,distancing,-,-,Other,"Glass, K., Barnes, B. How much would closing schools reduce transmission during an influenza pandemic?. Epidemiology 18, 623-628 (2007).",,,
viral,influenza,2007,interventions,vaccination,-,-,Other,"Vardavas, R., Breban, R., Blower, S. Can influenza epidemics be prevented by voluntary vaccination?. Plos Computational Biology 3, 796-802 (2007).",,,
viral,influenza,2008,dynamics,-,-,-,ABM,"Kim, T., Hwang, W. C., Zhang, A. D., Sell, S., Ramanathan, M. Multi-Agent Model Analysis of the Containment Strategy for Avian Influenza (AI) in South Korea. 2008 Ieee International Conference on Bioinformatics and Biomedicine, Proceedings, 335-338 (2008).",,,
viral,influenza,2008,interventions,distancing,-,-,ABM,"Davey, V. J., Glass, R. J. Rescinding community mitigation strategies in an influenza pandemic. Emerging Infectious Diseases 14, 365-372 (2008).",,,
viral,influenza,2008,interventions,distancing+drugs+vaccination,-,-,ABM,"Davey, V. J., Glass, R. J., Min, H. J., Beyeler, W. E., Glass, L. M. Effective, Robust Design of Community Mitigation for Pandemic Influenza: A Systematic Examination of Proposed US Guidance. Plos One 3 (2008).",,,
viral,influenza,2008,interventions,distancing+drugs+vaccination,-,-,ABM,"Mniszewski, S. M., Del Valle, S. Y., Stroud, P. D., Riese, J. M., Sydoriak, S. J. Pandemic simulation of antivirals plus school closures: buying time until strain-specific vaccine is available. Computational and Mathematical Organization Theory 14, 209-221 (2008).",,,
viral,influenza,2008,interventions,health_practice+distancing,-,-,ABM,"Putro, U. S., Novani, S., Siallagan, M., Deguchi, H., Kantani, Y., Kaneda, T., Koyoma, Y., Ichikawa, M., Tanuma, H. Searching for Effective Policies to Prevent Bird Flu Pandemic in Bandung City Using Agent-Based Simulation. Systems Research and Behavioral Science 25, 663-673 (2008).",,,
viral,influenza,2008,methods,-,concept,-,ABM,"Amouroux, E., Desvaux, S., Drogoul, A. Towards Virtual Epidemiology: An Agent-Based Approach to the Modeling of H5N1 Propagation and Persistence in North-Vietnam. Intelligent Agents and Multi-Agent Systems, Proceedings 5357, 26-33 (2008).",,,
viral,influenza,2008,methods,-,fitting,-,ABM,"Cooley, P., Ganapathi, L., Ghneim, G., Holmberg, S., Wheaton, W., Hollingsworth, C. R. Using influenza-like illness data to reconstruct an influenza outbreak. Mathematical and Computer Modelling 48, 929-939 (2008).",,,
viral,influenza,2008,methods,-,concept,-,ABM,"Lee, B. Y., Bedford, V. L., Roberts, M. S., Carley, K. M. Virtual epidemic in a virtual city. simulating the spread of influenza in a US metropolitan area. Translational Research 151, 275-287 (2008).",,,
viral,influenza,2008,methods,-,performance,-,"ABM, CA","Emrich, S., Breitenecker, F., Zauner, G., Popper, N. Simulation of influenza epidemics with a hybrid model-combining Cellular Automata and Agent Based features. Proceedings of the Iti 2008 30th International Conference on Information Technology Interfaces, 709-714 (2008).",,,
viral,influenza,2008,dynamics,-,-,-,"ABM, IBM","Ong, B. S., Chen, M., Lee, V., Tay, J. C. An individual-based model of influenza in nosocomial environments. Computational Science - Iccs 2008, Pt 1 5101, 590-599 (2008).",,,
viral,influenza,2008,dynamics,-,-,-,CA,"Leung, I. X. Y., Gibbs, G., Bagnoli, F., Sorathiya, A., Lio, P. Contact Network Modeling of Flu Epidemics. Cellular Automata, Proceedings 5191, 354-361 (2008).",,,
viral,influenza,2008,interventions,distancing+drugs+vaccination,-,-,IBM,"degli Atti, M. L. C., Merler, S., Rizzo, C., Ajelli, M., Massari, M., Manfredi, P., Furlanello, C., Tomba, G. S., Iannelli, M. Mitigation Measures for Pandemic Influenza in Italy: An Individual Based Model Considering Different Scenarios. Plos One 3 (2008).",,,
viral,influenza,2008,interventions,distancing+drugs,-,-,IBM,"Halloran, M. E., Ferguson, N. M., Eubank, S., Longini, I. M., Cummings, D. A. T., Lewis, B., Xu, S. F., Fraser, C., Vullikanti, A., Germann, T. C., Wagener, D., Beckman, R., Kadau, K., Barrett, C., Macken, C. A., Burke, D. S., Cooley, P. Modeling targeted layered containment of an influenza pandemic in the United States. Proceedings of the National Academy of Sciences of the United States of America 105, 4639-4644 (2008).",,,
viral,influenza,2008,interventions,distancing,-,-,IBM,"Milne, G. J., Kelso, J. K., Kelly, H. A., Huband, S. T., McVernon, J. A Small Community Model for the Transmission of Infectious Diseases: Comparison of School Closure as an Intervention in Individual-Based Models of an Influenza Pandemic. Plos One 3 (2008).",,,
viral,influenza,2008,interventions,vaccination,-,-,IBM,"van den Dool, C., Bonten, M. J. M., Hak, E., Heijne, J. C. M., Wallinga, J. The Effects of Influenza Vaccination of Health Care Workers in Nursing Homes: Insights from a Mathematical Model. Plos Medicine 5, 1453-1460 (2008).",,,
viral,influenza,2008,interventions,distancing+vaccination,-,-,IBM,"Yasuda, H., Yoshizawa, N., Kimura, M., Shigematsu, M., Matsumoto, M., Kawachi, S., Oshima, M., Yamamoto, K., Suzuki, K. Preparedness for the spread of influenza: Prohibition of traffic, school closure, and vaccination of children in the commuter towns of Tokyo. Journal of Urban Health-Bulletin of the New York Academy of Medicine 85, 619-635 (2008).",,,
viral,influenza,2008,methods,-,concept,-,IBM,"Ajelli, M., Merler, S. The Impact of the Unstructured Contacts Component in Influenza Pandemic Modeling. Plos One 3 (2008).",,,
viral,influenza,2008,methods,-,performance,-,IBM,"Barrett, C. L., Bisset, K. R., Eubank, S. G., Feng, X. Z., Marathe, M. V. EpiSimdemics: an Efficient Algorithm for Simulating the Spread of Infectious Disease over Large Realistic Social Networks. International Conference for High Performance Computing, Networking, Storage and Analysis, 372-383 (2008).",,,
viral,influenza,2008,methods,-,concept,-,Other,"Yang, Y., Atkinson, P. M. Individual space-time activity-based model: a model for the simulation of airborne infectious-disease transmission by activity-bundle simulation. Environment and Planning B-Planning & Design 35, 80-99 (2008).",,,
viral,influenza,2009,dynamics,-,-,-,ABM,"Carpenter, C., Sattenspiel, L. The Design and Use of an Agent-Based Model to Simulate the 1918 Influenza Epidemic at Norway House, Manitoba. American Journal of Human Biology 21, 290-300 (2009).",,,
viral,influenza,2009,methods,-,concept,-,ABM,"Aleman, D. M., Wibisono, T. G., Schwartz, B. Accounting for Individual Behaviors in a Pandemic Disease Spread Model. Proceedings of the 2009 Winter Simulation Conference (Wsc 2009 ), Vol 1-4, 1928-1936 (2009).",,,
viral,influenza,2009,methods,-,concept,-,ABM,"Rao, D. M., Chernyakhovsky, A., Rao, V. Modeling and analysis of global epidemiology of avian influenza. Environmental Modelling & Software 24, 124-134 (2009).",,,
viral,influenza,2009,interventions,distancing+drugs+vaccination,-,yes,"ABM, Microsimulation","Sander, B., Nizam, A., Garrison, L. P., Postma, M. J., Halloran, M. E., Longini, I. M. Economic Evaluation of Influenza Pandemic Mitigation Strategies in the United States Using a Stochastic Microsimulation Transmission Model. Value in Health 12, 226-233 (2009).",,,
viral,influenza,2009,methods,-,concept,-,CA,"Li, K., Tian, S. L., Geng, L. J., Zhang, X. Type a influenza H1N1 Based on Cellular Automata. Acc 2009: Etp/Iita World Congress in Applied Computing, Computer Science, and Computer Engineering, 218-220 (2009).",,,
viral,influenza,2009,dynamics,-,-,-,IBM,"Ohkusa, Y., Sugawara, T. Simulation Model of Pandemic Influenza in the Whole of Japan. Japanese Journal of Infectious Diseases 62, 98-106 (2009).",,,
viral,influenza,2009,interventions,distancing,-,-,IBM,"Kelso, J. K., Milne, G. J., Kelly, H. Simulation suggests that rapid activation of social distancing can arrest epidemic development due to a novel strain of influenza. Bmc Public Health 9 (2009).",,,
viral,influenza,2009,interventions,drugs,-,-,IBM,"Merler, S., Ajelli, M., Rizzo, C. Age-prioritized use of antivirals during an influenza pandemic. Bmc Infectious Diseases 9 (2009).",,,
viral,influenza,2009,interventions,drugs,-,-,IBM,"van den Dool, C., Hak, E., Bonten, M. J. M., Wallinga, J. A Model-based Assessment of Oseltamivir Prophylaxis Strategies to Prevent Influenza in Nursing Homes. Emerging Infectious Diseases 15, 1547-1555 (2009).",,,
viral,influenza,2009,interventions,vaccination,-,yes,Microsimulation,"Brouwers, L., Cakici, B., Camitz, M., Tegnell, A., Boman, M. Economic consequences to society of pandemic H1N1 influenza 2009 - preliminary results for Sweden. Euro Surveill 14 (2009).",,,
viral,influenza,2009,interventions,vaccination,-,-,Other,"Sypsa, V., Pavlopoulou, I., Hatzakis, A. Use of an Inactivated Vaccine in Mitigating Pandemic Influenza a(H1n1) Spread: A Modelling Study to Assess the Impact of Vaccination Timing and Prioritisation Strategies. Eurosurveillance 14, 2-5 (2009).",,,
viral,influenza,2009,methods,-,performance,-,Other,"Bisset, K. R., Chen, J. Z., Feng, X. Z., Kumar, V. S. A., Marathe, M. V. EpiFast: A Fast Algorithm for Large Scale Realistic Epidemic Simulations on Distributed Memory Systems. Ics'09: Proceedings of the 2009 Acm Sigarch International Conference on Supercomputing, 430-439 (2009).",,,
viral,influenza,2010,dynamics,-,-,-,ABM,"Lizon, N. E., Aleman, D. M., Schwartz, B. Incorporating Healthcare Systems in Pandemic Models. Proceedings of the 2010 Winter Simulation Conference, 2230-2236 (2010).",,,
viral,influenza,2010,dynamics,-,-,-,ABM,"O'neil, C. A., Sattenspiel, L. Agent-Based Modeling of the Spread of the 1918-1919 Flu in Three Canadian Fur Trading Communities. American Journal of Human Biology 22, 757-767 (2010).",,,
viral,influenza,2010,dynamics,-,-,-,ABM,"Shi, P., Keskinocak, P., Swann, J. L., Lee, B. Y. Modelling seasonality and viral mutation to predict the course of an influenza pandemic. Epidemiology and Infection 138, 1472-1481 (2010).",,,
viral,influenza,2010,interventions,screening+drugs,-,-,ABM,"Chin, J. X., Koh, G., Lee, D. Y. How necessary is a fast testkit for mitigation of pandemic flu?. Journal of the Royal Society Interface 7, 1033-1047 (2010).",,,
viral,influenza,2010,interventions,vaccination,-,-,ABM,"Cooley, P., Lee, B. Y., Brown, S., Cajka, J., Chasteen, B., Ganapathi, L., Stark, J. H., Wheaton, W. D., Wagener, D. K., Burke, D. S. Protecting health care workers: a pandemic simulation based on Allegheny County. Influenza and Other Respiratory Viruses 4, 61-72 (2010).",,,
viral,influenza,2010,interventions,vaccination,-,-,ABM,"Lee, B. Y., Brown, S. T., Cooley, P., Grefenstette, J. J., Zimmerman, R. K., Zimmer, S. M., Potter, M. A., Rosenfeld, R., Wheaton, W. D., Wiringa, A. E., Bacon, K. M., Burke, D. S. Vaccination Deep Into a Pandemic Wave Potential Mechanisms for a \Third Wave\"" and the Impact of Vaccination. American Journal of Preventive Medicine 39"," E21-E29 (2010).""",,
viral,influenza,2010,interventions,distancing,-,-,ABM,"Lee, B. Y., Brown, S. T., Cooley, P., Potter, M. A., Wheaton, W. D., Voorhees, R. E., Stebbins, S., Grefenstette, J. J., Zimmer, S. M., Zimmerman, R. K., Assi, T. M., Bailey, R. R., Wagener, D. K., Burke, D. S. Simulating School Closure Strategies to Mitigate an Influenza Epidemic. Journal of Public Health Management and Practice 16, 252-261 (2010).",,,
viral,influenza,2010,interventions,vaccination,-,yes,ABM,"Lee, B. Y., Brown, S. T., Cooley, P. C., Zimmerman, R. K., Wheaton, W. D., Zimmer, S. M., Grefenstette, J. J., Assi, T. M., Furphy, T. J., Wagener, D. K., Burke, D. S. A Computer Simulation of Employee Vaccination to Mitigate an Influenza Epidemic. American Journal of Preventive Medicine 38, 247-257 (2010).",,,
viral,influenza,2010,interventions,vaccination,-,-,ABM,"Lee, B. Y., Brown, S. T., Korch, G. W., Cooley, P. C., Zimmerman, R. K., Wheaton, W. D., Zimmer, S. M., Grefenstette, J. J., Bailey, R. R., Assi, T. M., Burke, D. S. A computer simulation of vaccine prioritization, allocation, and rationing during the 2009 H1N1 influenza pandemic. Vaccine 28, 4875-4879 (2010).",,,
viral,influenza,2010,interventions,vaccination,-,-,ABM,"Milne, G., Kelso, J., Kelly, H. Strategies for mitigating an influenza pandemic with pre-pandemic H5N1 vaccines. Journal of the Royal Society Interface 7, 573-586 (2010).",,,
viral,influenza,2010,interventions,distancing,-,-,ABM,"Peng, S. Y., Yang, K., Xu, Q. L., Wang, J. S., Xiong, J. H., Liu, L. S. A Simulation Study of H1N1 Space-time Epidemic Based on Agent-based Modeling. 2010 18th International Conference on Geoinformatics (2010).",,,
viral,influenza,2010,interventions,distancing+drugs,-,yes,ABM,"Perlroth, D. J., Glass, R. J., Davey, V. J., Cannon, D., Garber, A. M., Owens, D. K. Health Outcomes and Costs of Community Mitigation Strategies for an Influenza Pandemic in the United States. Clinical Infectious Diseases 50, 165-174 (2010).",,,
viral,influenza,2010,interventions,vaccination,-,-,ABM,"Polgreen, P. M., Tassier, T. L., Pemmaraju, S. V., Segre, A. M. Prioritizing Healthcare Worker Vaccinations on the Basis of Social Network Analysis. Infection Control and Hospital Epidemiology 31, 893-900 (2010).",,,
viral,influenza,2010,interventions,vaccination,-,-,ABM,"Shaw, L., Spears, W., Billings, L., Maxim, P. Effective vaccination policies. Information Sciences 180, 3728-3744 (2010).",,,
viral,influenza,2010,methods,-,concept,-,ABM,"Dibble, C., , Dibble, C. Effective Real-Time Allocation of Pandemic Interventions. Proceedings of the 2010 Winter Simulation Conference, 2211-2220 (2010).",,,
viral,influenza,2010,methods,-,concept,-,ABM,"Peng, S. Y., Yang, K., Xu, Q. L., Huang, B. M. An Intelligent Simulation Study of H1N1 Transmission in the GIS Environment. Proceedings of 2010 Asia-Pacific Youth Conference on Communication, Vols 1 and 2, 678-682 (2010).",,,
viral,influenza,2010,methods,-,concept,-,ABM,"Wang, J. S., Xiong, J. H., Yang, K., Peng, S. Y., Xu, Q. L. Use of GIS and Agent-Based Modeling to Simulate the Spread of Influenza. 2010 18th International Conference on Geoinformatics (2010).",,,
viral,influenza,2010,interventions,drugs,-,yes,"ABM, IBM","Chen, J. Z., Marathe, A., Marathe, M. Coevolution of Epidemics, Social Networks, and Individual Behavior: A Case Study. Advances in Social Computing, Proceedings 6007, 218-227 (2010).",,,
viral,influenza,2010,methods,-,concept,-,"ABM, IBM","Rakowski, F., Gruziel, M., Bieniasz-Krzywiec, L., Radomski, J. P. Influenza epidemic spread simulation for Poland - a large scale, individual based model study. Physica a-Statistical Mechanics and Its Applications 389, 3149-3165 (2010).",,,
viral,influenza,2010,dynamics,-,-,-,IBM,"Mao, L., Bian, L. Spatial-temporal transmission of influenza and its health risks in an urbanized area. Computers Environment and Urban Systems 34, 204-215 (2010).",,,
viral,influenza,2010,dynamics,-,-,-,IBM,"Merler, S., Ajelli, M. The role of population heterogeneity and human mobility in the spread of pandemic influenza. Proceedings of the Royal Society B-Biological Sciences 277, 557-565 (2010).",,,
viral,influenza,2010,interventions,distancing+drugs,-,-,IBM,"Halder, N., Kelso, J. K., Milne, G. J. Analysis of the effectiveness of interventions used during the 2009 A/H1N1 influenza pandemic. Bmc Public Health 10 (2010).",,,
viral,influenza,2010,interventions,distancing+drugs,-,-,IBM,"Halder, N., Kelso, J. K., Milne, G. J. Developing guidelines for school closure interventions to be used during a future influenza pandemic. Bmc Infectious Diseases 10 (2010).",,,
viral,influenza,2010,interventions,distancing+vaccination,-,-,IBM,"Mei, S., van de Vijver, D., Xuan, L., Zhu, Y. F., Sloot, P. M. A. Quantitatively Evaluating Interventions in the Influenza A (H1N1) Epidemic on China Campus Grounded on Individual-based Simulations. Iccs 2010 - International Conference on Computational Science, Proceedings 1, 1669-1676 (2010).",,,
viral,influenza,2010,interventions,distancing+drugs,-,-,IBM,"Morimoto, T., Ishikawa, H. Assessment of intervention strategies against a novel influenza epidemic using an individual-based model. Environ Health Prev Med 15, 151-61 (2010).",,,
viral,influenza,2010,interventions,vaccination,-,-,IBM,"Morimoto, T., Ishikawa, H. Evaluation of vaccination strategies to suppress a novel influenza pandemic using an individual-based model. Nihon Eiseigaku Zasshi 65, 459-66 (2010).",,,
viral,influenza,2010,interventions,vaccination,-,-,IBM,"Taylor, C., Marathe, A., Beckman, R. Same influenza vaccination strategies but different outcomes across US cities?. International Journal of Infectious Diseases 14, E792-E795 (2010).",,,
viral,influenza,2010,methods,-,concept,-,IBM,"Koelle, K., Khatri, P., Kamradt, M., Kepler, T. B. A two-tiered model for simulating the ecological and evolutionary dynamics of rapidly evolving viruses, with an application to influenza. Journal of the Royal Society Interface 7, 1257-1274 (2010).",,,
viral,influenza,2010,methods,-,performance,-,IBM,"Tsai, M. T., Chern, T. C., Chuang, J. H., Hsueh, C. W., Kuo, H. S., Liau, C. J., Riley, S., Shen, B. J., Shen, C. H., Wang, D. W., Hsu, T. S. Efficient Simulation of the Spatial Transmission Dynamics of Influenza. Plos One 5 (2010).",,,
viral,influenza,2010,interventions,vaccination+drugs+distancing,-,yes,Other,"Andradottir, S., Chiu, W. C., Goldsman, D., Lee, M. L., Tsui, K. L., Fisman, D. N., Sander, B., Nizam, A. Simulation of Strategies for Containing Pandemic Influenza. Proceedings of the 2010 Winter Simulation Conference, 2221-2229 (2010).",,,
viral,influenza,2010,interventions,drugs,-,yes,Other,"Shim, E., Chapman, G. B., Galvani, A. P. Decision Making with Regard to Antiviral Intervention during an Influenza Pandemic. Medical Decision Making 30, E64-E81 (2010).",,,
viral,influenza,2010,interventions,distancing+drugs,-,-,Other,"Xiao, H., Tian, H. Y., Shao, L., Zhao, J. A., Xu, J. Z. Spatio-temporal Simulation of Epidemiological SIQR Model Based on the Multi-Agent System with Focus on Influenza A (H1N1). Computational Intelligence and Intelligent Systems 107, 180-189 (2010).",,,
viral,influenza,2010,methods,-,concept,-,Other,"Chao, D. L., Halloran, M. E., Obenchain, V. J., Longini, I. M. FluTE, a Publicly Available Stochastic Influenza Epidemic Simulation Model. Plos Computational Biology 6 (2010).",,,
viral,influenza,2010,methods,-,concept,-,Other,"Liu, T., Li, X., Liu, X. P. Integration of small world networks with multi-agent systems for simulating epidemic spatiotemporal transmission. Chinese Science Bulletin 55, 1285-1293 (2010).",,,
viral,influenza,2011,dynamics,-,-,-,ABM,"Cooley, P., Brown, S., Cajka, J., Chasteen, B., Ganapathi, L., Grefenstette, J., Hollingsworth, C. R., Lee, B. Y., Levine, B., Wheaton, W. D., Wagener, D. K. The Role of Subway Travel in an Influenza Epidemic: A New York City Simulation. Journal of Urban Health-Bulletin of the New York Academy of Medicine 88, 982-995 (2011).",,,
viral,influenza,2011,dynamics,-,-,-,ABM,"Laskowski, M., Mostaco-Guidolin, L. C., Greer, A. L., Wu, J. H., Moghadas, S. M. The Impact of Demographic Variables on Disease Spread: Influenza in Remote Communities. Scientific Reports 1 (2011).",,,
viral,influenza,2011,dynamics,-,-,-,ABM,"Loganathan, P., Sundaramoorthy, S., Lakshminarayanan, S. Modeling information feedback during H1N1 outbreak using stochastic agent-based models. Asia-Pacific Journal of Chemical Engineering 6, 391-397 (2011).",,,
viral,influenza,2011,interventions,distancing,-,yes,ABM,"Brown, S. T., Tai, J. H. Y., Bailey, R. R., Cooley, P. C., Wheaton, W. D., Potter, M. A., Voorhees, R. E., LeJeune, M., Grefenstette, J. J., Burke, D. S., McGlone, S. M., Lee, B. Y. Would school closure for the 2009 H1N1 influenza epidemic have been worth the cost?: a computational simulation of Pennsylvania. Bmc Public Health 11 (2011).",,,
viral,influenza,2011,interventions,vaccination,-,-,ABM,"Fu, F., Rosenbloom, D. I., Wang, L., Nowak, M. A. Imitation dynamics of vaccination behaviour on social networks. Proceedings of the Royal Society B-Biological Sciences 278, 42-49 (2011).",,,
viral,influenza,2011,interventions,distancing,-,-,ABM,"Mao, L., , Mao, L. Agent-based simulation for weekend-extension strategies to mitigate influenza outbreaks. Bmc Public Health 11 (2011).",,,
viral,influenza,2011,interventions,distancing,-,-,ABM,"Paleshi, A., Evans, G. W., Heragu, S. S., Moghaddam, K. S. Simulation of Mitigation Strategies for a Pandemic Influenza. Proceedings of the 2011 Winter Simulation Conference (Wsc), 1340-1348 (2011).",,,
viral,influenza,2011,methods,-,concept,-,ABM,"Aleman, D. M., Wibisono, T. G., Schwartz, B. A Nonhomogeneous Agent-Based Simulation Approach to Modeling the Spread of Disease in a Pandemic Outbreak. Interfaces 41, 301-315 (2011).",,,
viral,influenza,2011,methods,-,concept,-,ABM,"Laskowski, M., Demianyk, B. C. P., Witt, J., Mukhi, S. N., Friesen, M. R., McLeod, R. D. Agent-Based Modeling of the Spread of Influenza-Like Illness in an Emergency Department: A Simulation Study. Ieee Transactions on Information Technology in Biomedicine 15, 877-889 (2011).",,,
viral,influenza,2011,methods,-,concept,-,ABM,"Mao, L., Bian, L. Agent-based simulation for a dual-diffusion process of influenza and human preventive behavior. International Journal of Geographical Information Science 25, 1371-1388 (2011).",,,
viral,influenza,2011,methods,-,performance,-,ABM,"Parker, J., Epstein, J. M. A Distributed Platform for Global-Scale Agent-Based Models of Disease Transmission. Acm Transactions on Modeling and Computer Simulation 22 (2011).",,,
viral,influenza,2011,interventions,distancing,-,-,"ABM, IBM","Yang, Y., Atkinson, P. M., Ettema, D. Analysis of CDC social control measures using an agent-based simulation of an influenza epidemic in a city. Bmc Infectious Diseases 11 (2011).",,,
viral,influenza,2011,methods,-,concept,-,"ABM, IBM","Kelso, J. K., Milne, G. J. Stochastic individual-based modelling of influenza spread for the assessment of public health interventions. 19th International Congress on Modelling and Simulation (Modsim2011), 933-939 (2011).",,,
viral,influenza,2011,methods,-,concept,-,"ABM, IBM","Nsoesie, E. O., Beckman, R., Marathe, M., Lewis, B. Prediction of an Epidemic Curve: A Supervised Classification Approach. Stat Commun Infect Dis 3 (2011).",,,
viral,influenza,2011,methods,-,concept,-,"ABM, IBM","Roche, B., Drake, J. M., Rohani, P. An Agent-Based Model to study the epidemiological and evolutionary dynamics of Influenza viruses. Bmc Bioinformatics 12 (2011).",,,
viral,influenza,2011,dynamics,-,-,-,IBM,"Shaman, J., Jeon, C. Y., Giovannucci, E., Lipsitch, M. Shortcomings of Vitamin D-Based Model Simulations of Seasonal Influenza. Plos One 6 (2011).",,,
viral,influenza,2011,interventions,distancing,-,yes,IBM,"Barrett, C., Bisset, K., Leidig, J., Marathe, A., Marathe, M. Economic and social impact of influenza mitigation strategies by demographic class. Epidemics 3, 19-31 (2011).",,,
viral,influenza,2011,interventions,distancing+drugs,-,yes,IBM,"Halder, N., Kelso, J. K., Milne, G. J. Cost-Effective Strategies for Mitigating a Future Influenza Pandemic with H1N1 2009 Characteristics. Plos One 6 (2011).",,,
viral,influenza,2011,interventions,distancing,-,yes,IBM,"Ridenhour, B. J., Braun, A., Teyrasse, T., Goldsman, D. Controlling the Spread of Disease in Schools. Plos One 6 (2011).",,,
viral,influenza,2011,interventions,distancing,-,-,IBM,"Zhang, T. Y., Fu, X. J., Kwoh, C. K., Xiao, G. X., Wong, L., Ma, S., Soh, H., Lee, G. K. K., Hung, T., Lees, M. Temporal factors in school closure policy for mitigating the spread of influenza. Journal of Public Health Policy 32, 180-197 (2011).",,,
viral,influenza,2011,methods,-,concept,-,IBM,"Pellis, L., Ferguson, N. M., Fraser, C. Epidemic growth rate and household reproduction number in communities of households, schools and workplaces. Journal of Mathematical Biology 63, 691-734 (2011).",,,
viral,influenza,2011,methods,-,fitting,-,IBM,"Smieszek, T., Balmer, M., Hattendorf, J., Axhausen, K. W., Zinsstag, J., Scholz, R. W. Reconstructing the 2003/2004 H3N2 influenza epidemic in Switzerland with a spatially explicit, individual-based model. Bmc Infectious Diseases 11 (2011).",,,
viral,influenza,2011,dynamics,-,-,-,Microsimulation,"Green, A., Zhang, Y., Piper, I., Keep, D. Application of Microsimulation to Disease Transmission and Control. 19th International Congress on Modelling and Simulation (Modsim2011), 919-925 (2011).",,,
viral,influenza,2011,dynamics,-,-,-,Microsimulation,"Merler, S., Ajelli, M., Pugliese, A., Ferguson, N. M. Determinants of the Spatiotemporal Dynamics of the 2009 H1N1 Pandemic in Europe: Implications for Real-Time Modelling. Plos Computational Biology 7 (2011).",,,
viral,influenza,2011,dynamics,-,-,-,Other,"Cornforth, D. M., Reluga, T. C., Shim, E., Bauch, C. T., Galvani, A. P., Meyers, L. A. Erratic Flu Vaccination Emerges from Short-Sighted Behavior in Contact Networks. Plos Computational Biology 7 (2011).",,,
viral,influenza,2011,interventions,vaccination+drugs+distancing,-,yes,Other,"Andradottir, S., Chiu, W. C., Goldsman, D., Lee, M. L., Tsui, K. L., Sander, B., Fisman, D. N., Nizam, A. Reactive strategies for containing developing outbreaks of pandemic influenza. Bmc Public Health 11 (2011).",,,
viral,influenza,2011,methods,-,concept,-,Other,"Fierro, A., Liccardo, A. A simple stochastic lattice gas model for H1N1 pandemic. Application to the Italian epidemiological data. European Physical Journal E 34 (2011).",,,
viral,influenza,2012,dynamics,-,-,-,ABM,"Hashemian, M., Stanley, K., Osgood, N. Leveraging H1N1 infection transmission modeling with proximity sensor microdata. BMC Med Inform Decis Mak 12, 35 (2012).",,,
viral,influenza,2012,dynamics,-,-,-,ABM,"Potter, M. A., Brown, S. T., Lee, B. Y., Grefenstette, J., Keane, C. R., Lin, C. J., Quinn, S. C., Stebbins, S., Sweeney, P. M., Burke, D. S. Preparedness for Pandemics: Does Variation Among States Affect the Nation as a Whole?. Journal of Public Health Management and Practice 18, 233-240 (2012).",,,
viral,influenza,2012,interventions,vaccination+distancing,-,-,ABM,"Beeler, M. F., Aleman, D. M., Carter, M. W. A Large Simulation Experiment to Test Influenza Pandemic Behavior. 2012 Winter Simulation Conference (Wsc) (2012).",,,
viral,influenza,2012,interventions,distancing,-,-,ABM,"Potter, M. A., Brown, S. T., Cooley, P. C., Sweeney, P. M., Hershey, T. B., Gleason, S. M., Lee, B. Y., Keane, C. R., Grefenstette, J., Burke, D. S. School closure as an influenza mitigation strategy: how variations in legal authority and plan criteria can alter the impact. Bmc Public Health 12 (2012).",,,
viral,influenza,2012,methods,-,concept,-,ABM,"Cheng, Z. L., Qiu, X. G., Zhang, P., Meng, R. Q. An Agent-Based Artificial Transportation System Framework for H1N1 Transmission Simulation. Systems Simulation and Scientific Computing, Pt I 326, 313-321 (2012).",,,
viral,influenza,2012,methods,-,emulation,-,ABM,"Paparian, J., Brown, S., Burke, D., Grefenstette, J. FRED Navigator: An Interactive System for Visualizing Results from Large-scale Epidemic Simulations. 2012 Ieee 8th International Conference on E-Science (E-Science) (2012).",,,
viral,influenza,2012,methods,-,concept,-,ABM,"Sukumar, S. R., Nutaro, J. J. Agent-based vs. Equation-based Epidemiological Models A Model Selection Case Study. 2012 Ase International Conference on Biomedical Computing (Biomedcom), 74-79 (2012).",,,
viral,influenza,2012,dynamics,-,-,-,IBM,"Nsoesie, E. O., Beckman, R. J., Marathe, M. V. Sensitivity Analysis of an Individual-Based Model for Simulation of Influenza Epidemics. Plos One 7 (2012).",,,
viral,influenza,2012,interventions,distancing,-,-,IBM,"Zhang, T. Y., Fu, X. J., Ma, S., Xiao, G. X., Wong, L. S., Kwoh, C. K., Lees, M., Lee, G. K. K., Hung, T. Evaluating Temporal Factors in Combined Interventions of Workforce Shift and School Closure for Mitigating the Spread of Influenza. Plos One 7 (2012).",,,
viral,influenza,2012,methods,-,concept,-,IBM,"Bian, L., Huang, Y. X., Mao, L., Lim, E., Lee, G., Yang, Y., Cohen, M., Wilson, D. Modeling Individual Vulnerability to Communicable Diseases: A Framework and Design. Annals of the Association of American Geographers 102, 1016-1025 (2012).",,,
viral,influenza,2013,dynamics,-,-,-,ABM,"Ge, Y. Z., Song, Z. C., Qiu, X. G., Song, H. B., Wang, Y. Modular and hierarchical structure of social contact networks. Physica a-Statistical Mechanics and Its Applications 392, 4619-4628 (2013).",,,
viral,influenza,2013,dynamics,-,-,-,ABM,"Laskowski, M., Duvvuri, V. R., Buckeridge, D. L., Wu, G., Wu, J., Moghadas, S. M. Influenza H3N2 variant viruses with pandemic potential: preventing catastrophe in remote and isolated Canadian communities. Prev Med 57, 910-3 (2013).",,,
viral,influenza,2013,dynamics,-,-,-,ABM,"Lewis, B., Eubank, S., Abrams, A. M., Kleinman, K. in silico Surveillance: evaluating outbreak detection with simulation models. Bmc Medical Informatics and Decision Making 13 (2013).",,,
viral,influenza,2013,interventions,distancing,-,-,ABM,"Kumar, S., Grefenstette, J. J., Galloway, D., Albert, S. M., Burke, D. S. Policies to reduce influenza in the workplace: impact assessments using an agent-based model. Am J Public Health 103, 1406-11 (2013).",,,
viral,influenza,2013,interventions,distancing+vaccination,-,-,ABM,"Luangkesorn, K. L., Ghiasabadi, F., Chhatwal, J. 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 19 Suppl 2, S37-41 (2013).",,,
viral,influenza,2013,interventions,vaccination,-,-,ABM,"Saito, M. M., Imoto, S., Yamaguchi, R., Tsubokura, M., Kami, M., Nakada, H., Sato, H., Miyano, S., Higuchi, T. Enhancement of collective immunity in Tokyo metropolitan area by selective vaccination against an emerging influenza pandemic. PLoS One 8, e72866 (2013).",,,
viral,influenza,2013,methods,-,concept,-,ABM,"Duan, W., Cao, Z. D., Wang, Y. Z., Zhu, B., Zeng, D., Wang, F. Y., Qiu, X. G., Song, H. B., Wang, Y. An ACP Approach to Public Health Emergency Management: Using a Campus Outbreak of H1N1 Influenza as a Case Study. Ieee Transactions on Systems Man Cybernetics-Systems 43, 1028-1041 (2013).",,,
viral,influenza,2013,methods,-,concept,-,ABM,"Grefenstette, J. J., Brown, S. T., Rosenfeld, R., DePasse, J., Stone, N. T., Cooley, P. C., Wheaton, W. D., Fyshe, A., Galloway, D. D., Sriram, A., Guclu, H., Abraham, T., Burke, D. S. 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 13, 940 (2013).",,,
viral,influenza,2013,interventions,distancing+screening,-,-,"ABM, Microsimulation","Merler, S., Ajelli, M., Fumanelli, L., Vespignani, A. Containing the accidental laboratory escape of potential pandemic influenza viruses. BMC Med 11, 252 (2013).",,,
viral,influenza,2013,dynamics,-,-,-,IBM,"Milne, G. J., Baskaran, P., Halder, N., Karl, S., Kelso, J. Pandemic influenza in Papua New Guinea: a modelling study comparison with pandemic spread in a developed country. Bmj Open 3 (2013).",,,
viral,influenza,2013,dynamics,-,-,-,IBM,"Omori, R., Sasaki, A. Timing of the emergence of new successful viral strains in seasonal influenza. J Theor Biol 329, 32-8 (2013).",,,
viral,influenza,2013,dynamics,-,-,-,IBM,"Xia, H. D., Nagaraj, K., Chen, J. Z., Marathe, M. Evaluating strategies for pandemic response in Delhi using realistic social networks. 2013 Ieee International Conference on Healthcare Informatics (Ichi 2013), 121-130 (2013).",,,
viral,influenza,2013,interventions,distancing,-,-,IBM,"Boni, M. F., Nguyen, T. D., de Jong, M. D., van Doorn, H. R. Virulence attenuation during an influenza A/H5N1 pandemic. Philos Trans R Soc Lond B Biol Sci 368, 20120207 (2013).",,,
viral,influenza,2013,interventions,distancing+vaccination,-,-,IBM,"Miller, L., Jones, T., Morgan, M., Lapin, S., Schwartz, E. J. Individual-Based Computational Model Used to Explain 2009 Pandemic H1n1 in Rural Campus Community. Journal of Biological Systems 21 (2013).",,,
viral,influenza,2013,methods,-,concept,-,IBM,"Hyder, A., Buckeridge, D. L., Leung, B. Predictive validation of an influenza spread model. PLoS One 8, e65459 (2013).",,,
viral,influenza,2013,methods,-,concept,-,IBM,"Nsoesie, E., Mararthe, M., Brownstein, J. Forecasting peaks of seasonal influenza epidemics. PLoS Curr 5 (2013).",,,
viral,influenza,2013,methods,-,concept,-,IBM,"Nsoesie, E. O., Beckman, R. J., Shashaani, S., Nagaraj, K. S., Marathe, M. V. A Simulation Optimization Approach to Epidemic Forecasting. PLoS One 8, e67164 (2013).",,,
viral,influenza,2013,dynamics,-,-,-,Other,"Shao, Q., Tang, Z. X., Jia, M. Super Spreader, Age Structure and Group Behavior: A Cluster of Influences on Influenza Diffusion within Public Transport Stations. Journal of Pure and Applied Microbiology 7, 695-701 (2013).",,,
viral,influenza,2013,interventions,vaccination,-,-,Other,"Schumm, P., Schumm, W., Scoglio, C. Impact of Preventive Responses to Epidemics in Rural Regions. Plos One 8 (2013).",,,
viral,influenza,2013,methods,-,concept,-,Other,"Liccardo, A., Fierro, A. A Lattice Model for Influenza Spreading. Plos One 8 (2013).",,,
viral,influenza,2014,dynamics,-,-,-,ABM,"Collinson, S., Heffernan, J. M. Modelling the effects of media during an influenza epidemic. BMC Public Health 14, 376 (2014).",,,
viral,influenza,2014,interventions,drugs,-,-,ABM,"Laskowski, M., Greer, A. L., Moghadas, S. M. Antiviral strategies for emerging influenza viruses in remote communities. PLoS One 9, e89651 (2014).",,,
viral,influenza,2014,interventions,distancing,-,-,ABM,"Martinez, D. L., Das, T. K. Design of non-pharmaceutical intervention strategies for pandemic influenza outbreaks. BMC Public Health 14, 1328 (2014).",,,
viral,influenza,2014,methods,-,concept,-,ABM,"Lukens, S., DePasse, J., Rosenfeld, R., Ghedin, E., Mochan, E., Brown, S. T., Grefenstette, J., Burke, D. S., Swigon, D., Clermont, G. A large-scale immuno-epidemiological simulation of influenza A epidemics. BMC Public Health 14, 1019 (2014).",,,
viral,influenza,2014,methods,-,fitting,-,ABM,"Prieto, D., Das, T. K. An operational epidemiological model for calibrating agent-based simulations of pandemic influenza outbreaks. Health Care Manag Sci (2014).",,,
viral,influenza,2014,methods,-,concept,-,"ABM, IBM","Mao, L., , Mao, L. Modeling triple-diffusions of infectious diseases, information, and preventive behaviors through a metropolitan social network-An agent-based simulation. Applied Geography 50, 31-39 (2014).",,,
viral,influenza,2014,dynamics,-,-,-,IBM,"Liu, F. C., Enanoria, W. T. A., Ray, K. J., Coffee, M. P., Gordon, A., Aragon, T. J., Yu, G. W., Cowling, B. J., Porco, T. C. Effect of the One-Child Policy on Influenza Transmission in China: A Stochastic Transmission Model. Plos One 9 (2014).",,,
viral,influenza,2014,interventions,distancing,-,-,IBM,"Ajelli, M., Poletti, P., Melegaro, A., Merler, S. The role of different social contexts in shaping influenza transmission during the 2009 pandemic. Sci Rep 4, 7218 (2014).",,,
viral,influenza,2014,interventions,vaccination,-,-,IBM,"Eichner, M., Schwehm, M., Hain, J., Uphoff, H., Salzberger, B., Knuf, M., Schmidt-Ott, R. 4Flu - an individual based simulation tool to study the effects of quadrivalent vaccination on seasonal influenza in Germany. BMC Infect Dis 14, 365 (2014).",,,
viral,influenza,2014,interventions,distancing+drugs+vaccination,-,yes,IBM,"Halder, N., Kelso, J. K., Milne, G. J. A model-based economic analysis of pre-pandemic influenza vaccination cost-effectiveness. BMC Infect Dis 14, 266 (2014).",,,
viral,influenza,2014,interventions,vaccination,-,-,Other,"Dan, Y. M., Gavious, A., Solnik, E., Davidovitch, N., Balicer, R. D., Galvani, A. P., Pliskin, J. S. An Innovative Influenza Vaccination Policy: Targeting Last Season's Patients. Plos Computational Biology 10 (2014).",,,
viral,influenza,2014,interventions,screening+drugs,-,-,Other,"Marinovic, A. A. B., Koopmans, M., Dittrich, S., Teunis, P., Swaan, C., van Steenbergen, J., Kretzschmar, M. Speed versus coverage trade off in targeted interventions during an outbreak. Epidemics 8, 28-40 (2014).",,,
viral,influenza,2014,methods,-,concept,-,Other,"Malik, R., Deardon, R., Kwong, G. P. S., Cowling, B. J. Individual-level modeling of the spread of influenza within households. Journal of Applied Statistics 41, 1578-1592 (2014).",,,
viral,influenza,2015,dynamics,-,-,-,ABM,"Collinson, S., Khan, K., Heffernan, J. M. The Effects of Media Reports on Disease Spread and Important Public Health Measurements. Plos One 10 (2015).",,,
viral,influenza,2015,dynamics,-,-,-,ABM,"Genois, M., Vestergaard, C. L., Fournet, J., Panisson, A., Bonmarin, I., Barrat, A. Data on face-to-face contacts in an office building suggest a low-cost vaccination strategy based on community linkers. Network Science 3, 326-347 (2015).",,,
viral,influenza,2015,dynamics,-,-,-,ABM,"Guo, D., Li, K. C., Peters, T. R., Snively, B. M., Poehling, K. A., Zhou, X. Multi-scale modeling for the transmission of influenza and the evaluation of interventions toward it. Sci Rep 5, 8980 (2015).",,,
viral,influenza,2015,dynamics,-,-,-,ABM,"Kumar, S., Piper, K., Galloway, D. D., Hadler, J. L., Grefenstette, J. J. Is population structure sufficient to generate area-level inequalities in influenza rates? An examination using agent-based models. Bmc Public Health 15 (2015).",,,
viral,influenza,2015,dynamics,-,-,-,ABM,"Shao, Q., Jia, M. Influences on influenza transmission within terminal based on hierarchical structure of personal contact network. Bmc Public Health 15 (2015).",,,
viral,influenza,2015,interventions,distancing+vaccination,-,-,ABM,"Karimi, E., Schmitt, K., Akgunduz, A. Effect of individual protective behaviors on influenza transmission: an agent-based model. Health Care Manag Sci (2015).",,,
viral,influenza,2015,interventions,vaccination,-,-,ABM,"Laskowski, M., Xiao, Y., Charland, N., Moghadas, S. M. Strategies for Early Vaccination During Novel Influenza Outbreaks. Scientific Reports 5 (2015).",,,
viral,influenza,2015,interventions,vaccination,-,yes,ABM,"Lee, B. Y., Bartsch, S. M., Brown, S. T., Cooley, P., Wheaton, W. D., Zimmerman, R. K. Quantifying the economic value and quality of life impact of earlier influenza vaccination. Med Care 53, 218-29 (2015).",,,
viral,influenza,2015,interventions,vaccination,-,-,ABM,"Lee, E. K., Yuan, F., Pietz, F. H., Benecke, B. A., Burel, G. Vaccine Prioritization for Effective Pandemic Response. Interfaces 45, 425-443 (2015).",,,
viral,influenza,2015,methods,-,concept,-,ABM,"Elsasser, R., Ogierman, A., Meier, M. Epidemics and Their Implications in Urban Environments: A Case Study on a National Scope. Simulation and Modeling Methodologies, Technologies and Applications (Simultech) 319, 55-70 (2015).",,,
viral,influenza,2015,methods,-,concept,-,ABM,"Weng, W. G., Ni, S. J. Evaluation of containment and mitigation strategies for an influenza A pandemic in China. Simulation-Transactions of the Society for Modeling and Simulation International 91, 407-416 (2015).",,,
viral,influenza,2015,dynamics,-,-,-,IBM,"Xu, C. L., Chan, K. H., Tsang, T. K., Fang, V. J., Fung, R. O. P., Ip, D. K. M., Cauchemez, S., Leung, G. M., Peiris, J. S. M., Cowling, B. J. Comparative Epidemiology of Influenza B Yamagata- and Victoria-Lineage Viruses in Households. American Journal of Epidemiology 182, 705-713 (2015).",,,
viral,influenza,2015,methods,-,concept,-,IBM,"Hall, M., Woolhouse, M., Rambaut, A. Epidemic Reconstruction in a Phylogenetics Framework: Transmission Trees as Partitions of the Node Set. PLoS Comput Biol 11, e1004613 (2015).",,,
viral,influenza,2015,methods,-,concept,-,Other,"Liccardo, A., Fierro, A. Multiple Lattice Model for Influenza Spreading. Plos One 10 (2015).",,,
viral,measles,2008,interventions,vaccination,-,-,IBM,"Grais, R. F., Conlan, A. J. K., Ferrari, M. J., Djibo, A., Le Menach, A., Bjornstad, O. N., Grenfell, B. T. Time is of the essence: exploring a measles outbreak response vaccination in Niamey, Niger. Journal of the Royal Society Interface 5, 67-74 (2008).",,,
viral,measles,2009,methods,-,concept,-,ABM,"Perez, L., Dragicevic, S. An agent-based approach for modeling dynamics of contagious disease spread. International Journal of Health Geographics 8 (2009).",,,
viral,measles,2015,interventions,screening+vaccination,-,-,ABM,"Liu, F. C., Enanoria, W. T. A., Zipprich, J., Blumberg, S., Harriman, K., Ackley, S. F., Wheaton, W. D., Allpress, J. L., Porco, T. C. The role of vaccination coverage, individual behaviors, and the public health response in the control of measles epidemics: an agent-based simulation for California. Bmc Public Health 15 (2015).",,,
viral,measles,2015,dynamics,-,-,-,IBM,"Marguta, R., Parisi, A. Impact of human mobility on the periodicities and mechanisms underlying measles dynamics. J R Soc Interface 12, 20141317 (2015).",,,
viral,measles,2015,interventions,vaccination,-,-,IBM,"Thompson, K. M., Kisjes, K. H. Modeling Measles Transmission in the North American Amish and Options for Outbreak Response. Risk Anal (2015).",,,
viral,norovirus,2014,dynamics,-,-,-,ABM,"Bartsch, S. M., Huang, S. S., Wong, K. F., Avery, T. R., Lee, B. Y. The spread and control of norovirus outbreaks among hospitals in a region: a simulation model. Open Forum Infect Dis 1, ofu030 (2014).",,,
viral,polio,2011,methods,-,concept,-,IBM,"Rahmandad, H., Hu, K., Tebbens, R. J. D., Thompson, K. M. Development of an individual-based model for polioviruses: implications of the selection of network type and outcome metrics. Epidemiology and Infection 139, 836-848 (2011).",,,
viral,polio,2014,dynamics,-,-,-,IBM,"Kisjes, K. H., Tebbens, R. J. D., Wallace, G. S., Pallansch, M. A., Cochi, S. L., Wassilak, S. G. F., Thompson, K. M. Individual-Based Modeling of Potential Poliovirus Transmission in Connected Religious Communities in North America With Low Uptake of Vaccination. Journal of Infectious Diseases 210, S424-S433 (2014).",,,
viral,polio,2014,interventions,vaccination,-,-,IBM,"Wagner, B. G., Behrend, M. R., Klein, D. J., Upfill-Brown, A. M., Eckhoff, P. A., Hu, H. Quantifying the impact of expanded age group campaigns for polio eradication. PLoS One 9, e113538 (2014).",,,
viral,polio,2015,dynamics,-,-,-,IBM,"Kim, J. H., Rho, S. H. Transmission dynamics of oral polio vaccine viruses and vaccine-derived polioviruses on networks. Journal of Theoretical Biology 364, 266-274 (2015).",,,
viral,rsv,2010,interventions,vaccination,-,yes,Other,"Acedo, L., Morano, J. A., Diez-Domingo, J. Cost analysis of a vaccination strategy for respiratory syncytial virus (RSV) in a network model. Mathematical and Computer Modelling 52, 1016-1022 (2010).",,,
viral,rsv,2015,interventions,vaccination,-,-,IBM,"Poletti, P., Merler, S., Ajelli, M., Manfredi, P., Munywoki, P. K., Nokes, D. J., Melegaro, A. Evaluating vaccination strategies for reducing infant respiratory syncytial virus infection in low-income settings. Bmc Medicine 13 (2015).",,,
viral,sars,2006,methods,-,concept,-,CA,"Hsieh, J. L., Sun, C. T., Kao, G. Y. M., Huang, C. Y. Teaching through simulation: Epidemic dynamics and public health policies. Simulation-Transactions of the Society for Modeling and Simulation International 82, 731-759 (2006).",,,
viral,sars,2006,methods,-,concept,-,IBM,"Zhou, Jieping, Gong, Jianhua, Li, Wenhang Human daily behavior based simulation for epidemic transmission: A case study of SARS. ICAT 2006: 16th International Conference on Artificial Reality and Telexistence - Worshops, Proceedings, 589-593 (2006).",,,
viral,sars,2006,dynamics,-,-,-,Other,"Small, M., Tse, C. K., Walker, D. M. Super-spreaders and the rate of transmission of the SARS virus. Physica D-Nonlinear Phenomena 215, 146-158 (2006).",,,
viral,sars,2007,methods,-,concept,-,ABM,"Tian, C. H., Ding, W., Cao, R. Z., Jiang, S. Extensive epidemic spreading model based on multi-agent system framework. Computational Science - ICCS 2007, Pt 4, Proceedings 4490, 129-133 (2007).",,,
viral,sars,2007,dynamics,-,-,-,CA,"Jin, Z., Liu, Q. X., Mainul, H. A cellular automata model with probability infection and spatial dispersion. Chinese Physics 16, 1267-1275 (2007).",,,
viral,sars,2009,interventions,vaccination+screening,-,-,ABM,"Xu, Z. W., Sui, D. Z. Effect of Small-World Networks on Epidemic Propagation and Intervention. Geographical Analysis 41, 263-282 (2009).",,,
viral,sars,2010,methods,-,concept,-,ABM,"Yu, B., Wang, J. J., McGowan, M., Vaidyanathan, G., Younger, K. Gryphon: A Hybrid Agent-Based Modeling and Simulation Platform for Infectious Diseases. Advances in Social Computing, Proceedings 6007, 199-207 (2010).",,,
viral,sars,2013,dynamics,-,-,-,ABM,"Duan, W., Qiu, X. G., Cao, Z. D., Zheng, X. L., Cui, K. N. Heterogeneous and Stochastic Agent-Based Models for Analyzing Infectious Diseases' Super Spreaders. Ieee Intelligent Systems 28, 18-25 (2013).",,,
viral,smallpox,2006,interventions,vaccination+screening+distancing,-,-,"ABM, IBM","Burke, D. S., Epstein, J. M., Cummings, D. A., Parker, J. I., Cline, K. C., Singa, R. M., Chakravarty, S. Individual-based computational modeling of smallpox epidemic control strategies. Acad Emerg Med 13, 1142-9 (2006).",,,
viral,smallpox,2006,interventions,distancing+screening+vaccination,-,-,IBM,"Riley, S., Ferguson, N. M. Smallpox transmission and control: spatial dynamics in Great Britain. Proc Natl Acad Sci U S A 103, 12637-42 (2006).",,,
viral,smallpox,2010,interventions,distancing+vaccination,-,-,IBM,"Zenihana, T., Ishikawa, H. Effectiveness assessment of countermeasures against bioterrorist smallpox attacks in Japan using an individual-based model. Environ Health Prev Med 15, 84-93 (2010).",,,
viral,smallpox,2010,interventions,vaccination,-,-,Microsimulation,"Brouwers, L., Boman, M., Camitz, M., Makila, K., Tegnell, A. Micro-simulation of a smallpox outbreak using official register data. Eurosurveillance 15, 17-24 (2010).",,,
viral,smallpox,2011,interventions,vaccination,-,-,Other,"Wells, C. R., Tchuenche, J. M., Meyers, L. A., Galvani, A. P., Bauch, C. T. Impact of Imitation Processes on the Effectiveness of Ring Vaccination. Bulletin of Mathematical Biology 73, 2748-2772 (2011).",,,
viral,smallpox,2012,interventions,screening+vaccination,-,-,IBM,"Sato, H., Sakurai, Y. The Contribution of Residents Who Cooperate With Ring-Vaccination Measures Against Smallpox Epidemic. Disaster Medicine and Public Health Preparedness 6, 270-276 (2012).",,,
viral,smallpox,2012,interventions,vaccination,-,-,Other,"Vidondo, B., Schwehm, M., Buhlmann, A., Eichner, M. Finding and removing highly connected individuals using suboptimal vaccines. Bmc Infectious Diseases 12 (2012).",,,
viral,varicella,2009,methods,-,concept,-,CA,"Monteiro, L. H. A., Oliveira, D. N., Chaui-Berlinck, J. G. The Effect of Spatial Scale on Predicting Time Series: A Study on Epidemiological System Identification. Mathematical Problems in Engineering (2009).",,,
viral,varicella,2011,dynamics,-,-,-,IBM,"Silhol, R., Boelle, P. Y. Modelling the Effects of Population Structure on Childhood Disease: The Case of Varicella. Plos Computational Biology 7 (2011).",,,
viral,varicella,2015,dynamics,-,-,-,IBM,"Ogunjimi, B., Willem, L., Beutels, P., Hens, N. Integrating between-host transmission and within-host immunity to analyze the impact of varicella vaccination on zoster. Elife 4 (2015).",,,
zoonose,foot_and_mouth_disease,2010,methods,-,fitting,-,Other,"Deardon, R., Brooks, S. P., Grenfell, B. T., Keeling, M. J., Tildesley, M. J., Savill, N. J., Shaw, D. J., Woolhouse, M. E. J. Inference for Individual-Level Models of Infectious Diseases in Large Populations. Statistica Sinica 20, 239-261 (2010).",,,