Connecting the dots: network data and models in HIV epidemiology
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[1] Anne-Mieke Vandamme,et al. Edinburgh Research Explorer Phylogenetic surveillance of viral genetic diversity and the evolving molecular epidemiology of human immunodeficiency virus type 1 , 2007 .
[2] Martina Morris,et al. statnet: Software Tools for the Representation, Visualization, Analysis and Simulation of Network Data. , 2008, Journal of statistical software.
[3] N. Hens,et al. Concurrent partnerships in Cape Town, South Africa: race and sex differences in prevalence and duration of overlap , 2015, Journal of the International AIDS Society.
[4] B. Mustanski,et al. A Data-Driven Simulation of HIV Spread Among Young Men Who Have Sex With Men: Role of Age and Race Mixing and STIs , 2015, Journal of acquired immune deficiency syndromes.
[5] Katy Robinson,et al. How the Dynamics and Structure of Sexual Contact Networks Shape Pathogen Phylogenies , 2013, PLoS Comput. Biol..
[6] Jeffrey W. Eaton,et al. HPTN 071 (PopART): A Cluster-Randomized Trial of the Population Impact of an HIV Combination Prevention Intervention Including Universal Testing and Treatment: Mathematical Model , 2014, PloS one.
[7] Stanley Wasserman,et al. Social Network Analysis: Methods and Applications , 1994, Structural analysis in the social sciences.
[8] Tanja Stadler,et al. Uncovering epidemiological dynamics in heterogeneous host populations using phylogenetic methods , 2013, Philosophical Transactions of the Royal Society B: Biological Sciences.
[9] J. O. Wertheim,et al. Using Molecular HIV Surveillance Data to Understand Transmission Between Subpopulations in the United States , 2015, Journal of acquired immune deficiency syndromes.
[10] S. Rowniak. Safe sex fatigue, treatment optimism, and serosorting: new challenges to HIV prevention among men who have sex with men. , 2009, The Journal of the Association of Nurses in AIDS Care : JANAC.
[11] J. Hogan,et al. Phylogenetic Investigation of a Statewide HIV-1 Epidemic Reveals Ongoing and Active Transmission Networks Among Men Who Have Sex With Men , 2015, Journal of acquired immune deficiency syndromes.
[12] S. Buchbinder,et al. Sexual Networks and HIV Risk among Black Men Who Have Sex with Men in 6 U.S. Cities , 2015, PloS one.
[13] Martin Crane,et al. Model refinement through high-performance computing: an agent-based HIV example , 2010, Immunome research.
[14] David R Hunter,et al. ergm.userterms: A Template Package for Extending statnet. , 2013, Journal of statistical software.
[15] S. Helleringer,et al. Women Underestimate the Age of Their Partners During Survey Interviews: Implications for HIV Risk Associated With Age Mixing in Northern Malawi , 2011, Sexually transmitted diseases.
[16] Stéphane Helleringer,et al. Serosorting and the Evaluation of HIV Testing and Counseling for HIV Prevention in Generalized Epidemics , 2010, AIDS and Behavior.
[17] Jeremy E. Oakley,et al. Bayesian History Matching of Complex Infectious Disease Models Using Emulation: A Tutorial and a Case Study on HIV in Uganda , 2015, PLoS Comput. Biol..
[18] The association of HIV serodiscordance and partnership concurrency in Likoma Island (Malawi) , 2009, AIDS.
[19] Ann M. Dennis,et al. HIV Transmission Patterns Among Immigrant Latinos Illuminated by the Integration of Phylogenetic and Migration Data. , 2015, AIDS research and human retroviruses.
[20] W Mandell,et al. The relationship between risk networks' patterns of crack cocaine and alcohol consumption and HIV-related sexual behaviors among adult injection drug users: a prospective study. , 1996, Drug and alcohol dependence.
[21] Chung-Yuan Huang,et al. An Agent-Based Epidemic Simulation of Social Behaviors Affecting HIV Transmission among Taiwanese Homosexuals , 2015, Comput. Math. Methods Medicine.
[22] Matthew Hogben,et al. The effectiveness of HIV partner counseling and referral services in increasing identification of HIV-positive individuals a systematic review. , 2007, American journal of preventive medicine.
[23] Marc Lipsitch,et al. Development, Calibration and Performance of an HIV Transmission Model Incorporating Natural History and Behavioral Patterns: Application in South Africa , 2014, PloS one.
[24] R. Brookmeyer,et al. Combination HIV Prevention among MSM in South Africa: Results from Agent-based Modeling , 2014, PloS one.
[25] Deborah Watson-Jones,et al. HPTN 071 (PopART): Rationale and design of a cluster-randomised trial of the population impact of an HIV combination prevention intervention including universal testing and treatment – a study protocol for a cluster randomised trial , 2014, Trials.
[26] R. Garfein,et al. HIV prevalence, risk behaviors, and high-risk sexual and injection networks among young women injectors who have sex with women. , 2003, American journal of public health.
[27] S. Kalichman,et al. A strategy for selecting sexual partners believed to pose little/no risks for HIV: serosorting and its implications for HIV transmission , 2009, AIDS care.
[28] M Kretzschmar,et al. Measures of concurrency in networks and the spread of infectious disease. , 1996, Mathematical biosciences.
[29] M. Wawer,et al. The relational determinants of condom use with commercial sex partners in Thailand , 1995, AIDS (London).
[30] S Q Muth,et al. Social networks in disease transmission: the Colorado Springs Study. , 1995, NIDA research monograph.
[31] L. Dandona,et al. Social network and risk-taking behavior most associated with rapid HIV testing, circumcision, and preexposure prophylaxis acceptability among high-risk Indian men. , 2012, AIDS patient care and STDs.
[32] C. Fraser,et al. PANGEA-HIV: phylogenetics for generalised epidemics in Africa. , 2015, Lancet. Infectious Diseases (Print).
[33] Benjamin Armbruster,et al. The reliability of sexual partnership histories: implications for the measurement of partnership concurrency during surveys , 2011, AIDS.
[34] Tanja Stadler,et al. Assessment of Overlap of Phylogenetic Transmission Clusters and Communities in Simple Sexual Contact Networks: Applications to HIV-1 , 2016, PloS one.
[35] A. Barabasi,et al. Halting viruses in scale-free networks. , 2001, Physical review. E, Statistical, nonlinear, and soft matter physics.
[36] M. Hudgens,et al. A Peer-Educator Network HIV Prevention Intervention Among Injection Drug Users: Results of a Randomized Controlled Trial in St. Petersburg, Russia , 2013, AIDS and Behavior.
[37] P. Diaconis,et al. Estimating and understanding exponential random graph models , 2011, 1102.2650.
[38] Emily C. Pike,et al. Investigating a Sexual Network of Black Men Who Have Sex With Men: Implications for Transmission and Prevention of HIV Infection in the United States , 2012, Journal of acquired immune deficiency syndromes.
[39] C. Wilke,et al. Contact Heterogeneity and Phylodynamics: How Contact Networks Shape Parasite Evolutionary Trees , 2010, Interdisciplinary perspectives on infectious diseases.
[40] Bas E. Dutilh,et al. Dispersion of the HIV-1 Epidemic in Men Who Have Sex with Men in the Netherlands: A Combined Mathematical Model and Phylogenetic Analysis , 2015, PLoS medicine.
[41] P. Sloot,et al. Combining Epidemiological and Genetic Networks Signifies the Importance of Early Treatment in HIV-1 Transmission , 2012, PloS one.
[42] Martina Morris,et al. Timing Is Everything: International Variations in Historical Sexual Partnership Concurrency and HIV Prevalence , 2010, PloS one.
[43] Erik M. Volz,et al. Inferring the Source of Transmission with Phylogenetic Data , 2013, PLoS Comput. Biol..
[44] Thomas Grund,et al. Modeling the impact of supra-structural network nodes: The case of anonymous syringe sharing and HIV among people who inject drugs. , 2012, Social science research.
[45] Daniel A. McFarland,et al. Dynamic Network Visualization1 , 2005, American Journal of Sociology.
[46] E. Holmes,et al. The molecular epidemiology of human immunodeficiency virus type 1 in Edinburgh. , 1995, The Journal of infectious diseases.
[47] R. Rothenberg,et al. Risk network structure in the early epidemic phase of HIV transmission in Colorado Springs , 2002, Sexually transmitted infections.
[48] Alice J. Nichol,et al. Prevalence and Public Health Implications of State Laws that Criminalize Potential HIV Exposure in the United States , 2014, AIDS and Behavior.
[49] R. Garfein,et al. Evaluating the impact of Mexico’s drug policy reforms on people who inject drugs in Tijuana, B.C., Mexico, and San Diego, CA, United States: a binational mixed methods research agenda , 2014, Harm Reduction Journal.
[50] J. Kaufman,et al. HIV Partner Notification Is Effective and Feasible in Sub-Saharan Africa: Opportunities for HIV Treatment and Prevention , 2011, Journal of acquired immune deficiency syndromes.
[51] Martina Morris,et al. 6. Exponential Family Models for Sampled and Census Network Data , 2004 .
[52] C. Lunny,et al. A systematic review and comparison of HIV contact tracing laws in Canada. , 2011, Health policy.
[53] W. Darrow,et al. Cluster of cases of the acquired immune deficiency syndrome. Patients linked by sexual contact. , 1984, The American journal of medicine.
[54] D. Cummings,et al. The Role of Viral Introductions in Sustaining Community-Based HIV Epidemics in Rural Uganda: Evidence from Spatial Clustering, Phylogenetics, and Egocentric Transmission Models , 2014, PLoS medicine.
[55] J. O. Wertheim,et al. Molecular analysis allows inference into HIV transmission among young men who have sex with men in the United States , 2015, AIDS.
[56] B Ferry,et al. Comparison of key parameters of sexual behaviour in four African urban populations with different levels of HIV infection , 2001, AIDS.
[57] Erik M. Volz,et al. Modelling tree shape and structure in viral phylodynamics , 2013, Philosophical Transactions of the Royal Society B: Biological Sciences.
[58] Petra Himmel,et al. Network Epidemiology A Handbook For Survey Design And Data Collection , 2016 .
[59] Jan Broeckhove,et al. Active Learning to Understand Infectious Disease Models and Improve Policy Making , 2014, PLoS Comput. Biol..
[60] J. Eaton,et al. Refusal bias in HIV prevalence estimates from nationally representative seroprevalence surveys , 2009, AIDS.
[61] Sikhulile Moyo,et al. Phylogenetic Relatedness of Circulating HIV-1C Variants in Mochudi, Botswana , 2013, PloS one.
[62] Joel O. Wertheim,et al. Using HIV Networks to Inform Real Time Prevention Interventions , 2014, PloS one.
[63] M. Morris,et al. INFERENCE FOR SOCIAL NETWORK MODELS FROM EGOCENTRICALLY SAMPLED DATA, WITH APPLICATION TO UNDERSTANDING PERSISTENT RACIAL DISPARITIES IN HIV PREVALENCE IN THE US. , 2017, The annals of applied statistics.
[64] T. F. Rinke de Wit,et al. HIV Type 1 transmission networks among men having sex with men and heterosexuals in Kenya. , 2014, AIDS research and human retroviruses.
[65] Katia Koelle,et al. Phylodynamic Inference and Model Assessment with Approximate Bayesian Computation: Influenza as a Case Study , 2012, PLoS Comput. Biol..
[66] R. Hayes,et al. Commercial sex and the spread of HIV in four cities in sub-Saharan Africa , 2001, AIDS.
[67] M. Egger,et al. Social meets molecular: Combining phylogenetic and latent class analyses to understand HIV-1 transmission in Switzerland. , 2014, American journal of epidemiology.
[68] James Moody,et al. The Importance of Relationship Timing for Diffusion , 2002 .
[69] Andrew D. Redd,et al. Molecular tools for studying HIV transmission in sexual networks , 2014, Current opinion in HIV and AIDS.
[70] E. Lagarde,et al. Concurrent sexual partnerships and HIV prevalence in five urban communities of sub-Saharan Africa , 2001, AIDS.
[71] Martina Morris,et al. Sex, drugs, and race: how behaviors differentially contribute to the sexually transmitted infection risk network structure. , 2013, American journal of public health.
[72] M. Zazzi,et al. Phylogenetic analysis provides evidence of interactions between Italian heterosexual and South American homosexual males as the main source of national HIV‐1 subtype C epidemics , 2014, Journal of medical virology.
[73] Ann M. Dennis,et al. Phylogenetic insights into regional HIV transmission , 2012, AIDS.
[74] Mark S Handcock,et al. MODELING SOCIAL NETWORKS FROM SAMPLED DATA. , 2010, The annals of applied statistics.
[75] M. Morris,et al. Sexual networks and HIV. , 1997, AIDS.
[76] J. Casabona,et al. Use of new technologies to notify possible contagion of sexually-transmitted infections among men. , 2015, Gaceta sanitaria.
[77] Pavel N Krivitsky,et al. Exponential-family random graph models for valued networks. , 2011, Electronic journal of statistics.
[78] Garry Robins,et al. An introduction to exponential random graph (p*) models for social networks , 2007, Soc. Networks.
[79] Tiejun Zhang,et al. Behavioral and Molecular Tracing of Risky Sexual Contacts in a Sample of Chinese HIV-infected Men Who Have Sex With Men , 2013, American journal of epidemiology.
[80] Sikhulile Moyo,et al. Impact of sampling density on the extent of HIV clustering. , 2014, AIDS research and human retroviruses.
[81] P. Kerndt,et al. Evaluation of inSPOTLA.org: An Internet Partner Notification Service , 2012, Sexually transmitted diseases.
[82] R. Guy,et al. Promotion and uptake of a new online partner notification and retesting reminder service for gay men. , 2012, Sexual health.
[83] Steven M. Goodreau,et al. Advances in exponential random graph (p*) models applied to a large social network , 2007, Soc. Networks.
[84] J. Potterat,et al. Social networks and infectious disease: the Colorado Springs Study. , 1994, Social science & medicine.
[85] Simon A. A. Travers,et al. HIV infection in high school students in rural South Africa: role of transmissions among students. , 2014, AIDS research and human retroviruses.
[86] A. Oster,et al. Incorporating Rapid HIV Testing into Partner Counseling and Referral Services , 2008, Public health reports.
[87] B. Bedard,et al. Using Smartphone Apps in STD Interviews to Find Sexual Partners , 2015, Public health reports.
[88] David P. Mindell,et al. Molecular evidence of HIV-1 transmission in a criminal case , 2002, Proceedings of the National Academy of Sciences of the United States of America.
[89] Tulio de Oliveira,et al. Molecular Epidemiology: HIV-1 and HCV sequences from Libyan outbreak , 2006, Nature.
[90] A. Rambaut,et al. Episodic Sexual Transmission of HIV Revealed by Molecular Phylodynamics , 2008, PLoS medicine.
[91] S. Goodreau,et al. Birds of a feather, or friend of a friend? using exponential random graph models to investigate adolescent social networks* , 2009, Demography.
[92] E. O. D. Op de Coul,et al. Initial evaluation of use of an online partner notification tool for STI, called ‘suggest a test’: a cross sectional pilot study , 2014, Sexually Transmitted Infections.
[93] Matthew Golden,et al. Scale-Up and Case-Finding Effectiveness of an HIV Partner Services Program in Cameroon: An Innovative HIV Prevention Intervention for Developing Countries , 2013, Sexually transmitted diseases.
[94] J. T. Boerma,et al. Secretive females or swaggering males? An assessment of the quality of sexual partnership reporting in rural Tanzania. , 2004, Social science & medicine.
[95] Huldrych F. Günthard,et al. Inferring Epidemic Contact Structure from Phylogenetic Trees , 2012, PLoS Comput. Biol..
[96] P. Hewett,et al. Consistency in the reporting of sexual behavior among adolescent girls in Kenya: A comparison of interviewing methods , 2003 .
[97] Till Bärnighausen,et al. Elimination of HIV in South Africa through Expanded Access to Antiretroviral Therapy: A Model Comparison Study , 2013, PLoS medicine.
[98] Martina Morris,et al. Quantifying the Benefits of Link-Tracing Designs for Partnership Network Studies , 2012, Field methods.
[99] R. Ribeiro,et al. Agent-based and phylogenetic analyses reveal how HIV-1 moves between risk groups: injecting drug users sustain the heterosexual epidemic in Latvia. , 2012, Epidemics.
[100] E. Laumann,et al. Racial/ethnic group differences in the prevalence of sexually transmitted diseases in the United States: a network explanation. , 1999, Sexually transmitted diseases.
[101] Albert-László Barabási,et al. Scale-free networks , 2008, Scholarpedia.
[102] S. Helleringer,et al. Sexual network structure and the spread of HIV in Africa: evidence from Likoma Island, Malawi , 2007, AIDS.
[103] S. Helleringer,et al. A New Approach to Measuring Partnership Concurrency and its Association with HIV Risk in Couples , 2014, AIDS and Behavior.
[104] S. Goodreau,et al. What can mathematical models tell us about the relationship between circular migrations and HIV transmission dynamics? , 2014, Mathematical biosciences and engineering : MBE.
[105] Philip A. Eckhoff,et al. Age-dependent partnering and the HIV transmission chain: a microsimulation analysis , 2013, Journal of The Royal Society Interface.
[106] E. Laumann,et al. Social Network Effects on the Transmission of Sexually Transmitted Diseases , 2002, Sexually transmitted diseases.
[107] Sarah Filippi,et al. A framework for parameter estimation and model selection from experimental data in systems biology using approximate Bayesian computation , 2014, Nature Protocols.
[108] Julien Brailly,et al. Exponential Random Graph Models for Social Networks , 2014 .
[109] Steven M. Goodreau,et al. What Drives the US and Peruvian HIV Epidemics in Men Who Have Sex with Men (MSM)? , 2012, PloS one.
[110] Z. Grossman,et al. Men who have sex with men, risk behavior, and HIV infection: integrative analysis of clinical, epidemiological, and laboratory databases. , 2011, Clinical infectious diseases : an official publication of the Infectious Diseases Society of America.
[111] M. Handcock,et al. Bridge populations in the spread of HIV/AIDS in Thailand. , 1996, AIDS.
[112] B. Auvert,et al. Why do young women have a much higher prevalence of HIV than young men? A study in Kisumu, Kenya and Ndola, Zambia , 2001, AIDS.
[113] S. Helleringer,et al. The Likoma Network Study: Context, data collection, and initial results. , 2009, Demographic research.
[114] J. Mullins,et al. Viral Linkage in HIV-1 Seroconverters and Their Partners in an HIV-1 Prevention Clinical Trial , 2011, PloS one.
[115] M. Uhlén,et al. Accurate reconstruction of a known HIV-1 transmission history by phylogenetic tree analysis. , 1996, Proceedings of the National Academy of Sciences of the United States of America.
[116] Martina Morris,et al. Adjusting for Network Size and Composition Effects in Exponential-Family Random Graph Models. , 2010, Statistical methodology.
[117] M. Kretzschmar,et al. Concurrent partnerships and the spread of HIV , 1997, AIDS.
[118] Lei Wang,et al. Analysis of genetic linkage of HIV from couples enrolled in the HIV Prevention Trials Network 052 trial. , 2011, The Journal of infectious diseases.
[119] Martina Morris,et al. Concurrent Partnerships, Acute Infection and HIV Epidemic Dynamics Among Young Adults in Zimbabwe , 2012, AIDS and Behavior.
[120] S. Lockman,et al. Estimated age and gender profile of individuals missed by a home-based HIV testing and counselling campaign in a Botswana community , 2015, Journal of the International AIDS Society.
[121] Erik M. Volz,et al. HIV-1 Transmission during Early Infection in Men Who Have Sex with Men: A Phylodynamic Analysis , 2013, PLoS medicine.
[122] T. Bärnighausen,et al. Assessing the validity of respondents’ reports of their partners’ ages in a rural South African population-based cohort , 2015, BMJ Open.
[123] S Q Muth,et al. Prostitution and the sex discrepancy in reported number of sexual partners. , 2000, Proceedings of the National Academy of Sciences of the United States of America.
[124] W. Blattner,et al. Serosorting and Sexual Risk for HIV Infection at the Ego-Alter Dyadic Level: An Egocentric Sexual Network Study Among MSM in Nigeria , 2016, AIDS and Behavior.
[125] S. Goodreau,et al. Modeling the Impact of Post-Diagnosis Behavior Change on HIV Prevalence in Southern California Men Who Have Sex with Men (MSM) , 2014, AIDS and Behavior.
[126] T. Hallett,et al. Examining the promise of HIV elimination by ‘test and treat’ in hyperendemic settings , 2010, AIDS.
[127] Martina Morris,et al. Concurrent partnerships and HIV prevalence disparities by race: linking science and public health practice. , 2009, American journal of public health.
[128] J. T. Boerma,et al. Monitoring sexual behaviour in general populations: a synthesis of lessons of the past decade , 2004, Sexually Transmitted Infections.
[129] Rui Wang,et al. Linkage of Viral Sequences among HIV-Infected Village Residents in Botswana: Estimation of Linkage Rates in the Presence of Missing Data , 2014, PLoS Comput. Biol..
[130] H. Günthard,et al. Treatment-naive individuals are the major source of transmitted HIV-1 drug resistance in men who have sex with men in the Swiss HIV Cohort Study. , 2014, Clinical infectious diseases : an official publication of the Infectious Diseases Society of America.
[131] P. Bearman,et al. Chains of Affection: The Structure of Adolescent Romantic and Sexual Networks1 , 2004, American Journal of Sociology.
[132] P. Lemey,et al. HIV evolutionary dynamics within and among hosts. , 2006, AIDS reviews.
[133] K. Crandall,et al. The causes and consequences of HIV evolution , 2004, Nature Reviews Genetics.
[134] Xing Liu,et al. High Prevalence of HIV Infection and Bisexual Networks among a Sample of Men Who Have Sex with Men in Eastern China , 2015, PloS one.
[135] Samantha J Lycett,et al. Phylogenetic analyses reveal HIV-1 infections between men misclassified as heterosexual transmissions , 2014, AIDS.
[136] Joel O. Wertheim,et al. Using HIV Transmission Networks to Investigate Community Effects in HIV Prevention Trials , 2011, PloS one.
[137] Gueorgi Kossinets. Effects of missing data in social networks , 2006, Soc. Networks.
[138] A. Klovdahl,et al. Networks and tuberculosis: an undetected community outbreak involving public places. , 2001, Social science & medicine.
[139] J. Fuchs,et al. Epidemiology of HIV-1 Subtypes Among Men Who Have Sex With Men in Cape Town, South Africa , 2014, Journal of acquired immune deficiency syndromes.
[140] Matthias Cavassini,et al. Molecular epidemiology reveals long-term changes in HIV type 1 subtype B transmission in Switzerland. , 2010, The Journal of infectious diseases.
[141] P. Harrigan,et al. The impact of clinical, demographic and risk factors on rates of HIV transmission: a population-based phylogenetic analysis in British Columbia, Canada. , 2015, The Journal of infectious diseases.
[142] Alain Blanchard,et al. Molecular Evidence for Nosocomial Transmission of Human Immunodeficiency Virus from a Surgeon to One of His Patients , 1998, Journal of Virology.
[143] Stéphane Hué,et al. Genetic analysis reveals the complex structure of HIV-1 transmission within defined risk groups. , 2005, Proceedings of the National Academy of Sciences of the United States of America.
[144] Jennifer Gardy,et al. Phylogenetic tree shapes resolve disease transmission patterns , 2014, bioRxiv.
[145] Christel Kamp,et al. Untangling the Interplay between Epidemic Spread and Transmission Network Dynamics , 2009, PLoS Comput. Biol..
[146] M. Kalish,et al. Lack of HIV Transmission in the Practice of a Dentist with AIDS , 1994, Annals of Internal Medicine.
[147] Simon D. W. Frost,et al. Measuring Asymmetry in Time-Stamped Phylogenies , 2015, PLoS Comput. Biol..
[148] P. Pattison,et al. New Specifications for Exponential Random Graph Models , 2006 .
[149] Pavel N Krivitsky,et al. A separable model for dynamic networks , 2010, Journal of the Royal Statistical Society. Series B, Statistical methodology.
[150] William C Miller,et al. Prevalence of HIV infection among young adults in the United States: results from the Add Health study. , 2006, American journal of public health.
[151] Paul C. Hewett,et al. The reporting of sensitive behavior by adolescents: A methodological experiment in Kenya , 2003, Demography.
[152] S Q Muth,et al. Sexual network structure as an indicator of epidemic phase. , 2002, Sexually transmitted infections.