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Riou, Julien; Studer, Erik; Fesser, Anna; Schuster, Tobias Magnus; Low, Nicola; Egger, Matthias; Hauser, Anthony Willy (2024). Surveillance of SARS-CoV-2 prevalence from repeated pooled testing: application to Swiss routine data. Epidemiology and infection, 152(e100) Cambridge University Press 10.1017/S0950268824000876
Riou, Julien; Panczak, Radoslaw; Konstantinoudis, Garyfallos; Egger, Matthias (2024). Area-level excess mortality in times of COVID-19 in Switzerland: geographical, socioeconomic and political determinants. European journal of public health, 34(2), pp. 415-417. Oxford University Press 10.1093/eurpub/ckad230
Bouman, Judith A; Hauser, Anthony; Grimm, Simon L; Wohlfender, Martin; Bhatt, Samir; Semenova, Elizaveta; Gelman, Andrew; Althaus, Christian L; Riou, Julien (2024). Bayesian workflow for time-varying transmission in stratified compartmental infectious disease transmission models. PLoS computational biology, 20(4), e1011575. Public Library of Science 10.1371/journal.pcbi.1011575
Le Vu, Mathilde; Matthes, Katarina L; Brabec, Marek; Riou, Julien; Skrivankova, Veronika W; Hösli, Irene; Rohrmann, Sabine; Staub, Kaspar (2024). Health of singleton neonates in Switzerland through time and crises: a cross-sectional study at the population level, 2007-2022. BMC pregnancy and childbirth, 24, p. 218. BioMed Central 10.1186/s12884-024-06414-1
Reichmuth, Martina L; Heron, Leonie; Riou, Julien; Moser, André; Hauser, Anthony; Low, Nicola; Althaus, Christian L (2023). Socio-demographic characteristics associated with COVID-19 vaccination uptake in Switzerland: longitudinal analysis of the CoMix study. BMC public health, 23(1), p. 1523. BioMed Central 10.1186/s12889-023-16405-0
Kassanjee, Reshma; Davies, Mary-Ann; Ngwenya, Olina; Osei-Yeboah, Richard; Jacobs, Theuns; Morden, Erna; Timmerman, Venessa; Britz, Stefan; Mendelson, Marc; Taljaard, Jantjie; Riou, Julien; Boulle, Andrew; Tiffin, Nicki; Zinyakatira, Nesbert (2023). COVID-19 among adults living with HIV: correlates of mortality among public sector healthcare users in Western Cape, South Africa. Journal of the International AIDS Society, 26(6), e26104. BioMed Central 10.1002/jia2.26104
Riou, Julien; Althaus, Christian L; Allen, Hester; Cole, Michelle J; Grad, Yonatan H; Heijne, Janneke C M; Unemo, Magnus; Low, Nicola (2023). Projecting the development of antimicrobial resistance in Neisseria gonorrhoeae from antimicrobial surveillance data: a mathematical modelling study. BMC infectious diseases, 23(1), p. 252. BioMed Central 10.1186/s12879-023-08200-4
Emmenegger, Marc; De Cecco, Elena; Lamparter, David; Jacquat, Raphaël P B; Riou, Julien; Menges, Dominik; Ballouz, Tala; Ebner, Daniel; Schneider, Mathias M; Morales, Itzel Condado; Doğançay, Berre; Guo, Jingjing; Wiedmer, Anne; Domange, Julie; Imeri, Marigona; Moos, Rita; Zografou, Chryssa; Batkitar, Leyla; Madrigal, Lidia; Schneider, Dezirae; ... (2023). Continuous population-level monitoring of SARS-CoV-2 seroprevalence in a large European metropolitan region. iScience, 26(2), p. 105928. Elsevier 10.1016/j.isci.2023.105928
Riou, Julien; Hauser, Anthony; Fesser, Anna; Althaus, Christian L; Egger, Matthias; Konstantinoudis, Garyfallos (2023). Direct and indirect effects of the COVID-19 pandemic on mortality in Switzerland. Nature communications, 14(1), p. 90. Nature Publishing Group 10.1038/s41467-022-35770-9
Reichmuth, Martina L; Hodcroft, Emma B; Riou, Julien; Neher, Richard A; Hens, Niel; Althaus, Christian L (2022). Impact of cross-border-associated cases on the SARS-CoV-2 epidemic in Switzerland during summer 2020 and 2021. Epidemics, 41, p. 100654. Elsevier 10.1016/j.epidem.2022.100654
Hauser, Anthony; Goldstein, Fardo; Reichmuth, Martina L; Kouyos, Roger D; Wandeler, Gilles; Egger, Matthias; Riou, Julien (2022). Acquired HIV drug resistance mutations on first-line antiretroviral therapy in Southern Africa: Systematic review and Bayesian evidence synthesis. Journal of clinical epidemiology, 148, pp. 135-145. Elsevier 10.1016/j.jclinepi.2022.02.005
Zürcher, Kathrin; Riou, Julien; Morrow, Carl; Ballif, Marie; Koch, Anastasia; Bertschinger, Simon; Warner, Digby F; Middelkoop, Keren; Wood, Robin; Egger, Matthias; Fenner, Lukas (2022). Estimating Tuberculosis Transmission Risks in a Primary Care Clinic in South Africa: Modeling of Environmental and Clinical Data. Journal of infectious diseases, 225(9), pp. 1642-1652. Oxford University Press 10.1093/infdis/jiab534
Anderegg, Nanina; Panczak, Radoslaw; Egger, Matthias; Low, Nicola; Riou, Julien (2022). Survival among people hospitalized with COVID-19 in Switzerland: a nationwide population-based analysis. BMC medicine, 20(1), p. 164. BioMed Central 10.1186/s12916-022-02364-7
Anderegg, Nanina; Althaus, Christian L; Colin, Samuel; Hauser, Anthony; Laube, Anne; Mäusezahl, Mirjam; Wagner, Moritz; Zaffora, Biagio; Riou, Julien (2022). Assessing real-world vaccine effectiveness against severe forms of SARS-CoV-2 infection: an observational study from routine surveillance data in Switzerland. Swiss medical weekly, 152, w30163. EMH Schweizerischer Ärzteverlag 10.4414/smw.2022.w30163
Staub, Kaspar; Panczak, Radoslaw; Matthes, Katarina L; Floris, Joël; Berlin, Claudia; Junker, Christoph; Weitkunat, Rolf; Mamelund, Svenn-Erik; Zwahlen, Marcel; Riou, Julien (2022). Historically High Excess Mortality During the COVID-19 Pandemic in Switzerland, Sweden, and Spain. Annals of internal medicine, 175(4), pp. 523-532. American College of Physicians 10.7326/M21-3824
Konstantinoudis, Garyfallos; Cameletti, Michela; Gómez-Rubio, Virgilio; Gómez, Inmaculada León; Pirani, Monica; Baio, Gianluca; Larrauri, Amparo; Riou, Julien; Egger, Matthias; Vineis, Paolo; Blangiardo, Marta (2022). Regional excess mortality during the 2020 COVID-19 pandemic in five European countries. Nature Communications, 13(1), p. 482. Springer Nature 10.1038/s41467-022-28157-3
Grinsztajn, Léo; Semenova, Elizaveta; Margossian, Charles C; Riou, Julien (2021). Bayesian workflow for disease transmission modeling in Stan [tutorial]. Statistics in medicine, 40(27), pp. 6209-6234. Wiley-Blackwell 10.1002/sim.9164
Riou, Julien; Dupont, Carole; Bertagnolio, Silvia; Gupta, Ravindra K; Kouyos, Roger D; Egger, Matthias; Althaus, Christian L. (2021). Drivers of HIV-1 drug resistance to non-nucleoside reverse-transcriptase inhibitors (NNRTIs) in nine southern African countries: a modelling study. BMC infectious diseases, 21(1), p. 1042. BioMed Central 10.1186/s12879-021-06757-6
Riou, Julien; Panczak, Radoslaw; Althaus, Christian L; Junker, Christoph; Perisa, Damir; Schneider, Katrin; Criscuolo, Nicola G; Low, Nicola; Egger, Matthias (2021). Socioeconomic position and the COVID-19 care cascade from testing to mortality in Switzerland: a population-based analysis. The lancet. Public health, 6(9), e683-e691. Elsevier 10.1016/S2468-2667(21)00160-2
Zelner, Jon; Riou, Julien; Etzioni, Ruth; Gelman, Andrew (2021). Accounting for uncertainty during a pandemic. Patterns, 2(8), p. 100310. Cell Press 10.1016/j.patter.2021.100310
Dhokotera, Tafadzwa; Riou, Julien; Bartels, Lina; Rohner, Eliane; Chammartin, Frédérique; Leigh, Johnson; Elvira, Singh; Victor, Olago; Mazvita, Sengayi-Muchengeti; Egger, Matthias; Bohlius, Julia; Konstantinoudis, Garyfallos (2021). Spatiotemporal modelling and mapping of cervical cancer incidence among HIV positive women in South Africa: a nationwide study. International journal of health geographics, 20(1), p. 30. BioMed Central 10.1186/s12942-021-00283-z
Bouman, Judith A; Riou, Julien; Bonhoeffer, Sebastian; Regoes, Roland R (2021). Estimating the cumulative incidence of SARS-CoV-2 with imperfect serological tests: Exploiting cutoff-free approaches. PLoS computational biology, 17(2), e1008728. Public Library of Science 10.1371/journal.pcbi.1008728
Hovaguimian, Frédérique; Günthard, Huldrych F; Hauser, Christoph; Conen, Anna; Bernasconi, Enos; Calmy, Alexandra; Cavassini, Matthias; Seneghini, Marco; Marzel, Alex; Heinrich, Henriette; Scherrer, Alexandra; Riou, Julien; Spoerri, Adrian; Schmidlin, Kurt; Balakrishna, Suraj; Braun, Dominique L; Rampini, Silvana K; Fehr, Jan S; Kouyos, Roger D (2021). Data linkage to evaluate the long-term risk of HIV infection in individuals seeking post-exposure prophylaxis. Nature communications, 12(1), p. 1219. Nature Publishing Group 10.1038/s41467-021-21485-w
Hauser, Anthony; Kusejko, Katharina; Johnson, Leigh F; Günthard, Huldrych F; Riou, Julien; Wandeler, Gilles; Egger, Matthias; Kouyos, Roger D (2020). Impact of scaling up dolutegravir on antiretroviral resistance in South Africa: A modeling study. PLoS medicine, 17(12), e1003397. Public Library of Science 10.1371/journal.pmed.1003397
Salathé, Marcel; Althaus, Christian L; Anderegg, Nanina; Antonioli, Daniele; Ballouz, Tala; Bugnon, Edouard; Čapkun, Srdjan; Jackson, Dennis; Kim, Sang-Il; Larus, Jim; Low, Nicola; Lueks, Wouter; Menges, Dominik; Moullet, Cédric; Payer, Mathias; Riou, Julien; Stadler, Theresa; Troncoso, Carmela; Vayena, Effy and von Wyl, Viktor (2020). Early evidence of effectiveness of digital contact tracing for SARS-CoV-2 in Switzerland. Swiss medical weekly, 150, w20457. EMH Schweizerischer Ärzteverlag 10.4414/smw.2020.20457
Zürcher, Kathrin; Morrow, Carl; Riou, Julien; Ballif, Marie; Koch, Anastasia Sideris; Bertschinger, Simon; Liu, Xin; Sharma, Manuja; Middelkoop, Keren; Warner, Digby; Wood, Robin; Egger, Matthias; Fenner, Lukas (2020). Novel approach to estimate tuberculosis transmission in primary care clinics in sub-Saharan Africa: protocol of a prospective study. BMJ open, 10(8), e036214. BMJ Publishing Group 10.1136/bmjopen-2019-036214
Hauser, Anthony; Counotte, Michel J.; Margossian, Charles C; Konstantinoudis, Garyfallos; Low, Nicola; Althaus, Christian L.; Riou, Julien (2020). Estimation of SARS-CoV-2 mortality during the early stages of an epidemic: A modeling study in Hubei, China, and six regions in Europe. PLoS medicine, 17(7), e1003189. Public Library of Science 10.1371/journal.pmed.1003189
Riou, Julien; Althaus, Christian L (2020). Pattern of early human-to-human transmission of Wuhan 2019 novel coronavirus (2019-nCoV), December 2019 to January 2020. Eurosurveillance, 25(4), pii=2000058. European Centre for Disease Prevention and Control 10.2807/1560-7917.ES.2020.25.4.2000058
Counotte, Michel J; Althaus, Christian L; Low, Nicola; Riou, Julien (2019). Impact of age-specific immunity on the timing and burden of the next Zika virus outbreak. PLoS neglected tropical diseases, 13(12), e0007978. Public Library of Science 10.1371/journal.pntd.0007978
Hauser, Anthony; Kusejko, Katharina; Johnson, Leigh F; Wandeler, Gilles; Riou, Julien; Goldstein, Fardo; Egger, Matthias; Kouyos, Roger D (2019). Bridging the gap between HIV epidemiology and antiretroviral resistance evolution: Modelling the spread of resistance in South Africa. PLoS computational biology, 15(6), e1007083. Public Library of Science 10.1371/journal.pcbi.1007083
Goepp, Lilian; Vicedo Cabrera, Ana Maria; Magouras, Ioannis; Riou, Julien; Minder, Beatrice (2024). Perspectives on Vector-Borne Diseases in Switzerland: A scoping review : Search strategies (Unpublished) Bern: University of Bern, Institute of Social and Preventive Medicine DOI 10.17605/OSF.IO/EF6JQ
