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Kusejko, Katharina; Salazar-Vizcaya, Luisa; Shah, Cyril; Stöckle, Marcel; Béguelin, Charles; Schmid, Patrick; Ongaro, Marie; Darling, Katherine; Bernasconi, Enos; Rauch, Andri; Kouyos, Roger D; Günthard, Huldrych F; Böni, Jürg; Fehr, Jan S; Braun, Dominique L (2022). Sustained effect on hepatitis C elimination among men who have sex with men in the Swiss HIV Cohort Study: A systematic re-screening for hepatitis C RNA two years following a nation-wide elimination program. Clinical infectious diseases, 75(10), pp. 1723-1731. Oxford University Press 10.1093/cid/ciac273
Braun, Dominique L; Hampel, Benjamin; Ledergerber, Bruno; Grube, Christina; Nguyen, Huyen; Künzler-Heule, Patrizia; Shah, Cyril; Salazar Vizcaya, Luisa; Conen, Anna; Flepp, Markus; Stöckle, Marcel; Béguelin, Charles; Schmid, Patrick; Rougemont, Mathieu; Delaloye, Julie; Bernasconi, Enos; Nicca, Dunja; Böni, Jürg; Rauch, Andri; Kouyos, Roger D; ... (2021). A treatment as prevention trial to eliminate hepatitis C among men who have sex with men living with HIV in the Swiss HIV Cohort Study. Clinical infectious diseases, 73(7), e2194-e2202. The University of Chicago Press 10.1093/cid/ciaa1124
Carlisle, Louisa A; Turk, Teja; Metzner, Karin J; Mbunkah, Herbert A; Shah, Cyril; Böni, Jürg; Huber, Michael; Braun, Dominique L; Fehr, Jan; Salazar-Vizcaya, Luisa; Rauch, Andri; Yerly, Sabine; Nguyen, Aude; Cavassini, Matthias; Stoeckle, Marcel; Vernazza, Pietro; Bernasconi, Enos; Günthard, Huldrych F; Kouyos, Roger D (2020). HCV Genetic Diversity Can Be Used to Infer Infection Recency and Time since Infection. Viruses, 12(11) Molecular Diversity Preservation International MDPI 10.3390/v12111241
Salazar Vizcaya, Luisa Paola; Kouyos, Roger D; Metzner, Karin J; Caraballo Cortes, Kamila; Böni, Jürg; Shah, Cyril; Fehr, Jan; Braun, Dominique L; Bernasconi, Enos; Mbunkah, Herbert A; Hoffmann, Matthias; Labhardt, Niklaus; Cavassini, Matthias; Rougemont, Mathieu; Günthard, Huldrych F; Keiser, Olivia; Rauch, Andri (2019). Changing trends in international versus domestic HCV transmission in HIV-positive MSM: A perspective for the DAA scale-up era. The journal of infectious diseases, 220(1), pp. 91-99. Oxford University Press 10.1093/infdis/jiz069
Braun, Dominique L; Hampel, Benjamin; Kouyos, Roger; Nguyen, Huyen; Shah, Cyril; Flepp, Markus; Stöckle, Marcel; Conen, Anna; Béguelin, Charles Antoine; Künzler-Heule, Patrizia; Nicca, Dunja; Schmid, Patrick; Delaloye, Julie; Rougemont, Mathieu; Bernasconi, Enos; Rauch, Andri; Günthard, Huldrych F; Böni, Jürg; Fehr, Jan S (2019). High Cure Rates With Grazoprevir-Elbasvir With or Without Ribavirin Guided by Genotypic Resistance Testing Among Human Immunodeficiency Virus/Hepatitis C Virus–coinfected Men Who Have Sex With Men. Clinical infectious diseases, 68(4), pp. 569-576. The University of Chicago Press 10.1093/cid/ciy547
Yang, Wan-Lin; Kouyos, Roger; Scherrer, Alexandra U; Böni, Jürg; Shah, Cyril; Yerly, Sabine; Klimkait, Thomas; Aubert, Vincent; Furrer, Hansjakob; Battegay, Manuel; Cavassini, Matthias; Bernasconi, Enos; Vernazza, Pietro; Held, Leonhard; Ledergerber, Bruno; Günthard, Huldrych F (2015). Assessing the paradox between transmitted and acquired HIV-1 drug resistance in the Swiss HIV Cohort Study from 1998 to 2012. Journal of infectious diseases, 212(1), pp. 28-38. Oxford University Press 10.1093/infdis/jiv012
Yang, Wan-Lin; Kouyos, Roger D; Scherrer, Alexandra U; Böni, Jürg; Shah, Cyril; Yerly, Sabine; Klimkait, Thomas; Aubert, Vincent; Hirzel, Cédric; Battegay, Manuel; Cavassini, Matthias; Bernasconi, Enos; Vernazza, Pietro; Held, Leonhard; Ledergerber, Bruno; Günthard, Huldrych F (2015). Assessing efficacy of different nucleos(t)ide backbones in NNRTI-containing regimens in the Swiss HIV Cohort Study. Journal of antimicrobial chemotherapy, 70(12), pp. 3323-3331. Oxford University Press 10.1093/jac/dkv257
Drescher, Sara M; von Wyl, Viktor; Yang, Wan-Lin; Böni, Jürg; Yerly, Sabine; Shah, Cyril; Aubert, Vincent; Klimkait, Thomas; Taffé, Patrick; Furrer, Hansjakob; Battegay, Manuel; Ambrosioni, Juan; Cavassini, Matthias; Bernasconi, Enos; Vernazza, Pietro L; Ledergerber, Bruno; Günthard, Huldrych F; Kouyos, Roger D; Egger, M; Keiser, O; ... (2014). 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. Clinical infectious diseases, 58(2), pp. 285-94. Oxford University Press 10.1093/cid/cit694
Kouyos, Roger D; Rauch, Andri; Böni, Jürg; Yerly, Sabine; Shah, Cyril; Aubert, Vincent; Klimkait, Thomas; Kovari, Helen; Calmy, Alexandra; Cavassini, Matthias; Battegay, Manuel; Vernazza, Pietro L; Bernasconi, Enos; Ledergerber, Bruno; Günthard, Huldrych F; Egger, Matthias; Furrer, Hansjakob; Keiser, Olivia; Schöni-Affolter, Franziska and Swiss HIV Cohort, Study (2014). Clustering of HCV coinfections on HIV phylogeny indicates domestic and sexual transmission of HCV. International journal of epidemiology, 43(3), pp. 887-896. Oxford University Press 10.1093/ije/dyt276
Kouyos, Roger D; Rauch, Andri; Braun, Dominique L; Yang, Wan-Lin; Böni, Jürg; Yerly, Sabine; Klimkait, Thomas; Aubert, Vincent; Shah, Cyril; Kovari, Helen; Calmy, Alexandra; Cavassini, Matthias; Battegay, Manuel; Vernazza, Pietro L; Bernasconi, Enos; Ledergerber, Bruno; Günthard, Huldrych F (2014). Higher Risk of Incident HCV-Coinfections in MSM with a Wide HIV Transmission Bottleneck. Journal of infectious diseases, 210(10), pp. 1555-1561. Oxford University Press 10.1093/infdis/jiu315
Vetter, Beatrice N; Orlowski, Vanessa; Fransen, Katrien; Niederhauser, Christoph; Aubert, Vincent; Brandenberger, Marcel; Ciardo, Diana; Dollenmaier, Günter; Klimkait, Thomas; Regenass, Stephan; Schmid, Patrick; Schottstedt, Volkmar; Suter-Riniker, Franziska; Yerly, Sabine; Shah, Cyril; Böni, Jürg; Schüpbach, Jörg (2014). Generation of a recombinant Gag virus-like-particle panel for the evaluation of p24 antigen detection by diagnostic HIV tests. PLoS ONE, 9(10), e111552. Public Library of Science 10.1371/journal.pone.0111552
von Wyl, Viktor; Yerly, Sabine; Böni, Jürg; Shah, Cyril; Cellerai, Cristina; Klimkait, Thomas; Battegay, Manuel; Bernasconi, Enos; Cavassini, Matthias; Furrer, Hansjakob; Hirschel, Bernard; Vernazza, Pietro L; Ledergerber, Bruno; Günthard, Huldrych F; Swiss HIV Cohort, Study (2012). Incidence of HIV-1 drug resistance among antiretroviral treatment-naive individuals starting modern therapy combinations. Clinical infectious diseases, 54(1), pp. 131-40. Cary, N.C.: Oxford University Press 10.1093/cid/cir728
Schüpbach, Jörg; Bisset, Leslie R; Regenass, Stephan; Bürgisser, Philippe; Gorgievski, Meri; Steffen, Ingrid; Andreutti, Corinne; Martinetti, Gladys; Shah, Cyril; Yerly, Sabine; Klimkait, Thomas; Gebhardt, Martin; Schöni-Affolter, Franziska; Rickenbach, Martin; Keiser, O; Swiss HIV Cohort Study, (2011). High specificity of line-immunoassay based algorithms for recent HIV-1 infection independent of viral subtype and stage of disease. BMC infectious diseases, 11, p. 254. London: BioMed Central 10.1186/1471-2334-11-254
von Wyl, Viktor; Kouyos, Roger D; Yerly, Sabine; Böni, Jürg; Shah, Cyril; Bürgisser, Philippe; Klimkait, Thomas; Weber, Rainer; Hirschel, Bernard; Cavassini, Matthias; Staehelin, Cornelia; Battegay, Manuel; Vernazza, Pietro L; Bernasconi, Enos; Ledergerber, Bruno; Bonhoeffer, Sebastian; Günthard, Huldrych F; Swiss HIV Cohort Study, (2011). The role of migration and domestic transmission in the spread of HIV-1 non-B subtypes in Switzerland. Journal of infectious diseases, 204(7), pp. 1095-103. Cary, N.C.: Oxford University Press 10.1093/infdis/jir491
Kouyos, Roger D; von Wyl, Viktor; Yerly, Sabine; Böni, Jürg; Rieder, Philip; Joos, Beda; Taffé, Patrick; Shah, Cyril; Bürgisser, Philippe; Klimkait, Thomas; Weber, Rainer; Hirschel, Bernard; Cavassini, Matthias; Rauch, Andri; Battegay, Manuel; Vernazza, Pietro L; Bernasconi, Enos; Ledergerber, Bruno; Bonhoeffer, Sebastian; Günthard, Huldrych F; ... (2011). Ambiguous nucleotide calls from population-based sequencing of HIV-1 are a marker for viral diversity and the age of infection. Clinical infectious diseases, 52(4), pp. 532-9. Cary, N.C.: Oxford University Press 10.1093/cid/ciq164
Alizon, Samuel; von Wyl, Viktor; Stadler, Tanja; Kouyos, Roger D; Yerly, Sabine; Hirschel, Bernard; Böni, Jürg; Shah, Cyril; Klimkait, Thomas; Furrer, Hansjakob; Rauch, Andri; Vernazza, Pietro L; Bernasconi, Enos; Battegay, Manuel; Bürgisser, Philippe; Telenti, Amalio; Günthard, Huldrych F; Bonhoeffer, Sebastian; Swiss HIV Cohort Study, (2010). Phylogenetic approach reveals that virus genotype largely determines HIV set-point viral load. PLoS pathogens, 6(9), e1001123. San Francisco, Calif.: Public Library of Science 10.1371/journal.ppat.1001123
Kouyos, Roger D; von Wyl, Viktor; Yerly, Sabine; Böni, Jürg; Taffé, Patrick; Shah, Cyril; Bürgisser, Philippe; Klimkait, Thomas; Weber, Rainer; Hirschel, Bernard; Cavassini, Matthias; Furrer, Hansjakob; Battegay, Manuel; Vernazza, Pietro L; Bernasconi, Enos; Rickenbach, Martin; Ledergerber, Bruno; Bonhoeffer, Sebastian; Günthard, Huldrych F (2010). Molecular epidemiology reveals long-term changes in HIV type 1 subtype B transmission in Switzerland. Journal of infectious diseases, 201(10), pp. 1488-97. Cary, N.C.: The University of Chicago Press 10.1086/651951
