Institut für Medizinische Virologie (Institute of Medical Virology)

Gabrielaite, Migle; Bennedbæk, Marc; Zucco, Adrian G; Ekenberg, Christina; Murray, Daniel D; Kan, Virginia L; Touloumi, Giota; Vandekerckhove, Linos; Turner, Dan; Neaton, James; Lane, H Clifford; Safo, Sandra; Arenas-Pinto, Alejandro; Polizzotto, Mark N; Günthard, Huldrych F; Lundgren, Jens D; Marvig, Rasmus L  (2021). Human immunotypes impose selection on viral genotypes through viral epitope specificity. Journal of Infectious Diseases, 224(12):2053-2063.

Schoepf, Isabella C; Thorball, Christian W; Ledergerber, Bruno; Kootstra, Neeltje A; Reiss, Peter; Raffenberg, Marieke; Engel, Tanja; Braun, Dominique L; Hasse, Barbara; Thurnheer, Christine; Marzolini, Catia; Seneghini, Marco; Bernasconi, Enos; Cavassini, Matthias; Buvelot, Hélène; Arribas, José R; Kouyos, Roger D; Fellay, Jacques; Günthard, Huldrych F; Tarr, Philip E; Swiss HIV Cohort Study  (2021). Telomere Length Declines In Persons Living With HIV Before Antiretroviral Therapy Start But Not After Viral Suppression: A Longitudinal Study Over >17 Years. Journal of Infectious Diseases:Epub ahead of print.

Abela, Irene A; Pasin, Chloé; Schwarzmüller, Magdalena; Epp, Selina; Sickmann, Michèle E; Schanz, Merle M; Rusert, Peter; Weber, Jacqueline; Schmutz, Stefan; Audigé, Annette; Maliqi, Liridona; Hunziker, Annika; Hesselman, Maria C; Niklaus, Cyrille R; Gottschalk, Jochen; Schindler, Eméry; Wepf, Alexander; Karrer, Urs; Wolfensberger, Aline; Rampini, Silvana K; Meyer Sauteur, Patrick M; Berger, Christoph; Huber, Michael; Böni, Jürg; Braun, Dominique L; Marconato, Maddalena; Manz, Markus G; Frey, Beat M; Günthard, Huldrych F; Kouyos, Roger D; et al  (2021). Multifactorial seroprofiling dissects the contribution of pre-existing human coronaviruses responses to SARS-CoV-2 immunity. Nature Communications, 12:6703.

Balakrishna, Suraj; Wolfensberger, Aline; Kachalov, Viacheslav; Roth, Jan A; Kusejko, Katharina; Scherrer, Alexandra U; Furrer, Hansjakob; Hauser, Christoph; Calmy, Alexandra; Cavassini, Matthias; Schmid, Patrick; Bernasconi, Enos; Battegay, Manuel; Günthard, Huldrych F; Kouyos, Roger D  (2021). Decreasing incidence and determinants of Bacterial Pneumonia in people with HIV: The Swiss HIV Cohort Study. Journal of Infectious Diseases:Epub ahead of print.

Friedrich, Nikolas; Stiegeler, Emanuel; Glögl, Matthias; Lemmin, Thomas; Hansen, Simon; Kadelka, Claus; Wu, Yufan; Ernst, Patrick; Maliqi, Liridona; Foulkes, Caio; Morin, Mylène; Eroglu, Mustafa; Liechti, Thomas; Ivan, Branislav; Reinberg, Thomas; Schaefer, Jonas V; Karakus, Umut; Ursprung, Stephan; Mann, Axel; Rusert, Peter; Kouyos, Roger D; Robinson, John A; Günthard, Huldrych F; Plückthun, Andreas; Trkola, Alexandra  (2021). Distinct conformations of the HIV-1 V3 loop crown are targetable for broad neutralization. Nature Communications, 12:6705.

Ulyte, Agne; Radtke, Thomas; Abela, Irene A; Haile, Sarah R; Ammann, Priska; Berger, Christoph; Trkola, Alexandra; Fehr, Jan; Puhan, Milo A; Kriemler, Susi  (2021). Evolution of SARS-CoV-2 seroprevalence and clusters in school children from June 2020 to April 2021: prospective cohort study Ciao Corona. Swiss Medical Weekly, 151:w30092.

Schoepf, Isabella C; Thorball, Christian W; Ledergerber, Bruno; Engel, Tanja; Raffenberg, Marieke; Kootstra, Neeltje A; Reiss, Peter; Hasse, Barbara; Marzolini, Catia; Thurnheer, Christine; Seneghini, Marco; Bernasconi, Enos; Cavassini, Matthias; Buvelot, Hélène; Kouyos, Roger; Günthard, Huldrych F; Fellay, Jacques; Tarr, Philip E; Swiss HIV Cohort Study  (2021). Coronary Artery Disease-associated and Longevity-associated Polygenic Risk Scores for Prediction of Coronary Artery Disease Events in Persons Living with HIV: The Swiss HIV Cohort Study. Clinical Infectious Diseases, 73(9):1597-1604.

Courlet, Perrine; Barbieux, Charlotte; Sculier, Delphine; Wandeler, Gilles; Stoeckle, Marcel; Bernasconi, Enos; Braun, Dominique; Vernazza, Pietro; Cavassini, Matthias; Marinosci, Annalisa; Smit, Mikaela; Günthard, Huldrych F; Schmid, Patrick; Limacher, Andreas; Guidi, Monia; Alves Saldanha, Susana; Decosterd, Laurent Arthur; Calmy, Alexandra  (2021). Pharmacokinetic parameters and weight change in HIV patients newly switched to dolutegravir-based regimens in SIMPL'HIV clinical trial. British Journal of Clinical Pharmacology, 87(11):4455-4460.

Stertz, Silke; Hale, Benjamin G  (2021). Interferon system deficiencies exacerbating severe pandemic virus infections. Trends in Microbiology, 29(11):973-982.

Balakrishna, Suraj; Salazar-Vizcaya, Luisa; Schmidt, Axel J; Kachalov, Viacheslav; Kusejko, Katharina; Thurnheer, Maria Christine; Roth, Jan A; Nicca, Dunja; Cavassini, Matthias; Battegay, Manuel; Schmid, Patrick; Bernasconi, Enos; Günthard, Huldrych F; Rauch, Andri; Kouyos, Roger D; Swiss HIV Cohort Study  (2021). Assessing the drivers of syphilis among men who have sex with men in Switzerland reveals a key impact of screening frequency: A modelling study. PLoS Computational Biology, 17(10):e1009529.

Riou, Julien; Dupont, Carole; Bertagnolio, Silvia; Gupta, Ravindra K; Kouyos, Roger D; Egger, Matthias; Althaus, Christian L  (2021). Correction to: Drivers of HIV-1 drug resistance to non-nucleoside reverse-transcriptase inhibitors (NNRTIs) in nine southern African countries: a modelling study. BMC Infectious Diseases, 21:1098.

Speich, Benjamin; Chammartin, Frédérique; Smith, Daniel; Stoeckle, Marcel P; Amico, Patrizia; Eichenberger, Anna L; Hasse, Barbara; Schuurmans, Macé M; Müller, Thomas; Tamm, Michael; Dickenmann, Michael; Abela, Irene A; Trkola, Alexandra; Hirsch, Hans H; Manuel, Oriol; Cavassini, Matthias; Hemkens, Lars G; Briel, Matthias; Mueller, Nicolas J; Rauch, Andri; Günthard, Huldrych F; Koller, Michael T; Bucher, Heiner C; Kusejko, Katharina  (2021). A trial platform to assess approved SARS-CoV-2 vaccines in immunocompromised patients: first sub-protocol for a pilot trial comparing the mRNA vaccines Comirnaty® and COVID-19 mRNA Vaccine Moderna®. Trials, 22:724.

Roth, Jan A; Radevski, Gorjan; Marzolini, Catia; Rauch, Andri; Günthard, Huldrych F; Kouyos, Roger D; Fux, Christoph A; Scherrer, Alexandra U; Calmy, Alexandra; Cavassini, Matthias; Kahlert, Christian R; Bernasconi, Enos; Bogojeska, Jasmina; Battegay, Manuel  (2021). Cohort-derived machine learning models for individual prediction of chronic kidney disease in people living with HIV: a prospective multicentre cohort study. Journal of Infectious Diseases, 224(7):1198-1208.

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, 21:1042.

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; Günthard, Huldrych F; Fehr, Jan S  (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.

Deutschmann, Elisabeth; Bucher, Heiner C; Jaeckel, Steffen; Gibbons, Sara; McAllister, Katie; Scherrer, Alexandra U; Braun, Dominique L; Cavassini, Matthias; Hachfeld, Anna; Calmy, Alexandra; Battegay, Manuel; Cipriani, Michela; Elzi, Luigia; Young, James; Lopez-Centeno, Beatriz; Berenguer, Juan; Khoo, Saye; Moffa, Giusi; Marzolini, Catia; Swiss HIV Cohort Study  (2021). Prevalence of potential drug-drug interactions in patients of the Swiss HIV Cohort Study in the era of HIV integrase inhibitors. Clinical Infectious Diseases, 73(7):e2145-e2152.

Engel, Tanja; Raffenberg, Marieke; Schoepf, Isabella C; Kootstra, Neeltje A; Reiss, Peter; Thorball, Christian W; Hasse, Barbara; Hirzel, Cédric; Wissel, Kerstin; Roth, Jan A; Bernasconi, Enos; Darling, Katharine E A; Calmy, Alexandra; Fellay, Jacques; Kouyos, Roger D; Günthard, Huldrych F; Ledergerber, Bruno; Tarr, Philip E  (2021). Telomere Length, Traditional Risk Factors, HIV-related Factors and Coronary Artery Disease Events in Swiss Persons Living with HIV. Clinical Infectious Diseases, 73(7):e2070-e2076.

Greenberg, Lauren; Ryom, Lene; Neesgaard, Bastian; Wandeler, Gilles; Staub, Therese; Gisinger, Martin; Skoll, Michael; Günthard, Huldrych F; et al  (2021). Clinical outcomes of two-drug regimens vs. three-drug regimens in antiretroviral treatment-experienced people living with HIV. Clinical Infectious Diseases, 73(7):e2323-e2333.

Pyngottu, Ashima; Scherrer, Alexandra U; Kouyos, Roger; Huber, Michael; Hirsch, Hans; Perreau, Matthieu; Yerly, Sabine; Calmy, Alexandra; Cavassini, Matthias; Stöckle, Marcel; Furrer, Hansjakob; Vernazza, Pietro; Bernasconi, Enos; Günthard, Huldrych F; Swiss HIV Cohort Study  (2021). Predictors of virological failure and time to viral suppression of first line integrase inhibitor based antiretroviral treatment. Clinical Infectious Diseases, 73(7):e2134-e2141.

Wolters, Femke; Grünberg, Maria; Huber, Michael; Kessler, Harald H; Prüller, Florian; Saleh, Lanja; Fébreau, Christine; Rahamat-Langendoen, Janette; Thibault, Vincent; Melchers, Willem J G  (2021). European multicenter evaluation of Xpert® Xpress SARS-CoV-2/Flu/RSV test. Journal of Medical Virology, 93(10):5798-5804.

Mazel-Sanchez, Beryl; Iwaszkiewicz, Justyna; Bonifacio, Joao P P; Silva, Filo; Niu, Chengyue; Strohmeier, Shirin; Eletto, Davide; Krammer, Florian; Tan, Gene; Zoete, Vincent; Hale, Benjamin G; Schmolke, Mirco  (2021). Influenza A viruses balance ER stress with host protein synthesis shutoff. Proceedings of the National Academy of Sciences of the United States of America, 118(36):e2024681118.

Posada-Céspedes, Susana; Van Zyl, Gert; Montazeri, Hesam; Kuipers, Jack; Rhee, Soo-Yon; Kouyos, Roger; Günthard, Huldrych F; Beerenwinkel, Niko  (2021). Comparing mutational pathways to lopinavir resistance in HIV-1 subtypes B versus C. PLoS Computational Biology, 17(9):e1008363.

Moldt, Brian; Parvangada, Aiyappa; Martin, Ross; Pace, Craig; Balakrishnan, Mini; Thomsen, Nathan D; E Collins, Sean; Kuster, Herbert; Braun, Dominique L; Günthard, Huldrych F; Geleziunas, Romas; Callebaut, Christian  (2021). Evaluation of Broadly Neutralizing Antibody Sensitivity by Genotyping and Phenotyping for Qualifying Participants to HIV Clinical Trials. Journal of Acquired Immune Deficiency Syndromes, 88(1):61-69.

Kusejko, Katharina; Neofytos, Dionysios; Hirsch, Hans H; Meylan, Pascal; Boggian, Katia; Hirzel, Cedric; Garzoni, Christian; Kouyos, Roger D; Mueller, Nicolas J; Schreiber, Peter W; Swiss Transplant Cohort Study  (2021). Differences Between Infectious Disease Events in First Liver Transplant Versus Retransplantation in the Swiss Transplant Cohort Study. Liver Transplantation, 27(9):1283-1290.

Steiner, Fiona; Schmutz, Stefan; Gosert, Rainer; Huder, Jon B; Redli, Patrick M; Capaul, Riccarda; Hirsch, Hans H; Böni, Jürg; Zbinden, Andrea  (2021). Usefulness of the GenMark ePlex RPP assay for the detection of respiratory viruses compared to the FTD21 multiplex RT-PCR. Diagnostic Microbiology and Infectious Disease, 101:115424.

Audigé, Annette; Böni, Jürg; Schreiber, Peter W; Scheier, Thomas; Buonomano, Roberto; Rudiger, Alain; Braun, Dominique L; Eich, Gerhard; Keller, Dagmar I; Hasse, Barbara; Berger, Christoph; Günthard, Huldrych F; Manrique, Amapola; Trkola, Alexandra; Huber, Michael  (2021). Reduced Relative Sensitivity of the Elecsys SARS-CoV-2 Antigen Assay in Saliva Compared to Nasopharyngeal Swabs. Microorganisms, 9(8):1700.

Thorball, Christian W; Oudot-Mellakh, Tiphaine; Ehsan, Nava; Hammer, Christian; Santoni, Federico A; Niay, Jonathan; Costagliola, Dominique; Goujard, Cécile; Meyer, Laurence; Wang, Sophia S; Hussain, Shehnaz K; Theodorou, Ioannis; Cavassini, Matthias; Rauch, Andri; Battegay, Manuel; Hoffmann, Matthias; Schmid, Patrick; Bernasconi, Enos; Günthard, Huldrych F; Mohammadi, Pejman; McLaren, Paul J; Rabkin, Charles S; Besson, Caroline; Fellay, Jacques  (2021). Genetic variation near CXCL12 is associated with susceptibility to HIV-related non-Hodgkin lymphoma. Haematologica, 106(8):2233-2241.

Vavassori, Stefano; Chou, Janet; Faletti, Laura Eva; Haunerdinger, Veronika; Opitz, Lennart; Joset, Pascal; Fraser, Christopher J; Prader, Seraina; Gao, Xianfei; Schuch, Luise A; Wagner, Matias; Hoefele, Julia; Maccari, Maria Elena; Zhu, Ying; Elakis, George; Gabbett, Michael T; Forstner, Maria; Omran, Heymut; Kaiser, Thomas; Kessler, Christina; Olbrich, Heike; Frosk, Patrick; Almutairi, Abduarahman; Platt, Craig D; Elkins, Megan; Weeks, Sabrina; Rubin, Tamar; Planas, Raquel; Marchetti, Tommaso; Koovely, Danil; Brotschi, Barbara; Laube, Guido; Güngör, Tayfun; Kottke, Raimund; Weber, Achim; Griese, Matthias; Pachlopnik Schmid, Jana; et al  (2021). Multisystem Inflammation and Susceptibility to Viral infections in Human ZNFX1 Deficiency. Journal of Allergy and Clinical Immunology, 148(2):381-393.

Palika, Archana; Armanious, Antonius; Rahimi, Akram; Medaglia, Chiara; Gasbarri, Matteo; Handschin, Stephan; Rossi, Antonella; Pohl, Marie O; Busnadiego, Idoia; Gübeli, Christian; Anjanappa, Ravi B; Bolisetty, Sreenath; Peydayesh, Mohammad; Stertz, Silke; Hale, Benjamin G; Tapparel, Caroline; Stellacci, Francesco; Mezzenga, Raffaele  (2021). An antiviral trap made of protein nanofibrils and iron oxyhydroxide nanoparticles. Nature Nanotechnology, 16(8):918-925.

Ulyte, Agne; Radtke, Thomas; Abela, Irene Alma; Haile, Sarah R; Blankenberger, Jacob; Jung, Ruedi; Capelli, Celine; Berger, Christoph; Frei, Anja; Huber, Michael; Schanz, Merle; Schwarzmueller, Magdalena; Trkola, Alexandra; Fehr, Jan; Puhan, Milo Alan; Kriemler, Susi  (2021). Variation in SARS-CoV-2 seroprevalence across districts, schools and classes: baseline measurements from a cohort of primary and secondary school children in Switzerland. BMJ Open, 11(7):e047483.

Nguyen, Huyen; Hampel, Benjamin; Nuñez, David Garcia; Battegay, Manuel; Hachfeld, Anna; Bernasconi, Enos; Calmy, Alexandra; Cavassini, Matthias; Vernazza, Pietro; Fellay, Jacques; Rudolph, Hannes; Huber, Michael; Leuzinger, Karoline; Perreau, Matthieu; Scherrer, Alexandra; Ramette, Alban Nicolas; Yerly, Sabine; Günthard, Huldrych F; Kouyos, Roger D; Kusejko, Katharina; Swiss HIV Cohort Study  (2021). Identifying and Characterizing Trans women in the Swiss HIV Cohort Study as an Epidemiologically Distinct Risk Group. Clinical Infectious Diseases:Epub ahead of print.

Hirschi, Stephan; Kalbermatter, David; Ucurum, Zöhre; Lemmin, Thomas; Fotiadis, Dimitrios  (2021). Cryo-EM structure and dynamics of the green-light absorbing proteorhodopsin. Nature Communications, 12:4107.

Pohl, Marie O; Busnadiego, Idoia; Marrafino, Francesco; Wiedmer, Lars; Hunziker, Annika; Fernbach, Sonja; Glas, Irina; Moroz-Omori, Elena V; Hale, Benjamin G; Caflisch, Amedeo; Stertz, Silke  (2021). Combined computational and cellular screening identifies synergistic inhibition of SARS-CoV-2 by lenvatinib and remdesivir. Journal of General Virology, 102(7):001625.

Achermann, Yvonne; Kusejko, Katharina; Auñón, Álvaro; Clauss, Martin; Corvec, Stéphane; Esteban, Jaime; Fernandez-Sampedro, Marta; Ferrari, Matteo Carlo; Gassmann, Natalie; Jent, Philipp; Jost, Bernhard; Kouyos, Roger D; Kramer, Tobias Siegfried; Lora-Tamayo, Jaime; Morand, Philippe C; Benito, Natividad; Pablo-Marcos, Daniel; Patel, Robin; Scanferla, Giulia; Sendi, Parham; Slama, Dorsaf; Stadelmann, Vincent A; Strahm, Carol; Thurnheer, Christine; Trebše, Rihard; Uckay, Ilker; Vijayvargiya, Prakhar; Waldmann, Isabelle; Wouthuyzen-Bakker, Marjan  (2021). The impact of surgical strategy and rifampin on treatment outcome in Cutibacterium periprosthetic joint infections. Clinical Infectious Diseases, 72(12):e1064-e1073.

Bachmann, Nadine; Kusejko, Katharina; Nguyen, Huyen; Chaudron, Sandra E; Kadelka, Claus; Turk, Teja; Böni, Jürg; Perreau, Matthieu; Klimkait, Thomas; Yerly, Sabine; Battegay, Manuel; Rauch, Andri; Ramette, Alban; Vernazza, Pietro; Bernasconi, Enos; Cavassini, Matthias; Günthard, Huldrych F; Kouyos, Roger D; Swiss HIV Cohort Study  (2021). Phylogenetic cluster analysis identifies virological and behavioral drivers of HIV transmission in MSM. Clinical Infectious Diseases, 72(12):2175-2183.

Deng, Yun; Chatterjee, Bithi; Zens, Kyra; Zdimerova, Hana; Müller, Anne; Schuhmachers, Patrick; Ligeon, Laure-Anne; Bongiovanni, Antonino; Capaul, Riccarda; Zbinden, Andrea; Holler, Angelika; Stauss, Hans; Hammerschmidt, Wolfgang; Münz, Christian  (2021). CD27 is required for protective lytic EBV antigen-specific CD8+ T-cell expansion. Blood, 137(23):3225-3236.

Nguyen, Huyen; Thorball, Christian Wandell; Fellay, Jacques; Böni, Jürg; Yerly, Sabine; Perreau, Matthieu; Hirsch, Hans H; Kusejko, Katharina; Thurnheer, Maria Christine; Battegay, Manuel; Cavassini, Matthias; Kahlert, Christian R; Bernasconi, Enos; Günthard, Huldrych F; Kouyos, Roger D; Swiss HIV Cohort Study  (2021). Systematic screening of viral and human genetic variation identifies antiretroviral resistance and immune escape link. eLife, 10:e67388.

Echavarría-Consuegra, Liliana; Cook, Georgia M; Busnadiego, Idoia; Lefèvre, Charlotte; Keep, Sarah; Brown, Katherine; Doyle, Nicole; Dowgier, Giulia; Franaszek, Krzysztof; Moore, Nathan A; Siddell, Stuart G; Bickerton, Erica; Hale, Benjamin G; Firth, Andrew E; Brierley, Ian; Irigoyen, Nerea  (2021). Manipulation of the unfolded protein response: A pharmacological strategy against coronavirus infection. PLoS Pathogens, 17(6):e1009644.

Sempere Borau, Milagros; Stertz, Silke  (2021). Entry of influenza A virus into host cells - recent progress and remaining challenges. Current Opinion in Virology, 48:23-29.

Kok, Yik Lim; Vongrad, Valentina; Chaudron, Sandra E; Shilaih, Mohaned; Leemann, Christine; Neumann, Kathrin; Kusejko, Katharina; Di Giallonardo, Francesca; Kuster, Herbert; Braun, Dominique L; Kouyos, Roger D; Günthard, Huldrych F; Metzner, Karin J  (2021). HIV-1 integration sites in CD4+ T cells during primary, chronic, and late presentation of HIV-1 infection. Journal of clinical investigation insight, 6(9):e143940.

Tamò, Raphaël; Turk, Teja; Böni, Jürg; Kouyos, Roger D; Schmutz, Stefan; Huber, Michael; Shah, Cyril; Bischoff-Ferrari, Heike A; Distler, Oliver; Battegay, Edouard; Giovanoli, Pietro; Guckenberger, Matthias; Kohler, Malcolm; Müller, Rouven; Petry, Heidi; Ruschitzka, Frank; McGeer, Allison; Sax, Hugo; Weber, Rainer; Trkola, Alexandra; Kuster, Stefan P  (2021). Secondary attack rates from asymptomatic and symptomatic influenza virus shedders in hospitals: Results from the TransFLUas influenza transmission study. Infection Control and Hospital Epidemiology:Epub ahead of print.

de Vries, Jutte J C; Brown, Julianne R; Couto, Natacha; Beer, Martin; Le Mercier, Philippe; Sidorov, Igor; Papa, Anna; Fischer, Nicole; Oude Munnink, Bas B; Rodriquez, Christophe; Zaheri, Maryam; Sayiner, Arzu; Hönemann, Mario; Pérez-Cataluña, Alba; Carbo, Ellen C; Bachofen, Claudia; Kubacki, Jakub; et al  (2021). Recommendations for the introduction of metagenomic next-generation sequencing in clinical virology, part II: bioinformatic analysis and reporting. Journal of Clinical Virology, 138:104812.

Hunziker, Annika. Phosphorylation Events in Early Steps of Human and Avian Influenza A Virus Infection. 2021, University of Zurich, Medizinische Fakultät.

Reichmuth, M L; Chaudron, S E; Bachmann, N; Nguyen, H; Böni, J; Metzner, K J; Perreau, M; Klimkait, T; Yerly, S; Hirsch, H H; Hauser, C; Ramette, A; Vernazza, P; Cavassini, M; Bernasconi, E; Günthard, H F; Kusejko, K; Kouyos, R D; Swiss HIV Cohort Study  (2021). Using longitudinally sampled viral nucleotide sequences to characterize the drivers of HIV-1 transmission. HIV Medicine, 22(5):346-359.

Glass, Tracy R; Günthard, Huldrych; Calmy, Alexandra; Bernasconi, Enos; Scherrer, Alexandra U; Battegay, Manuel; Steffen, Ana; Böni, Jürg; Yerly, Sabine; Klimkait, Thomas; Cavassini, Matthias; Furrer, Hansjakob; Swiss HIV Cohort Study  (2021). The role of HIV asymptomatic status when starting ART on adherence and treatment outcomes and implications for test and treat: the Swiss HIV Cohort Study. Clinical Infectious Diseases, 72(8):1413-1421.

Caillat, Christophe; Guilligay, Delphine; Torralba, Johana; Friedrich, Nikolas; Nieva, Jose L; Trkola, Alexandra; Chipot, Christophe J; Dehez, François L; Weissenhorn, Winfried  (2021). Structure of HIV-1 gp41 with its membrane anchors targeted by neutralizing antibodies. eLife, 10:e65005.

Muller, Christina K S; Spagnuolo, Julian; Audigé, Annette; Chancellor, Andrew; Russenberger, Doris; Scherrer, Alexandra U; Hoffmann, Matthias; Kouyos, Roger; Battegay, Manuel; De Libero, Gennaro; Speck, Roberto F; Swiss HIV Cohort Study  (2021). Immunophenotypic characterization of TCR γδ T cells and MAIT cells in HIV-infected individuals developing Hodgkin's lymphoma. Infectious Agents and Cancer, 16:24.

Künzler-Heule, Patrizia; Fierz, Katharina; Schmidt, Axel Jeremias; Rasi, Manuela; Bogdanovic, Jasmina; Kocher, Agnes; Engberg, Sandra; Battegay, Manuel; Nöstlinger, Christiana; Lehner, Andreas; Kouyos, Roger; Schmid, Patrick; Braun, Dominique Laurent; Fehr, Jan; Nicca, Dunja  (2021). Response to a sexual risk reduction intervention provided in combination with hepatitis C treatment by HIV/HCV co-infected men who have sex with men: a reflexive thematic analysis. BMC Infectious Diseases, 21:319.

Raffenberg, Marieke; Engel, Tanja; Schoepf, Isabella C; Kootstra, Neeltje A; Reiss, Peter; Braun, Dominique L; Thorball, Christian W; Fellay, Jacques; Kouyos, Roger D; Ledergerber, Bruno; Günthard, Huldrych F; Tarr, Philip E; Zurich Primary HIV Infection Study; Swiss HIV Cohort Study  (2021). Impact of Delaying Antiretroviral Treatment during Primary HIV Infection on Telomere Length. Journal of Infectious Diseases:Epub ahead of print.

Goncalves Cabecinhas, Ana Rita; Roloff, Tim; Stange, Madlen; Bertelli, Claire; Huber, Michael; Ramette, Alban; Chen, Chaoran; Nadeau, Sarah; Gerth, Yannick; Yerly, Sabine; Opota, Onya; Pillonel, Trestan; Schuster, Tobias; Metzger, Cesar M J A; Sieber, Jonas; Bel, Michael; Wohlwend, Nadia; Baumann, Christian; Koch, Michel C; Bittel, Pascal; Leuzinger, Karoline; Brunner, Myrta; Suter-Riniker, Franziska; Berlinger, Livia; Søgaard, Kirstine K; Beckmann, Christiane; Noppen, Christoph; Redondo, Maurice; Steffen, Ingrid; Seth-Smith, Helena M B; et al  (2021). SARS-CoV-2 N501Y Introductions and Transmissions in Switzerland from Beginning of October 2020 to February 2021—Implementation of Swiss-Wide Diagnostic Screening and Whole Genome Sequencing. Microorganisms, 9(4):677.

Werner, Jana; Reichen, Ina; Huber, Michael; Abela, Irene A; Weller, Michael; Jelcic, Ilijas  (2021). Subacute cerebellar ataxia following respiratory symptoms of COVID-19: a case report. BMC Infectious Diseases, 21:298.

Lork, Marie; Lieber, Gauthier; Hale, Benjamin G  (2021). Proteomic Approaches to Dissect Host SUMOylation during Innate Antiviral Immune Responses. Viruses, 13(3):528.

Huber, Michael; Schreiber, Peter Werner; Scheier, Thomas; Audigé, Annette; Buonomano, Roberto; Rudiger, Alain; Braun, Dominique L; Eich, Gerhard; Keller, Dagmar I; Hasse, Barbara; Böni, Jürg; Berger, Christoph; Günthard, Huldrych F; Manrique, Amapola; Trkola, Alexandra  (2021). High Efficacy of Saliva in Detecting SARS-CoV-2 by RT-PCR in Adults and Children. Microorganisms, 9(3):642.

Ulyte, Agne; Radtke, Thomas; Abela, Irene A; Haile, Sarah R; Berger, Christoph; Huber, Michael; Schanz, Merle; Schwarzmueller, Magdalena; Trkola, Alexandra; Fehr, Jan; Puhan, Milo A; Kriemler, Susi  (2021). Clustering and longitudinal change in SARS-CoV-2 seroprevalence in school children in the canton of Zurich, Switzerland: prospective cohort study of 55 schools. BMJ : British medical journal, 372:n616.

Scheier, Thomas; Shah, Cyril; Huber, Michael; Sax, Hugo; Hasse, Barbara; Günthard, Huldrych F; Trkola, Alexandra; Schreiber, Peter W  (2021). Do we cause false positives? An experimental series on droplet or airborne SARS-CoV-2 contamination of sampling tubes during swab collection in a test center. Antimicrobial Resistance and Infection Control, 10:51.

Rindler, Audrey E; Kuster, Herbert; Neumann, Kathrin; Leemann, Christine; Braun, Dominique L; Metzner, Karin J; Günthard, Huldrych F  (2021). A Novel High Throughput, Parallel Infection Assay for Determining the Replication Capacities of 346 Primary HIV-1 Isolates of the Zurich Primary HIV-1 Infection Study in Primary Cells. Viruses, 13(3):404.

Kuster, Stefan P; Böni, Jürg; Kouyos, Roger D; Huber, Michael; Schmutz, Stefan; Shah, Cyril; Bischoff-Ferrari, Heike A; Distler, Oliver; Battegay, Edouard; Giovanoli, Pietro; Guckenberger, Matthias; Kohler, Malcolm; Müller, Rouven; Petry, Heidi; Ruschitzka, Frank; McGeer, Allison; Coleman, Brenda L; Sax, Hugo; Weber, Rainer; Trkola, Alexandra  (2021). Absenteeism and presenteeism in healthcare workers due to respiratory illness. Infection Control and Hospital Epidemiology, 42(3):268-273.

Pohl, Marie O; Busnadiego, Idoia; Kufner, Verena; Glas, Irina; Karakus, Umut; Schmutz, Stefan; Zaheri, Maryam; Abela, Irene; Trkola, Alexandra; Huber, Michael; Stertz, Silke; Hale, Benjamin G  (2021). SARS-CoV-2 variants reveal features critical for replication in primary human cells. PLoS Biology, 19(3):e3001006.

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; Swiss HIV Cohort Study  (2021). Data linkage to evaluate the long-term risk of HIV infection in individuals seeking post-exposure prophylaxis. Nature Communications, 12:1219.

Brown, Jennifer A; Mbunkah, Herbert A; Lejone, Thabo I; Ringera, Isaac; Cheleboi, Molisana; Klimkait, Thomas; Metzner, Karin J; Günthard, Huldrych F; Labhardt, Niklaus D; Kouyos, Roger D; Tschumi, Nadine  (2021). Emergence of Human Immunodeficiency Virus-1 Drug Resistance During the 3-Month World Health Organization-Recommended Enhanced Adherence Counseling Period in the CART-1 Cohort Study. Open Forum Infectious Diseases, 8(5):ofab046.

Kachalov, Viacheslav N; Nguyen, Huyen; Balakrishna, Suraj; Salazar-Vizcaya, Luisa; Sommerstein, Rami; Kuster, Stefan P; Hauser, Anthony; Abel Zur Wiesch, Pia; Klein, Eili; Kouyos, Roger D  (2021). Identifying the drivers of multidrug-resistant Klebsiella pneumoniae at a European level. PLoS Computational Biology, 17:e1008446.

Tepekule, Burcu; Hauser, Anthony; Kachalov, Viacheslav N; Andresen, Sara; Scheier, Thomas; Schreiber, Peter W; Günthard, Huldrych F; Kouyos, Roger D  (2021). Assessing the potential impact of transmission during prolonged viral shedding on the effect of lockdown relaxation on COVID-19. PLoS Computational Biology, 17:e1008609.

Börold, Jacob. A Genome-Wide CRISPR/Cas Screen to Uncover Host Factors Regulating the Interferon Response and Virus Infection. 2021, University of Zurich, Medizinische Fakultät.

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Posada-Céspedes, Susana; Seifert, David; Topolsky, Ivan; Jablonski, Kim Philipp; Metzner, Karin J; Beerenwinkel, Niko  (2021). V-pipe: a computational pipeline for assessing viral genetic diversity from high-throughput data. Bioinformatics, 37(12):1673-1680.

Benet, Susana; Gálvez, Cristina; Drobniewski, Francis; et al; Günthard, Huldrych F  (2021). Dissemination of Mycobacterium tuberculosis is associated to a SIGLEC1 null variant that limits antigen exchange via trafficking extracellular vesicles. Journal of Extracellular Vesicles, 10(3):e12046.

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Hofmaenner, Daniel A; Wendel Garcia, Pedro David; Duvnjak, Branko; Chakrakodi, Bhavya; Maier, Julian D; Huber, Michael; Huder, Jon; Wolfensberger, Aline; Schreiber, Peter W; Schuepbach, Reto A; Zinkernagel, Annelies S; Buehler, Philipp K; Brugger, Silvio D  (2021). Bacterial but no SARS-CoV-2 contamination after terminal disinfection of tertiary care intensive care units treating COVID-19 patients. Antimicrobial Resistance and Infection Control, 10:11.

Romito, Marianna; Juillerat, Alexandre; Kok, Yik Lim; Hildenbeutel, Markus; Rhiel, Manuel; Andrieux, Geoffroy; Geiger, Johannes; Rudolph, Carsten; Mussolino, Claudio; Duclert, Aymeric; Metzner, Karin J; Duchateau, Philippe; Cathomen, Toni; Cornu, Tatjana I  (2021). Preclinical Evaluation of a Novel TALEN Targeting CCR5 Confirms Efficacy and Safety in Conferring Resistance to HIV-1 Infection. Biotechnology Journal, 16(1):2000023.

Wenk, Benjamin M; Mbunkah, Herbert A; Nsanwe, Ndi N; Mbu, Eyongetah T; Besong, Lydia M; Sama, Bella A; Orock, Emmanuel; Leemann, Christine; Metzner, Karin J  (2021). Prevalence of integrase strand transfer inhibitor resistance mutations in antiretroviral-naive HIV-1-infected individuals in Cameroon. Journal of Antimicrobial Chemotherapy, 76(1):124-129.

Zdimerova, Hana; Murer, Anita; Engelmann, Christine; Raykova, Ana; Deng, Yun; Gujer, Cornelia; Rühl, Julia; McHugh, Donal; Caduff, Nicole; Naghavian, Reza; Pezzino, Gaetana; Capaul, Riccarda; Zbinden, Andrea; Ferlazzo, Guido; Lünemann, Jan D; Martin, Roland; Chatterjee, Bithi; Münz, Christian  (2021). Attenuated immune control of Epstein-Barr virus in humanized mice is associated with the multiple sclerosis risk factor HLA-DR15. European Journal of Immunology, 51(1):64-75.

López-Labrador, F Xavier; Brown, Julianne R; Fischer, Nicole; Harvala, Heli; Van Boheemen, Sander; Cinek, Ondrej; Sayiner, Arzu; Madsen, Tina Vasehus; Auvinen, Eeva; Kufner, Verena; Huber, Michael; Rodriguez, Christophe; Jonges, Marcel; Hönemann, Mario; Susi, Petri; Sousa, Hugo; Klapper, Paul E; Pérez-Cataluňa, Alba; Hernandez, Marta; Molenkamp, Richard; der Hoek, Lia van; Schuurman, Rob; Couto, Natacha; Leuzinger, Karoline; Simmonds, Peter; Beer, Martin; Höper, Dirk; Kamminga, Sergio; Feltkamp, Mariet C W; Rodríguez-Díaz, Jesús; et al  (2021). Recommendations for the introduction of metagenomic high-throughput sequencing in clinical virology, part I: Wet lab procedure. Journal of Clinical Virology, 134:104691.

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