| Population biological principles of drug-resistance evolution in infectious diseases PA zur Wiesch, R Kouyos, J Engelstädter, RR Regoes, S Bonhoeffer The Lancet infectious diseases 11 (3), 236-247, 2011 | 174 | 2011 |
| Molecular epidemiology reveals long-term changes in HIV type 1 subtype B transmission in Switzerland RD Kouyos, V Von Wyl, S Yerly, J Böni, P Taffé, C Shah, P Börgisser, ... The Journal of infectious diseases 201 (10), 1488-1497, 2010 | 153 | 2010 |
| Epistasis between deleterious mutations and the evolution of recombination RD Kouyos, OK Silander, S Bonhoeffer Trends in ecology & evolution 22 (6), 308-315, 2007 | 144 | 2007 |
| Estimating the basic reproductive number from viral sequence data T Stadler, R Kouyos, V von Wyl, S Yerly, J Böni, P Bürgisser, T Klimkait, ... Molecular biology and evolution 29 (1), 347-357, 2011 | 141 | 2011 |
| The state of affairs in the kingdom of the Red Queen M Salathé, RD Kouyos, S Bonhoeffer Trends in ecology & evolution 23 (8), 439-445, 2008 | 141 | 2008 |
| Contribution of a mutational bias in hepatitis C virus replication to the genetic barrier in the development of drug resistance MH Powdrill, EP Tchesnokov, RA Kozak, RS Russell, R Martin, ... Proceedings of the National Academy of Sciences 108 (51), 20509-20513, 2011 | 135 | 2011 |
| Ambiguous nucleotide calls from population-based sequencing of HIV-1 are a marker for viral diversity and the age of infection RD Kouyos, V von Wyl, S Yerly, J Böni, P Rieder, B Joos, P Taffé, C Shah, ... Clinical infectious diseases 52 (4), 532-539, 2011 | 115 | 2011 |
| Phylogenetic approach reveals that virus genotype largely determines HIV set-point viral load S Alizon, V von Wyl, T Stadler, RD Kouyos, S Yerly, B Hirschel, J Böni, ... PLoS pathogens 6 (9), e1001123, 2010 | 109 | 2010 |
| Stochastic or deterministic: what is the effective population size of HIV-1? RD Kouyos, CL Althaus, S Bonhoeffer Trends in microbiology 14 (12), 507-511, 2006 | 106 | 2006 |
| Exploring the complexity of the HIV-1 fitness landscape RD Kouyos, GE Leventhal, T Hinkley, M Haddad, JM Whitcomb, ... PLoS genetics 8 (3), e1002551, 2012 | 92 | 2012 |
| Low-frequency drug-resistant HIV-1 and risk of virological failure to first-line NNRTI-based ART: a multicohort European case–control study using centralized ultrasensitive 454 … A Cozzi-Lepri, M Noguera-Julian, F Di Giallonardo, R Schuurman, ... Journal of antimicrobial chemotherapy 70 (3), 930-940, 2014 | 90 | 2014 |
| Inferring epidemic contact structure from phylogenetic trees GE Leventhal, R Kouyos, T Stadler, V Von Wyl, S Yerly, J Böni, C Cellerai, ... PLoS computational biology 8 (3), e1002413, 2012 | 81 | 2012 |
| Determinants of HIV-1 broadly neutralizing antibody induction P Rusert, RD Kouyos, C Kadelka, H Ebner, M Schanz, M Huber, DL Braun, ... Nature medicine 22 (11), 1260, 2016 | 72 | 2016 |
| The role of migration and domestic transmission in the spread of HIV-1 non-B subtypes in Switzerland V von Wyl, RD Kouyos, S Yerly, J Böni, C Shah, P Bürgisser, T Klimkait, ... Journal of infectious diseases 204 (7), 1095-1103, 2011 | 70 | 2011 |
| Bottleneck-induced transitions in a minimal model for intracellular transport P Pierobon, M Mobilia, R Kouyos, E Frey Physical Review E 74 (3), 031906, 2006 | 69 | 2006 |
| 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 SM Drescher, V von Wyl, WL Yang, J Böni, S Yerly, C Shah, V Aubert, ... Clinical infectious diseases 58 (2), 285-294, 2013 | 68 | 2013 |
| Rapid parasite adaptation drives selection for high recombination rates M Salathé, RD Kouyos, RR Regoes, S Bonhoeffer Evolution: International Journal of Organic Evolution 62 (2), 295-300, 2008 | 65 | 2008 |
| The path of least resistance: aggressive or moderate treatment? RD Kouyos, CJE Metcalf, R Birger, EY Klein, P Abel zur Wiesch, ... Proceedings of the Royal Society B: Biological Sciences 281 (1794), 20140566, 2014 | 59 | 2014 |
| Frequency and spectrum of unexpected clinical manifestations of primary HIV-1 infection DL Braun, RD Kouyos, B Balmer, C Grube, R Weber, HF Günthard Clinical Infectious Diseases 61 (6), 1013-1021, 2015 | 58 | 2015 |
| Effect of varying epistasis on the evolution of recombination RD Kouyos, SP Otto, S Bonhoeffer Genetics 173 (2), 589-597, 2006 | 56 | 2006 |
