Oliver Ratmann
Title
Cited by
Cited by
Year
Inference for nonlinear epidemiological models using genealogies and time series
DA Rasmussen, O Ratmann, K Koelle
PLoS Comput Biol 7 (8), e1002136, 2011
1782011
Model criticism based on likelihood-free inference, with an application to protein network evolution
O Ratmann, C Andrieu, C Wiuf, S Richardson
Proceedings of the National Academy of Sciences 106 (26), 10576-10581, 2009
1642009
Using likelihood-free inference to compare evolutionary dynamics of the protein networks of H. pylori and P. falciparum
O Ratmann, O Jørgensen, T Hinkley, M Stumpf, S Richardson, C Wiuf
PLoS Comput Biol 3 (11), e230, 2007
1252007
Sources of HIV infection among men having sex with men and implications for prevention
O Ratmann, A Van Sighem, D Bezemer, A Gavryushkina, S Jurriaans, ...
Science translational medicine 8 (320), 320ra2-320ra2, 2016
922016
PHYLOSCANNER: inferring transmission from within-and between-host pathogen genetic diversity
C Wymant, M Hall, O Ratmann, D Bonsall, T Golubchik, M de Cesare, ...
Molecular biology and evolution 35 (3), 719-733, 2018
672018
Impact of cross-protective vaccines on epidemiological and evolutionary dynamics of influenza
N Arinaminpathy, O Ratmann, K Koelle, SL Epstein, GE Price, C Viboud, ...
Proceedings of the National Academy of Sciences 109 (8), 3173-3177, 2012
602012
Dispersion of the HIV-1 epidemic in men who have sex with men in the Netherlands: a combined mathematical model and phylogenetic analysis
D Bezemer, A Cori, O Ratmann, A van Sighem, HS Hermanides, ...
PLoS Med 12 (11), e1001898, 2015
552015
Explaining rapid reinfections in multiple-wave influenza outbreaks: Tristan da Cunha 1971 epidemic as a case study
A Camacho, S Ballesteros, AL Graham, F Carrat, O Ratmann, B Cazelles
Proceedings of the Royal Society B: Biological Sciences 278 (1725), 3635-3643, 2011
512011
Phylogenetic tools for generalized HIV-1 epidemics: findings from the PANGEA-HIV methods comparison
O Ratmann, EB Hodcroft, M Pickles, A Cori, M Hall, S Lycett, C Colijn, ...
Molecular biology and evolution 34 (1), 185-203, 2017
492017
OutbreakTools: a new platform for disease outbreak analysis using the R software
T Jombart, DM Aanensen, M Baguelin, P Birrell, S Cauchemez, ...
Epidemics 7, 28-34, 2014
412014
Phylodynamic inference and model assessment with approximate bayesian computation: influenza as a case study
O Ratmann, G Donker, A Meijer, C Fraser, K Koelle
PLoS Comput Biol 8 (12), e1002835, 2012
412012
PANGEA-HIV: phylogenetics for generalised epidemics in Africa
D Pillay, J Herbeck, MS Cohen, T de Oliveira, C Fraser, O Ratmann, ...
The Lancet Infectious Diseases 15 (3), 259-261, 2015
382015
From evidence to inference: probing the evolution of protein interaction networks
O Ratmann, C Wiuf, JW Pinney
HFSP journal 3 (5), 290-306, 2009
382009
Improved algorithmic complexity for the 3SEQ recombination detection algorithm
HM Lam, O Ratmann, MF Boni
Molecular biology and evolution 35 (1), 247-251, 2018
302018
Report 21: Estimating COVID-19 cases and reproduction number in Brazil
TA Mellan, HH Hoeltgebaum, S Mishra, C Whittaker, RP Schnekenberg, ...
medRxiv, 2020
272020
Cultural conformity generates extremely stable traditions in bird song
RF Lachlan, O Ratmann, S Nowicki
Nature communications 9 (1), 1-9, 2018
262018
Molecular epidemiology of HIV-1 subtype B reveals heterogeneous transmission risk: implications for intervention and control
EM Volz, S Le Vu, O Ratmann, A Tostevin, D Dunn, C Orkin, S O’Shea, ...
The Journal of infectious diseases 217 (10), 1522-1529, 2018
252018
Easy and accurate reconstruction of whole HIV genomes from short-read sequence data with shiver
C Wymant, F Blanquart, T Golubchik, A Gall, M Bakker, D Bezemer, ...
Virus evolution 4 (1), vey007, 2018
232018
Origin, imports and exports of HIV-1 subtype C in South Africa: A historical perspective
E Wilkinson, D Rasmussen, O Ratmann, T Stadler, S Engelbrecht, ...
Infection, Genetics and Evolution 46, 200-208, 2016
222016
Using nearly full-genome HIV sequence data improves phylogeny reconstruction in a simulated epidemic
G Yebra, EB Hodcroft, ML Ragonnet-Cronin, D Pillay, AJL Brown, ...
Scientific reports 6, 39489, 2016
212016
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