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List of works by Oliver Ratmann

A Method to Estimate the Size and Characteristics of HIV-positive Populations Using an Individual-based Stochastic Simulation Model

scientific article published on 24 November 2015

A Recent Human Immunodeficiency Virus Outbreak Among People Who Inject Drugs in Munich, Germany, Is Associated With Consumption of Synthetic Cathinones

scientific article published on 27 May 2020

A dimensionless number for understanding the evolutionary dynamics of antigenically variable RNA viruses.

scientific article published on 4 May 2011

A sub-national analysis of the rate of transmission of COVID-19 in Italy

scientific article published on 09 May 2020

Assessing transmissibility of SARS-CoV-2 lineage B.1.1.7 in England

scientific article published on 25 March 2021

Comparison of cluster-based and source-attribution methods for estimating transmission risk using large HIV sequence databases.

scientific article

Contemporary statistical inference for infectious disease models using Stan

scientific article published on 05 October 2019

Cultural conformity generates extremely stable traditions in bird song.

scientific article published on 20 June 2018

Dispersion of the HIV-1 Epidemic in Men Who Have Sex with Men in the Netherlands: A Combined Mathematical Model and Phylogenetic Analysis

scientific article

Easy and accurate reconstruction of whole HIV genomes from short-read sequence data with shiver.

scientific article published in January 2018

Explaining rapid reinfections in multiple-wave influenza outbreaks: Tristan da Cunha 1971 epidemic as a case study.

scientific article published on 27 April 2011

From evidence to inference: probing the evolution of protein interaction networks

scientific article published on 19 October 2009

FunCat functional inference with belief propagation and feature integration

scientific article published on 03 July 2008

Genomics and epidemiology of the P.1 SARS-CoV-2 lineage in Manaus, Brazil

scientific article

HIV-1 Sequence Data Coverage in Central East Africa from 1959 to 2013.

scientific article

HIV-1 Transmission Patterns in Men Who Have Sex with Men: Insights from Genetic Source Attribution Analysis

scientific article published on 01 September 2019

HIV-1 full-genome phylogenetics of generalized epidemics in sub-Saharan Africa: impact of missing nucleotide characters in next-generation sequences

scientific article published on 25 May 2017

Impact of cross-protective vaccines on epidemiological and evolutionary dynamics of influenza

scientific article

Inference for nonlinear epidemiological models using genealogies and time series

scientific article

Inferring HIV-1 transmission networks and sources of epidemic spread in Africa with deep-sequence phylogenetic analysis

article

Mixing patterns of HIV transmission among men who have sex with men in the United Kingdom

article

Model criticism based on likelihood-free inference, with an application to protein network evolution

scholarly article

Molecular Epidemiology of HIV-1 Subtype B Reveals Heterogeneous Transmission Risk: Implications for Intervention and Control

article

Origin, imports and exports of HIV-1 subtype C in South Africa: A historical perspective

scientific article published on 12 July 2016

OutbreakTools: a new platform for disease outbreak analysis using the R software

scientific article (publication date: June 2014)

PANGEA-HIV: phylogenetics for generalised epidemics in Africa

scientific article published on March 2015

PHYLOSCANNER: Inferring Transmission from Within- and Between-Host Pathogen Genetic Diversity.

scientific article published on 23 November 2017

Pervasive and non-random recombination in near full-length HIV genomes from Uganda

scientific article published on 01 January 2020

Phylodynamic inference and model assessment with approximate bayesian computation: influenza as a case study

scientific article

Phylogenetic Tools for Generalized HIV-1 Epidemics: Findings from the PANGEA-HIV Methods Comparison.

scientific article published on 07 October 2016

Phylogenetic and Demographic Characterization of Directed HIV-1 Transmission Using Deep Sequences from High-Risk and General Population Cohorts/Groups in Uganda

scientific article published on 18 March 2020

Phylogenies from dynamic networks

scientific article published on 26 February 2019

Quantifying HIV transmission flow between high-prevalence hotspots and surrounding communities: a population-based study in Rakai, Uganda

scientific article published on 14 January 2020

Reply to Robert et al.: Model criticism informs model choice and model comparison

article published in the Proceedings of the National Academy of Sciences of the United States of America

Report 21: Estimating COVID-19 cases and reproduction number in Brazil

scientific article published on 18 May 2020

Sources of HIV infection among men having sex with men and implications for prevention

scientific article

Spatial and temporal fluctuations in COVID-19 fatality rates in Brazilian hospitals

scientific article published in 2022

State-level tracking of COVID-19 in the United States

scientific article published on 03 December 2020

Transmission of SARS-CoV-2 Lineage B.1.1.7 in England: Insights from linking epidemiological and genetic data

scientific article

Using likelihood-free inference to compare evolutionary dynamics of the protein networks of H. pylori and P. falciparum

scientific article

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