I Introduction
1. Introduction
Leonhard Held, Niel Hens, Philip O’Neill, Jacco Wallinga
II Basic Concepts
1. Population dynamics of pathogens
Ottar Bjornstad
2. Infectious disease data from surveillance, outbreak investigation and epidemiological studies
Susan Hahné, Richard Pebody
3. Key concepts in infectious disease epidemiology
Nick Jewell
4. Key parameters in infectious disease epidemiology
Laura White
5. Contact patterns for contagious diseases
Jacco Wallinga, Jan van de Kassteele, Niel Hens
6. Basic stochastic transmission models and their inference
Tom Britton
7. Analysis of vaccine studies and causal inference
Betz Halloran
III Analysis of Outbreak Data
1. Markov chain Monte Carlo methods for outbreak data
Philip O’Neill, Theodore Kypraios
2. Approximate Bayesian Computation methods for epidemic models
Peter Neal
3. Iterated filtering methods for Markov process epidemic models
Theresa Stocks
4. Pairwise survival analysis of infectious disease transmission data
Eben Kenah
5. Methods for outbreaks using genomic data
Don Klinkenberg, Caroline Colijn, Xavier Didelot
IV Analysis of Seroprevalence Data
1. Persistence of passive immunity, natural immunity (and vaccination)
Amy Winter, Jess Metcalf
2. Inferring the time of infection from serological data
Maciej Boni, Kåre Mølbak, Karen Angeliki Krogfelt
3. The use of seroprevalence data to estimate cumulative incidence of infection
Ben Cowling, Jessica Wong
4. The analysis of serological data with transmission models
Marc Baguelin
5. The analysis of multivariate serological data
Steven Abrams
6. Mixture modelling
Emanuele Del Fava, Ziv Shkedy
V Analysis of Surveillance Data
1. Modelling infectious diseases distributions: applications of point process methods
Peter J Diggle
2. Prospective detection of outbreaks
Benjamin Allevius, Michael Höhle
3. Underreporting and reporting delays
Angela Noufaily
4. Spatio-temporal analysis of surveillance data
Jon Wakefield, Tracy Q Dong, Vladimir N Minin
5. Analysing multiple epidemic data sources
Daniela De Angelis, Anne Presanis
6. Forecasting based on surveillance data
Leonhard Held, Sebastian Meyer
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