A Likelihood Approach for Real-Time Calibration of Stochastic Compartmental Epidemic Models

Deterministic inference for stochastic systems using multiple shooting and a linear noise approximation for the transition probabilities

(2015) Christoph Zimmer et al.   IET Systems Biology

Reconstructing the hidden states in time course data of stochastic models

(2015) Christoph Zimmer   MATHEMATICAL BIOSCIENCES

Forecasting Influenza Epidemics in Hong Kong

(2015) Wan Yang et al.   PLoS Computational Biology

Influenza Forecasting in Human Populations: A Scoping Review

(2014) Jean-Paul Chretien et al.   PLoS One

Comparison of Filtering Methods for the Modeling and Retrospective Forecasting of Influenza Epidemics

(2014) Wan Yang et al.   PLoS Computational Biology

A New Framework and Software to Estimate Time-Varying Reproduction Numbers During Epidemics

(2013) Anne Cori et al.   AMERICAN JOURNAL OF EPIDEMIOLOGY

Real-time influenza forecasts during the 2012–2013 season

(2013) Jeffrey Shaman et al.   Nature Communications

Using Routine Surveillance Data to Estimate the Epidemic Potential of Emerging Zoonoses: Application to the Emergence of US Swine Origin Influenza A H3N2v Virus

(2013) Simon Cauchemez et al.   PLOS MEDICINE

The R0 package: a toolbox to estimate reproduction numbers for epidemic outbreaks

(2012) Thomas Obadia et al.   BMC Medical Informatics and Decision Making

Biochemical fluctuations, optimisation and the linear noise approximation

(2012) Jürgen Pahle et al.   BMC Systems Biology

Tracking Epidemics With Google Flu Trends Data and a State-Space SEIR Model

(2012) Vanja Dukic et al.   JOURNAL OF THE AMERICAN STATISTICAL ASSOCIATION

Intrinsic Noise Analyzer: A Software Package for the Exploration of Stochastic Biochemical Kinetics Using the System Size Expansion

(2012) Philipp Thomas et al.   PLoS One

Forecasting seasonal outbreaks of influenza

(2012) J. Shaman et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Early Real-Time Estimation of the Basic Reproduction Number of Emerging Infectious Diseases

(2012) Bahman Davoudi et al.   Physical Review X

Inference for discretely observed stochastic kinetic networks with applications to epidemic modeling

(2011) Boseung Choi et al.   BIOSTATISTICS

Methods to infer transmission risk factors in complex outbreak data

(2011) S. Cauchemez et al.   Journal of the Royal Society Interface

Bayesian modeling to unmask and predict influenza A/H1N1pdm dynamics in London

(2011) P. J. Birrell et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

The Effective Reproduction Number of Pandemic Influenza

(2010) Benjamin J. Cowling et al.   EPIDEMIOLOGY

An effective rate equation approach to reaction kinetics in small volumes: Theory and application to biochemical reactions in nonequilibrium steady-state conditions

(2010) R. Grima   JOURNAL OF CHEMICAL PHYSICS

Real-Time Epidemic Monitoring and Forecasting of H1N1-2009 Using Influenza-Like Illness from General Practice and Family Doctor Clinics in Singapore

(2010) Jimmy Boon Som Ong et al.   PLoS One

Bayesian inference of biochemical kinetic parameters using the linear noise approximation

(2009) Michał Komorowski et al.   BMC BIOINFORMATICS

Household Transmission of 2009 Pandemic Influenza A (H1N1) Virus in the United States

(2009) Simon Cauchemez et al.   NEW ENGLAND JOURNAL OF MEDICINE

Real Time Bayesian Estimation of the Epidemic Potential of Emerging Infectious Diseases

(2008) Luís M. A. Bettencourt et al.   PLoS One

A likelihood‐based method for real‐time estimation of the serial interval and reproductive number of an epidemic

(2007) L. Forsberg White et al.   STATISTICS IN MEDICINE