An efficient moments-based inference method for within-host bacterial infection dynamics

On the efficient determination of optimal Bayesian experimental designs using ABC: A case study in optimal observation of epidemics

(2016) David J. Price et al.   JOURNAL OF STATISTICAL PLANNING AND INFERENCE

Bayesian uncertainty quantification for transmissibility of influenza, norovirus and Ebola using information geometry

(2016) Thomas House et al.   Journal of the Royal Society Interface

A Review of Modern Computational Algorithms for Bayesian Optimal Design

(2015) Elizabeth G. Ryan et al.   INTERNATIONAL STATISTICAL REVIEW

Multivariate moment closure techniques for stochastic kinetic models

(2015) Eszter Lakatos et al.   JOURNAL OF CHEMICAL PHYSICS

Single passage in mouse organs enhances the survival and spread ofSalmonella enterica

(2015) Richard Dybowski et al.   Journal of the Royal Society Interface

Sequence tag–based analysis of microbial population dynamics

(2015) Sören Abel et al.   NATURE METHODS

Analysis of Bottlenecks in Experimental Models of Infection

(2015) Sören Abel et al.   PLoS Pathogens

Phenotypic Variation of Salmonella in Host Tissues Delays Eradication by Antimicrobial Chemotherapy

(2014) Beatrice Claudi et al.   CELL

A framework for parameter estimation and model selection from experimental data in systems biology using approximate Bayesian computation

(2014) Juliane Liepe et al.   Nature Protocols

Cecum Lymph Node Dendritic Cells Harbor Slow-Growing Bacteria Phenotypically Tolerant to Antibiotic Treatment

(2014) Patrick Kaiser et al.   PLOS BIOLOGY

The Effects of Vaccination and Immunity on Bacterial Infection Dynamics In Vivo

(2014) Chris Coward et al.   PLoS Pathogens

Independent Bottlenecks Characterize Colonization of Systemic Compartments and Gut Lymphoid Tissue by Salmonella

(2014) Chee Han Lim et al.   PLoS Pathogens

Near-optimal experimental design for model selection in systems biology

(2013) Alberto Giovanni Busetto et al.   BIOINFORMATICS

Bacillus anthracis Has Two Independent Bottlenecks That Are Dependent on the Portal of Entry in an Intranasal Model of Inhalational Infection

(2013) David E. Lowe et al.   INFECTION AND IMMUNITY

Within-Host Selection Is Limited by an Effective Population of Streptococcus pneumoniae during Nasopharyngeal Colonization

(2013) Yuan Li et al.   INFECTION AND IMMUNITY

A closure scheme for chemical master equations

(2013) P. Smadbeck et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Disparate Individual Fates Compose Robust CD8+ T Cell Immunity

(2013) V. R. Buchholz et al.   SCIENCE

Approximate Bayesian Computation

(2013) Mikael Sunnåker et al.   PLoS Computational Biology

Lymph Node Colonization Dynamics after Oral Salmonella Typhimurium Infection in Mice

(2013) Patrick Kaiser et al.   PLoS Pathogens

Kinetics of Uropathogenic Escherichia coli Metapopulation Movement during Urinary Tract Infection

(2012) M. S. Walters et al.   mBio

Analyzing microbial disease at high resolution: following the fate of the bacterium during infection

(2011) Gregory T Crimmins et al.   CURRENT OPINION IN MICROBIOLOGY

Population Dynamics and Niche Distribution of Uropathogenic Escherichia coli during Acute and Chronic Urinary Tract Infection

(2011) Drew J. Schwartz et al.   INFECTION AND IMMUNITY

Oral Infection with Signature-Tagged Listeria monocytogenes Reveals Organ-Specific Growth and Dissemination Routes in Guinea Pigs

(2011) Jody A. Melton-Witt et al.   INFECTION AND IMMUNITY

Transition probabilities for general birth–death processes with applications in ecology, genetics, and evolution

(2011) Forrest W. Crawford et al.   JOURNAL OF MATHEMATICAL BIOLOGY

Analytical derivation of moment equations in stochastic chemical kinetics

(2010) Vassilios Sotiropoulos et al.   CHEMICAL ENGINEERING SCIENCE

Approximate Moment Dynamics for Chemically Reacting Systems

(2010) Abhyudai Singh et al.   IEEE TRANSACTIONS ON AUTOMATIC CONTROL

Moment-closure approximations for mass-action models

(2009) C.S. Gillespie   IET Systems Biology

Approximate Bayesian computation scheme for parameter inference and model selection in dynamical systems

(2008) T. Toni et al.   Journal of the Royal Society Interface

A dynamic view of the spread and intracellular distribution of Salmonella enterica

(2008) Pietro Mastroeni et al.   NATURE REVIEWS MICROBIOLOGY

Modelling within-Host Spatiotemporal Dynamics of Invasive Bacterial Disease

(2008) Andrew J Grant et al.   PLOS BIOLOGY