The public heath threat posed by novel strains of influenza A gaining transmissibility in people and causing a human pandemic has been recognised as potentially catastrophic, especially since the emergence and global spread of the highly pathogenic avian H5N1 virus. Several mathematical models have been developed to evaluate patterns of spatio-temporal spread of infection, and the effectiveness of various containment strategies. However, these require significant improvements, elaboration, and application, in order to better inform EU-wide policy and responses. Key to the determination of the spatio-temporal patterns of pandemic influenza are data on contact patterns, such as those that are being acquired by the EU projects INFTRANS and POLYMOD. Building on these projects, we will collect detailed data on population structure, workplace sizes, and population movement; while also doing new surveys focused on identifying potential behavioral super-spreaders, and attitudes towards, and potential behavioural changes during, a pandemic. A suite of mathematical models, ranging from deterministic and stochastic differential equations to individual-based microsimulations, will be developed and integrated; taking into account all of the new data that is acquired above. The models will be validated against data on past pandemics and on the dynamics of seasonal and endemic infectious diseases. The effectiveness of control/treatment strategies, including measures to increase social distance (school and workplaces closure, travel reductions), quarantine, antiviral prophylaxis and mass or targeted vaccination, which also consider contact tracing protocols, will be evaluated through these models. An essential ingredient to the usefulness of detailed models is the possibility of updating them on the basis of new information or on the patterns of an emerging epidemic; hence a specific effort will be devoted to develop modular and efficient algorithms allowing for real-time analysis.