A data-augmentation method for infectious disease incidence data from close contact groups. - Yang Yang; Ira M. Longini Jr.; M. Elizabeth Halloran (Comput. Stat. Data Anal., 2007)

Neuraminidase Inhibitor Resistance in Influenza: Assessing the Danger of Its Generation and Spread. - Andreas Handel; Ira M. Longini Jr.; Rustom Antia (PLoS Comput. Biol., 2007)

FluTE, a Publicly Available Stochastic Influenza Epidemic Simulation Model. - Dennis L. Chao; M. Elizabeth Halloran; Valerie J. Obenchain; Ira M. Longini Jr. (PLoS Comput. Biol., 2010)

Estimating Within-School Contact Networks to Understand Influenza Transmission - Gail E. Potter; Mark S. Handcock; Ira M. Longini Jr.; M. Elizabeth Halloran (CoRR, 2011)

Optimal Vaccine Allocation for the Early Mitigation of Pandemic Influenza. - Laura Matrajt; M. Elizabeth Halloran; Ira M. Longini Jr. (PLoS Comput. Biol., 2013)

Molecular Infectious Disease Epidemiology: Survival Analysis and Algorithms Linking Phylogenies to Transmission Trees. - Eben Kenah; Tom Britton; M. Elizabeth Halloran; Ira M. Longini Jr. (PLoS Comput. Biol., 2016)

Cryptic transmission of SARS-CoV-2 and the first COVID-19 wave. - Jessica T. Davis; Matteo Chinazzi; Nicola Perra; Kunpeng Mu; Ana L. Pastore y Piontti; Marco Ajelli; Natalie E. Dean; Corrado Gioannini; Maria Litvinova; Stefano Merler; Luca Rossi 010; Kaiyuan Sun; et al. (Nat., 2021)