The global distribution and burden of dengue. - Samir Bhatt; Peter W. Gething; Oliver J. Brady; Jane P. Messina; Andrew W. Farlow; Catherine L. Moyes; John M. Drake; John S. Brownstein; Anne Gatewood Hoen; Osman Sankoh; Monica F. Myers; Dylan B. George; et al. (Nat., 2013)

Faster Adaptation in Smaller Populations: Counterintuitive Evolution of HIV during Childhood Infection. - Jayna Raghwani; Samir Bhatt; Oliver G. Pybus (PLoS Comput. Biol., 2016)

Stochastic Optimal Control of Epidemic Processes in Networks. - Lars Lorch; Abir De; Samir Bhatt; William Trouleau; Utkarsh Upadhyay; Manuel Gomez-Rodriguez (CoRR, 2018)

Mapping local variation in educational attainment across Africa. - Nicholas Graetz; Joseph Friedman; Aaron Osgood-Zimmerman; Roy Burstein; Molly H. Biehl; Chloe Shields; Jonathan F. Mosser; Daniel C. Casey; Aniruddha Deshpande; Lucas Earl; Robert C. Reiner; Sarah E. Ray; et al. (Nat., 2018)

Spatial Analysis Made Easy with Linear Regression and Kernels. - Philip Milton; Emanuele Giorgi; Samir Bhatt (CoRR, 2019)

πVAE: Encoding stochastic process priors with variational autoencoders. - Swapnil Mishra; Seth R. Flaxman; Samir Bhatt (CoRR, 2020)

A unified machine learning approach to time series forecasting applied to demand at emergency departments. - Michaela A. C. Vollmer; Ben Glampson; Thomas A. Mellan; Swapnil Mishra; Luca Mercuri; Ceire Costelloe; Robert Klaber; Graham S. Cooke; Seth R. Flaxman; Samir Bhatt (CoRR, 2020)

Tracking progress towards malaria elimination in China: Individual-level estimates of transmission and its spatiotemporal variation using a diffusion network approach. - Isobel Routledge; Shengjie Lai; Katherine E. Battle; Azra C. Ghani; Manuel Gomez-Rodriguez; Kyle Gustafson; Swapnil Mishra; Juliette Unwin; Joshua L. Proctor; Andrew J. Tatem; Zhongjie Li; Samir Bhatt (PLoS Comput. Biol., 2020)

Gaussian process nowcasting: application to COVID-19 mortality reporting. - Iwona Hawryluk; Henrique Hoeltgebaum; Swapnil Mishra; Xenia Miscouridou; Ricardo P. Schnekenberg; Charles Whittaker; Michaela A. C. Vollmer; Seth R. Flaxman; Samir Bhatt; Thomas A. Mellan (UAI, 2021)

Encoding spatiotemporal priors with VAEs for small-area estimation. - Elizaveta Semenova; Yidan Xu; Adam Howes; Theo Rashid; Samir Bhatt; Swapnil Mishra; Seth R. Flaxman (CoRR, 2021)

Using Hawkes Processes to model imported and local malaria cases in near-elimination settings. - H. Juliette T. Unwin; Isobel Routledge; Seth R. Flaxman; Marian-Andrei Rizoiu; Shengjie Lai; Justin Cohen; Daniel J. Weiss; Swapnil Mishra; Samir Bhatt (PLoS Comput. Biol., 2021)

The interaction of transmission intensity, mortality, and the economy: a retrospective analysis of the COVID-19 pandemic. - Christian Morgenstern; Daniel J. Laydon; Charles Whittaker; Swapnil Mishra; David J. Haw; Samir Bhatt; Neil M. Ferguson (CoRR, 2022)

Seasonal variation in SARS-CoV-2 transmission in temperate climates: A Bayesian modelling study in 143 European regions. - Tomas Gavenciak; Joshua Teperowski Monrad; Gavin Leech; Mrinank Sharma; Sören Mindermann; Samir Bhatt; Jan Markus Brauner; Jan Kulveit (PLoS Comput. Biol., 2022)

πVAE: a stochastic process prior for Bayesian deep learning with MCMC. - Swapnil Mishra; Seth R. Flaxman; Tresnia Berah; Harrison Zhu; Mikko Pakkanen; Samir Bhatt (Stat. Comput., 2022)

Seq2Seq Surrogates of Epidemic Models to Facilitate Bayesian Inference. - Giovanni Charles; Timothy M. Wolock; Peter Winskill; Azra C. Ghani; Samir Bhatt; Seth R. Flaxman (AAAI, 2023)

Phylo2Vec: a vector representation for binary trees. - Matthew J. Penn; Neil Scheidwasser; Mark P. Khurana; David A. Duchêne; Christl A. Donnelly; Samir Bhatt (CoRR, 2023)

A comparison of short-term probabilistic forecasts for the incidence of COVID-19 using mechanistic and statistical time series models. - Nicolas Banholzer; Thomas A. Mellan; H. Juliette T. Unwin; Stefan Feuerriegel; Swapnil Mishra; Samir Bhatt (CoRR, 2023)

Leaping through tree space: continuous phylogenetic inference for rooted and unrooted trees. - Matthew J. Penn; Neil Scheidwasser; Joseph Penn; Christl A. Donnelly; David A. Duchêne; Samir Bhatt (CoRR, 2023)

Continuous football player tracking from discrete broadcast data. - Matthew J. Penn; Christl A. Donnelly; Samir Bhatt (CoRR, 2023)

Estimating fine age structure and time trends in human contact patterns from coarse contact data: The Bayesian rate consistency model. - Shozen Dan; Yu Chen; Yining Chen; Mélodie Monod; Veronika K. Jaeger; Samir Bhatt; André Karch; Oliver Ratmann (PLoS Comput. Biol., 2023)

Estimating the epidemic reproduction number from temporally aggregated incidence data: A statistical modelling approach and software tool. - Rebecca K. Nash; Samir Bhatt; Anne Cori; Pierre Nouvellet (PLoS Comput. Biol., 2023)

Cox-Hawkes: doubly stochastic spatiotemporal Poisson processes. - Xenia Miscouridou; Samir Bhatt; George O. Mohler; Seth R. Flaxman; Swapnil Mishra (Trans. Mach. Learn. Res., 2023)

Pyfectious: An individual-level simulator to discover optimal containment policies for epidemic diseases. - Arash Mehrjou; Ashkan Soleymani; Amin Abyaneh; Samir Bhatt; Bernhard Schölkopf; Stefan Bauer (PLoS Comput. Biol., 2023)

Deep Learning and MCMC with aggVAE for Shifting Administrative Boundaries: Mapping Malaria Prevalence in Kenya. - Elizaveta Semenova; Swapnil Mishra; Samir Bhatt; Seth R. Flaxman; H. Juliette T. Unwin (Epi UAI, 2024)

KidSat: satellite imagery to map childhood poverty dataset and benchmark. - Makkunda Sharma; Fan Yang; Duy-Nhat Vo; Esra Suel; Swapnil Mishra; Samir Bhatt; Oliver Fiala; William Rudgard; Seth R. Flaxman (CoRR, 2024)

Contrastive Deep Learning Reveals Age Biomarkers in Histopathological Skin Biopsies. - Kaustubh Chakradeo; Pernille Nielsen; Lise Mette Rahbek Gjerdrum; Gry Sahl Hansen; David A. Duchêne; Laust Hvas Mortensen; Majken K. Jensen; Samir Bhatt (CoRR, 2024)

Bayesian workflow for time-varying transmission in stratified compartmental infectious disease transmission models. - Judith A. Bouman; Anthony Hauser; Simon L. Grimm; Martin Wohlfender; Samir Bhatt; Elizaveta Semenova; Andrew Gelman; Christian L. Althaus; Julien Riou (PLoS Comput. Biol., 2024)

Diffusion Models for Inverse Problems in the Exponential Family. - Alessandro Micheli; Mélodie Monod; Samir Bhatt (CoRR, 2025)

Artificial intelligence for modelling infectious disease epidemics. - Moritz U. G. Kraemer; Joseph L.-H. Tsui; Serina Chang; Spyros Lytras; Mark P. Khurana; Samantha Vanderslott; Sumali Bajaj; Neil Scheidwasser; Jacob Liam Curran-Sebastian; Elizaveta Semenova; Mengyan Zhang; H. Juliette T. Unwin; et al. (Nat., 2025)

NeuralSurv: Deep Survival Analysis with Bayesian Uncertainty Quantification. - Mélodie Monod; Alessandro Micheli; Samir Bhatt (CoRR, 2025)

Interpretable Graph Learning Over Sets of Temporally-Sparse Data. - Andrea Zerio; Maya Bechler-Speicher; Maor Huri; Marie Vibeke Vestergaard; Ran Gilad-Bachrach; Tine Jess; Samir Bhatt; Aleksejs Sazonovs (CoRR, 2025)

phylo2vec: a library for vector-based phylogenetic tree manipulation. - Neil Scheidwasser; Ayush Nag; Matthew J. Penn; Anthony MV Jakob; Frederik Mølkjær Andersen; Mark P. Khurana; Landung Setiawan; Madeline Gordon; David A. Duchêne; Samir Bhatt (CoRR, 2025)