Samir Bhatt
Professor, FMedSci, MAE; Scientific Director of GPAP
Imperial College London
University of Copenhagen
Samir Bhatt is a Professor at Imperial College London and the University of Copenhagen, and Scientific Director of the Global Pathogen Analysis Platform (GPAP). He is a Fellow of the Academy of Medical Sciences (FMedSci) and a Member of the Academia Europaea.
His research develops mathematical, statistical and computer science tools to answer questions about human health, with a focus on infectious diseases.
Interests
- Machine Learning
- Bayesian Inference
- Public Health
- Infectious Diseases
Latest
- Discrete Wasserstein Flows for One-Step Generative Modeling
- Multiple drivers of genomic novelty across ruminants
- Sequence-Informed Geometric Evaluation of RNA 3D Structures
- Definitions and Metrics of Interdisciplinarity: A PRISMA-ScR Scoping Review Protocol
- Large-scale genomic surveillance reveals immunosuppression drives mutation dynamics in persistent SARS-CoV-2 infections
- Generative Modeling on Metric Graphs via Neural Optimal Transport
- Federated analysis of incubation period distributions using individual-level observed data and heterogeneous summary statistics
- PlayClass: Automated Play Behaviour Classification in Poultry
- Interdomain Attention: Beyond Token-Level Key-Value Memory
- Entropic Riemannian Neural Optimal Transport
- Evaluation of clinical utility in emulated clinical trials
- Global approaches to infectious disease surveillance and modeling
- Riemannian Neural Optimal Transport
- SARS-CoV-2 reinfections and subsequent risk of hospital-diagnosed post-acute sequelae in Denmark (2020–2022): a nationwide cohort study
- Transmission Networks and Intervention Effects From SARS-CoV-2 Genomic and Social Network Data in Denmark
- “Developing machine learning models of self-reported and register-based data to predict eating disorders in adolescence”
- Meteorological and environmental drivers of West Nile virus prevalence in Culex pipiens mosquitoes in Emilia-Romagna, Italy in 2013 to 2022
- phylo2vec: a library for vector-based phylogenetic tree manipulation
- Beyond distance: integrating economic burden into large-scale primary healthcare accessibility analysis
- Development and validation of early warning scores predicting 24-hour mortality addressing intercurrent medical interventions: a multi-centre retrospective cohort study of 2·08 million hospital encounters
- Continuous football player tracking from discrete broadcast data
- Deep learning from videography as a tool for measuring E. coli infection in poultry
- Exploring nationwide patterns of sleep problems from late adolescence to adulthood using machine learning
- How early-life adversity affects the risk of pediatric-onset immune-mediated inflammatory disease
- Excess mortality and hospitalisations associated with respiratory syncytial virus, influenza, and COVID-19 among adults in Denmark (2015–2024): a modelling study
- Robert Verity, Samir Bhatt, Anne Cori, Seth Flaxman, and Swapnil Mishra’s contribution to the Discussion of ‘Some statistical aspects of the Covid-19 response’ by Wood et al.
- Genomic Surveillance of Climate-Amplified Cholera Outbreak, Malawi, 2022–2023
- GRAPEVNE - Graphical Analytical Pipeline Development Environment for Infectious Diseases
- Socioeconomic and temporal heterogeneity in SARS-CoV-2 exposure and disease in England from May 2020 to February 2023
- Estimating the worst-case scenario for malaria parasite rate in sub-Saharan Africa
- Exploring the potential and limitations of deep learning and explainable AI for longitudinal life course analysis
- Distinct evolutionary regimes across domains of the Plasmodium falciparum CSP gene
- Drivers of avian genomic change revealed by evolutionary rate decomposition
- Mapping the global prevalence, incidence, and mortality of Plasmodium falciparum and Plasmodium vivax malaria, 2000–22: a spatial and temporal modelling study
- Cause-specific mortality after spousal bereavement in a Danish register-based cohort
- Artificial intelligence for modelling infectious disease epidemics
- Generalised Bayesian distance-based phylogenetics for the genomics era
- Bayesian Inference of Phylogenetic Distances: Revisiting the Eigenvalue Approach
- Modelling the Stochastic Importation Dynamics and Establishment of Novel Pathogenic Strains Using a General Branching Processes Framework
- Recurrent Memory for Online Interdomain Gaussian Processes
- Ethnicity and anthropometric deficits in children: A cross-sectional analysis of national survey data from 18 countries in sub-Saharan Africa
- Estimating the impact of imported malaria on local transmission in a near elimination setting: a case study from Bhutan
- Non-pharmaceutical interventions: evaluating challenges and priorities for future health shocks
- Climate Change and Malaria: A Call for Robust Analytics
- Modelling the impact of vaccination on SARS-CoV-2 transmission in England
- Modelling the implementation of narrow versus broader spectrum antibiotics in the empiric treatment of E. coli bacteraemia
- Phylo2Vec: A Vector Representation for Binary Trees
- The interaction of disease transmission, mortality, and economic output over the first 2 years of the COVID-19 pandemic
- Severity of respiratory tract infections depends on the infectious dose. Perspectives for the next pandemic
- Bayesian workflow for time-varying transmission in stratified compartmental infectious disease transmission models
- The Gompertz Law emerges naturally from the inter-dependencies between sub-components in complex organisms
- Deep learning and MCMC with aggVAE for shifting administrative boundaries: mapping malaria prevalence in Kenya
- The Limits of the Constant-rate Birth–Death Prior for Phylogenetic Tree Topology Inference
- Leaping through Tree Space: Continuous Phylogenetic Inference for Rooted and Unrooted Trees
- Estimating the epidemic reproduction number from temporally aggregated incidence data: A statistical modelling approach and software tool
- Effectiveness of social distancing measures and lockdowns for reducing transmission of COVID-19 in non-healthcare, community-based settings
- Application of referenced thermodynamic integration to Bayesian model selection
- Machine learning models of healthcare expenditures predicting mortality: A cohort study of spousal bereaved Danish individuals
- Predicting mortality risk after a fall in older adults using health care spending patterns: a population-based cohort study
- Unifying incidence and prevalence under a time-varying general branching process
- A Systems Level Explanation for Gompertzian Mortality Patterns is provided by the “Multiple and Inter-dependent Component Cause Model”
- Long-term exposure to air pollution and risk of SARS-CoV-2 infection and COVID-19 hospitalisation or death: Danish nationwide cohort study
- Estimating fine age structure and time trends in human contact patterns from coarse contact data: The Bayesian rate consistency model
- Intrinsic Randomness in Epidemic Modelling Beyond Statistical Uncertainty
- No evidence of sustained nonzoonotic Plasmodium knowlesi transmission in Malaysia from modelling malaria case data
- A comparison of short-term probabilistic forecasts for the incidence of COVID-19 using mechanistic and statistical time series models
- Mapping malaria incidence using routine health facility surveillance data in Uganda
- An archetypes approach to malaria intervention impact mapping: a new framework and example application
- Impact of proactive and reactive vaccination strategies for health-care workers against MERS-CoV: a mathematical modelling study
- Danish Pathology Life Course (PATHOLIFE) cohort: a register based cohort extending upon a national tissue biobank
- Spatiotemporal and Seasonal Trends of Class A and B Notifiable Infectious Diseases in China: Retrospective Analysis
- Effectiveness assessment of non-pharmaceutical interventions: lessons learned from the COVID-19 pandemic
- Sex differences in health care expenditures and mortality after spousal bereavement: A register-based Danish cohort study
- Semi-mechanistic Bayesian modelling of COVID-19 with renewal processes
- Seasonal dynamics of Anopheles stephensi and its implications for mosquito detection and emergent malaria control in the Horn of Africa
- Cancer burden among adolescents and young adults in relation to childhood adversity: a nationwide life-course cohort study of 1.2 million individuals
- Conflicting COVID-19 excess mortality estimates
- Assessment of COVID-19 as the Underlying Cause of Death Among Children and Young People Aged 0 to 19 Years in the US
- Pyfectious: An individual-level simulator to discover optimal containment policies for epidemic diseases
- Seq2Seq Surrogates of Epidemic Models to Facilitate Bayesian Inference
- Global disparities in SARS-CoV-2 genomic surveillance
- A COVID-19 Model for Local Authorities of the United Kingdom
- Authors’ Reply to the Discussion of ‘A COVID-19 Model for Local Authorities of the United Kingdom’ by Mishra et al. in Session 2 of the Royal Statistical Society’s Special Topic Meeting on COVID-19 Transmission: 11 June 2021
- Cox-Hawkes: doubly stochastic spatiotemporal Poisson processes
- $$\pi $$VAE: a stochastic process prior for Bayesian deep learning with MCMC
- Context-specific emergence and growth of the SARS-CoV-2 Delta variant
- Regularised B-splines Projected Gaussian Process Priors to Estimate Time-trends in Age-specific COVID-19 Deaths
- Quantifying Changes in Vaccine Coverage in Mainstream Media as a Result of the COVID-19 Outbreak: Text Mining Study
- Resurgence of malaria in Uganda despite sustained indoor residual spraying and repeated long lasting insecticidal net distributions
- Misclassification bias in estimating clinical severity of SARS-CoV-2 variants – Authors' reply
- Seasonal variation in SARS-CoV-2 transmission in temperate climates: A Bayesian modelling study in 143 European regions
- Lessons from SARS-CoV-2 in India: A data-driven framework for pandemic resilience
- Modeling DREAMS impact: trends in new HIV diagnoses among women attending antenatal care clinics in DREAMS countries
- PriorVAE: encoding spatial priors with variational autoencoders for small-area estimation
- Mask wearing in community settings reduces SARS-CoV-2 transmission
- Estimating the COVID-19 infection fatality ratio accounting for seroreversion using statistical modelling
- Spatial and temporal fluctuations in COVID-19 fatality rates in Brazilian hospitals
- Risk of hospitalisation associated with infection with SARS-CoV-2 omicron variant versus delta variant in Denmark: an observational cohort study
- A novel statistical framework for exploring the population dynamics and seasonality of mosquito populations
- A dataset of non-pharmaceutical interventions on SARS-CoV-2 in Europe
- Comparative analysis of the risks of hospitalisation and death associated with SARS-CoV-2 omicron (B.1.1.529) and delta (B.1.617.2) variants in England: a cohort study.
- Global, regional, and national minimum estimates of children affected by COVID-19-associated orphanhood and caregiver death, by age and family circumstance up to Oct 31, 2021: an updated modelling study
- Purifying selection determines the short-term time dependency of evolutionary rates in SARS-CoV-2 and pH1N1 influenza
- Novel Epidemic Metrics to Communicate Outbreak Risk at the Municipality Level: Dengue and Zika in the Dominican Republic
- πVAE: a stochastic process prior for Bayesian deep learning with MCMC
- Track Omicron’s spread with molecular data
- Vaccinating adolescents against SARS-CoV-2 in England: a risk–benefit analysis
- Epidemia: An R Package for Semi-Mechanistic Bayesian Modelling of Infectious Diseases using Point Processes
- PriorVAE: Encoding spatial priors with VAEs for small-area estimation
- Understanding the effectiveness of government interventions against the resurgence of COVID-19 in Europe
- The impact of the COVID-19 pandemic on patterns of attendance at emergency departments in two large London hospitals: an observational study
- The association between mechanical ventilator compatible bed occupancy and mortality risk in intensive care patients with COVID-19: a national retrospective cohort study
- Comparing the responses of the UK, Sweden and Denmark to COVID-19 using counterfactual modelling
- Changing composition of SARS-CoV-2 lineages and rise of Delta variant in England
- Is the cure really worse than the disease? The health impacts of lockdowns during COVID-19
- Inference of malaria reproduction numbers in three elimination settings by combining temporal data and distance metrics
- Global minimum estimates of children affected by COVID-19-associated orphanhood and deaths of caregivers: a modelling study
- Maps and metrics of insecticide-treated net access, use, and nets-per-capita in Africa from 2000-2020
- Quantifying Online News Media Coverage of the COVID-19 Pandemic: Text Mining Study and Resource
- Leveraging community mortality indicators to infer COVID-19 mortality and transmission dynamics in Damascus, Syria
- Modelling the impact of the tier system on SARS-CoV-2 transmission in the UK between the first and second national lockdowns
- Using Hawkes Processes to model imported and local malaria cases in near-elimination settings
- Implications of a highly transmissible variant of SARS-CoV-2 for children
- Assessing transmissibility of SARS-CoV-2 lineage B.1.1.7 in England
- Multimodal deep learning from satellite and street-level imagery for measuring income, overcrowding, and environmental deprivation in urban areas
- Age groups that sustain resurging COVID-19 epidemics in the United States
- A unified machine learning approach to time series forecasting applied to demand at emergency departments
- Referenced Thermodynamic Integration for Bayesian Model Selection: Application to COVID-19 Model Selection