Stefan Engblom
Professor vid Institutionen för informationsteknologi; Beräkningsvetenskap
- Telefon:
- 018-471 27 54
- E-post:
- Stefan.Engblom@it.uu.se
- Besöksadress:
- Hus 10, Regementsvägen 10
- Postadress:
- Box 337
751 05 UPPSALA
- Akademiska meriter:
- civ.ing., Docent, Excellent lärare
- ORCID:
- 0000-0002-3614-1732
Forskning
Please see my personal web-page.
Publikationer
Urval av publikationer
-
Morphological Stability for in silico Models of Avascular Tumors
Ingår i Bulletin of Mathematical Biology, 2024
- DOI för Morphological Stability for in silico Models of Avascular Tumors
- Ladda ner fulltext (pdf) av Morphological Stability for in silico Models of Avascular Tumors
-
Bayesian Monitoring of COVID-19 in Sweden
Ingår i Epidemics, 2023
- DOI för Bayesian Monitoring of COVID-19 in Sweden
- Ladda ner fulltext (pdf) av Bayesian Monitoring of COVID-19 in Sweden
-
Bayesian inference in epidemics: linear noise analysis
Ingår i Mathematical Biosciences and Engineering, s. 4128-4152, 2023
- DOI för Bayesian inference in epidemics: linear noise analysis
- Ladda ner fulltext (pdf) av Bayesian inference in epidemics: linear noise analysis
-
Ingår i Nature Communications, 2022
- DOI för App-based COVID-19 syndromic surveillance and prediction of hospital admissions in COVID Symptom Study Sweden
- Ladda ner fulltext (pdf) av App-based COVID-19 syndromic surveillance and prediction of hospital admissions in COVID Symptom Study Sweden
-
Robust and integrative Bayesian neural networks for likelihood-free parameter inference
Ingår i 2022 International Joint Conference on Neural Networks (IJCNN), s. 1-10, 2022
-
Distributed and Adaptive Fast Multipole Method in Three Dimensions
Ingår i Communications in Computational Physics, s. 959-984, 2021
-
Flash X-ray diffraction imaging in 3D: a proposed analysis pipeline
Ingår i Journal of the Optical Society of America A, s. 1673-1686, 2020
-
Bayesian epidemiological modeling over high-resolution network data
Ingår i Epidemics, 2020
- DOI för Bayesian epidemiological modeling over high-resolution network data
- Ladda ner fulltext (pdf) av Bayesian epidemiological modeling over high-resolution network data
-
Supervised classification methods for flash X-ray single particle diffraction imaging
Ingår i Optics Express, s. 3884-3899, 2019
-
SimInf: An R package for data-driven stochastic disease spread simulations
Ingår i Journal of Statistical Software, s. 1-42, 2019
-
Exposing inter-process information for efficient PDES of spatial stochastic systems on multicores
Ingår i ACM Transactions on Modeling and Computer Simulation, 2019
-
Stochastic simulation of pattern formation in growing tissue: A multilevel approach
Ingår i Bulletin of Mathematical Biology, s. 3010-3023, 2019
-
Assessing uncertainties in x-ray single-particle three-dimensional reconstruction
Ingår i Physical Review E. Statistical, Nonlinear, and Soft Matter Physics, 2018
-
A general high order two-dimensional panel method
Ingår i Applied Mathematical Modelling, s. 1-17, 2018
-
Ingår i Royal Society Open Science, 2018
-
Fine-grained local dynamic load balancing in PDES
Ingår i Proc. 6th ACM SIGSIM Conference on Principles of Advanced Discrete Simulation, s. 201-212, 2018
-
Multiscale modelling via split-step methods in neural firing
Ingår i Mathematical and Computer Modelling of Dynamical Systems, s. 426-445, 2018
-
Mesoscopic modeling of random walk and reactions in crowded media
Ingår i Physical Review E. Statistical, Nonlinear, and Soft Matter Physics, 2018
-
Pathwise error bounds in multiscale variable splitting methods for spatial stochastic kinetics
Ingår i SIAM Journal on Numerical Analysis, s. 469-498, 2018
-
Ingår i Veterinary research (Print), 2018
-
Stability and strong convergence for spatial stochastic kinetics
Ingår i Stochastic Processes, Multiscale Modeling, and Numerical Methods for Computational Cellular Biology, s. 109-125, Springer, 2017
-
Vascular sprouts induce local attraction of proangiogenic neutrophils
Ingår i Journal of Leukocyte Biology, s. 741-751, 2017
-
Ingår i Proc. 5th ACM SIGSIM Conference on Principles of Advanced Discrete Simulation, s. 53-64, 2017
-
Data-driven computational disease spread modeling: from measurement to parametrization and control
Ingår i Disease Modelling and Public Health, s. 305-328, Elsevier, 2017
-
Analysis and design of jump coefficients in discrete stochastic diffusion models
Ingår i SIAM Journal on Scientific Computing, 2016
- DOI för Analysis and design of jump coefficients in discrete stochastic diffusion models
- Ladda ner fulltext (pdf) av Analysis and design of jump coefficients in discrete stochastic diffusion models
-
Preconditioned Metropolis sampling as a strategy to improve efficiency in posterior exploration
s. 89-94, 2016
-
Mesoscopic modeling of stochastic reaction–diffusion kinetics in the subdiffusive regime
Ingår i Multiscale Modeling & simulation, s. 668-707, 2016
-
Fast Matlab compatible sparse assembly on multicore computers
Ingår i Parallel Computing, s. 1-17, 2016
-
Ingår i Veterinary research (Print), 2016
-
Fast event-based epidemiological simulations on national scales
Ingår i The international journal of high performance computing applications, s. 438-453, 2016
-
Ingår i Journal of the Royal Society Interface, 2015
- DOI för Stochastic focusing coupled with negative feedback enables robust regulation in biochemical reaction networks
- Ladda ner fulltext (pdf) av Stochastic focusing coupled with negative feedback enables robust regulation in biochemical reaction networks
-
Machine learning for ultrafast X-ray diffraction patterns on large-scale GPU clusters
Ingår i The international journal of high performance computing applications, s. 233-243, 2015
- DOI för Machine learning for ultrafast X-ray diffraction patterns on large-scale GPU clusters
- Ladda ner fulltext (pdf) av Machine learning for ultrafast X-ray diffraction patterns on large-scale GPU clusters
-
Strong convergence for split-step methods in stochastic jump kinetics
Ingår i SIAM Journal on Numerical Analysis, s. 2655-2676, 2015
- DOI för Strong convergence for split-step methods in stochastic jump kinetics
- Ladda ner fulltext (pdf) av Strong convergence for split-step methods in stochastic jump kinetics
-
Efficient inter-process synchronization for parallel discrete event simulation on multicores
Ingår i Proc. 3rd ACM SIGSIM Conference on Principles of Advanced Discrete Simulation, s. 183-194, 2015
-
X-ray laser imaging of biomolecules using multiple GPUs
Ingår i Parallel Processing and Applied Mathematics, s. 480-489, 2014
-
Dynamic autotuning of adaptive fast multipole methods on hybrid multicore CPU and GPU systems
Ingår i SIAM Journal on Scientific Computing, 2014
-
On the stability of stochastic jump kinetics
Ingår i Applied Mathematics, s. 3217-3239, 2014
-
On diffuse interface modeling and simulation of surfactants in two-phase fluid flow
Ingår i Communications in Computational Physics, s. 879-915, 2013
-
Adaptive fast multipole methods on the GPU
Ingår i Journal of Supercomputing, s. 897-918, 2013
-
Ingår i BMC Systems Biology, 2012
-
Adaptive fast multipole methods on the GPU
2012
-
On well-separated sets and fast multipole methods
Ingår i Applied Numerical Mathematics, s. 1096-1102, 2011
-
Analytical solutions for a single blade in vertical axis turbine motion in two dimensions
Ingår i European journal of mechanics. B, Fluids, s. 506-520, 2009
-
Galerkin spectral method applied to the chemical master equation
Ingår i Communications in Computational Physics, s. 871-896, 2009
-
Spectral approximation of solutions to the chemical master equation
Ingår i Journal of Computational and Applied Mathematics, s. 208-221, 2009
-
Parallel in time simulation of multiscale stochastic chemical kinetics
Ingår i Multiscale Modeling & simulation, s. 46-68, 2009
-
Simulation of stochastic reaction-diffusion processes on unstructured meshes
Ingår i SIAM Journal on Scientific Computing, s. 1774-1797, 2009
-
Numerical Solution Methods in Stochastic Chemical Kinetics
2008
-
Computing the moments of high dimensional solutions of the master equation
Ingår i Applied Mathematics and Computation, s. 498-515, 2006
-
Numerical methods for the chemical master equation
2006
Senaste publikationer
-
Bayesian Modeling of Polarizable Water: Lessons for Force Field Development
Ingår i Journal of Chemical Theory and Computation, s. 5435-5447, 2026
-
Bayesian three-point water models
Ingår i npj Computational Materials, 2025
- DOI för Bayesian three-point water models
- Ladda ner fulltext (pdf) av Bayesian three-point water models
-
Modelling Population-Level Hes1 Dynamics: Insights from a Multi-framework Approach
Ingår i Bulletin of Mathematical Biology, 2025
- DOI för Modelling Population-Level Hes1 Dynamics: Insights from a Multi-framework Approach
- Ladda ner fulltext (pdf) av Modelling Population-Level Hes1 Dynamics: Insights from a Multi-framework Approach
-
Modeling the hallmarks of avascular tumors
2025
-
Morphological Stability for in silico Models of Avascular Tumors
Ingår i Bulletin of Mathematical Biology, 2024
- DOI för Morphological Stability for in silico Models of Avascular Tumors
- Ladda ner fulltext (pdf) av Morphological Stability for in silico Models of Avascular Tumors
Alla publikationer
Artiklar i tidskrift
-
Bayesian Modeling of Polarizable Water: Lessons for Force Field Development
Ingår i Journal of Chemical Theory and Computation, s. 5435-5447, 2026
-
Bayesian three-point water models
Ingår i npj Computational Materials, 2025
- DOI för Bayesian three-point water models
- Ladda ner fulltext (pdf) av Bayesian three-point water models
-
Modelling Population-Level Hes1 Dynamics: Insights from a Multi-framework Approach
Ingår i Bulletin of Mathematical Biology, 2025
- DOI för Modelling Population-Level Hes1 Dynamics: Insights from a Multi-framework Approach
- Ladda ner fulltext (pdf) av Modelling Population-Level Hes1 Dynamics: Insights from a Multi-framework Approach
-
Morphological Stability for in silico Models of Avascular Tumors
Ingår i Bulletin of Mathematical Biology, 2024
- DOI för Morphological Stability for in silico Models of Avascular Tumors
- Ladda ner fulltext (pdf) av Morphological Stability for in silico Models of Avascular Tumors
-
Bayesian Monitoring of COVID-19 in Sweden
Ingår i Epidemics, 2023
- DOI för Bayesian Monitoring of COVID-19 in Sweden
- Ladda ner fulltext (pdf) av Bayesian Monitoring of COVID-19 in Sweden
-
Bayesian inference in epidemics: linear noise analysis
Ingår i Mathematical Biosciences and Engineering, s. 4128-4152, 2023
- DOI för Bayesian inference in epidemics: linear noise analysis
- Ladda ner fulltext (pdf) av Bayesian inference in epidemics: linear noise analysis
-
Ingår i Nature Communications, 2022
- DOI för App-based COVID-19 syndromic surveillance and prediction of hospital admissions in COVID Symptom Study Sweden
- Ladda ner fulltext (pdf) av App-based COVID-19 syndromic surveillance and prediction of hospital admissions in COVID Symptom Study Sweden
-
Distributed and Adaptive Fast Multipole Method in Three Dimensions
Ingår i Communications in Computational Physics, s. 959-984, 2021
-
Flash X-ray diffraction imaging in 3D: a proposed analysis pipeline
Ingår i Journal of the Optical Society of America A, s. 1673-1686, 2020
-
Bayesian epidemiological modeling over high-resolution network data
Ingår i Epidemics, 2020
- DOI för Bayesian epidemiological modeling over high-resolution network data
- Ladda ner fulltext (pdf) av Bayesian epidemiological modeling over high-resolution network data
-
Supervised classification methods for flash X-ray single particle diffraction imaging
Ingår i Optics Express, s. 3884-3899, 2019
-
SimInf: An R package for data-driven stochastic disease spread simulations
Ingår i Journal of Statistical Software, s. 1-42, 2019
-
Exposing inter-process information for efficient PDES of spatial stochastic systems on multicores
Ingår i ACM Transactions on Modeling and Computer Simulation, 2019
-
Stochastic simulation of pattern formation in growing tissue: A multilevel approach
Ingår i Bulletin of Mathematical Biology, s. 3010-3023, 2019
-
Temporal upscaling in micromagnetism via heterogeneous multiscale methods
Ingår i Journal of Computational and Applied Mathematics, s. 99-113, 2019
-
Assessing uncertainties in x-ray single-particle three-dimensional reconstruction
Ingår i Physical Review E. Statistical, Nonlinear, and Soft Matter Physics, 2018
-
A general high order two-dimensional panel method
Ingår i Applied Mathematical Modelling, s. 1-17, 2018
-
Ingår i Royal Society Open Science, 2018
-
Multiscale modelling via split-step methods in neural firing
Ingår i Mathematical and Computer Modelling of Dynamical Systems, s. 426-445, 2018
-
Mesoscopic modeling of random walk and reactions in crowded media
Ingår i Physical Review E. Statistical, Nonlinear, and Soft Matter Physics, 2018
-
Pathwise error bounds in multiscale variable splitting methods for spatial stochastic kinetics
Ingår i SIAM Journal on Numerical Analysis, s. 469-498, 2018
-
Ingår i Veterinary research (Print), 2018
-
Vascular sprouts induce local attraction of proangiogenic neutrophils
Ingår i Journal of Leukocyte Biology, s. 741-751, 2017
-
Analysis and design of jump coefficients in discrete stochastic diffusion models
Ingår i SIAM Journal on Scientific Computing, 2016
- DOI för Analysis and design of jump coefficients in discrete stochastic diffusion models
- Ladda ner fulltext (pdf) av Analysis and design of jump coefficients in discrete stochastic diffusion models
-
Mesoscopic modeling of stochastic reaction–diffusion kinetics in the subdiffusive regime
Ingår i Multiscale Modeling & simulation, s. 668-707, 2016
-
Fast Matlab compatible sparse assembly on multicore computers
Ingår i Parallel Computing, s. 1-17, 2016
-
Ingår i Veterinary research (Print), 2016
-
Fast event-based epidemiological simulations on national scales
Ingår i The international journal of high performance computing applications, s. 438-453, 2016
-
Ingår i Journal of the Royal Society Interface, 2015
- DOI för Stochastic focusing coupled with negative feedback enables robust regulation in biochemical reaction networks
- Ladda ner fulltext (pdf) av Stochastic focusing coupled with negative feedback enables robust regulation in biochemical reaction networks
-
Machine learning for ultrafast X-ray diffraction patterns on large-scale GPU clusters
Ingår i The international journal of high performance computing applications, s. 233-243, 2015
- DOI för Machine learning for ultrafast X-ray diffraction patterns on large-scale GPU clusters
- Ladda ner fulltext (pdf) av Machine learning for ultrafast X-ray diffraction patterns on large-scale GPU clusters
-
Strong convergence for split-step methods in stochastic jump kinetics
Ingår i SIAM Journal on Numerical Analysis, s. 2655-2676, 2015
- DOI för Strong convergence for split-step methods in stochastic jump kinetics
- Ladda ner fulltext (pdf) av Strong convergence for split-step methods in stochastic jump kinetics
-
Approximations for the moments of nonstationary and state dependent birth–death queues
Ingår i Computing Research Repository, 2014
-
Dynamic autotuning of adaptive fast multipole methods on hybrid multicore CPU and GPU systems
Ingår i SIAM Journal on Scientific Computing, 2014
-
On the stability of stochastic jump kinetics
Ingår i Applied Mathematics, s. 3217-3239, 2014
-
On diffuse interface modeling and simulation of surfactants in two-phase fluid flow
Ingår i Communications in Computational Physics, s. 879-915, 2013
-
Adaptive fast multipole methods on the GPU
Ingår i Journal of Supercomputing, s. 897-918, 2013
-
Ingår i BMC Systems Biology, 2012
-
On well-separated sets and fast multipole methods
Ingår i Applied Numerical Mathematics, s. 1096-1102, 2011
-
Analytical solutions for a single blade in vertical axis turbine motion in two dimensions
Ingår i European journal of mechanics. B, Fluids, s. 506-520, 2009
-
Galerkin spectral method applied to the chemical master equation
Ingår i Communications in Computational Physics, s. 871-896, 2009
-
Spectral approximation of solutions to the chemical master equation
Ingår i Journal of Computational and Applied Mathematics, s. 208-221, 2009
-
Parallel in time simulation of multiscale stochastic chemical kinetics
Ingår i Multiscale Modeling & simulation, s. 46-68, 2009
-
Simulation of stochastic reaction-diffusion processes on unstructured meshes
Ingår i SIAM Journal on Scientific Computing, s. 1774-1797, 2009
-
Computing the moments of high dimensional solutions of the master equation
Ingår i Applied Mathematics and Computation, s. 498-515, 2006
Doktorsavhandlingar, sammanläggning
Kapitel i böcker, delar av antologi
-
Multiscale simulation of stochastic reaction–diffusion networks
Ingår i Stochastic Processes, Multiscale Modeling, and Numerical Methods for Computational Cellular Biology, s. 55-79, Springer, 2017
-
Stability and strong convergence for spatial stochastic kinetics
Ingår i Stochastic Processes, Multiscale Modeling, and Numerical Methods for Computational Cellular Biology, s. 109-125, Springer, 2017
-
Data-driven computational disease spread modeling: from measurement to parametrization and control
Ingår i Disease Modelling and Public Health, s. 305-328, Elsevier, 2017
Konferensbidrag
-
Robust and integrative Bayesian neural networks for likelihood-free parameter inference
Ingår i 2022 International Joint Conference on Neural Networks (IJCNN), s. 1-10, 2022
-
Towards Confident Bayesian Parameter Estimation in Stochastic Chemical Kinetics
Ingår i Numerical Mathematics and Advanced Applications ENUMATH 2019, s. 373-380, 2021
-
Initialization of a Disease Transmission Model
Ingår i IFAC PapersOnline, s. 839-844, 2020
- DOI för Initialization of a Disease Transmission Model
- Ladda ner fulltext (pdf) av Initialization of a Disease Transmission Model
-
SimInf for spatio-temporal data-driven modeling of African swine fever in Swedish wildboar
Ingår i GeoVet 2019, 2019
-
Fine-grained local dynamic load balancing in PDES
Ingår i Proc. 6th ACM SIGSIM Conference on Principles of Advanced Discrete Simulation, s. 201-212, 2018
-
Towards Bayesian parametrization of national scale epidemics
Ingår i MATHMOD 2018 Extended Abstracts, s. 65-66, 2018
-
Ingår i Proc. 5th ACM SIGSIM Conference on Principles of Advanced Discrete Simulation, s. 53-64, 2017
-
Multiscale stochastic neuron modeling – with applications in deep brain stimulation
Ingår i Proc. Summer Simulation Multiconference, 2017
-
Preconditioned Metropolis sampling as a strategy to improve efficiency in posterior exploration
s. 89-94, 2016
-
Ingår i Proc. 7th ECCOMAS Congress, s. 7302-7316, 2016
-
Sensitivity estimation and inverse problems in spatial stochastic models of chemical kinetics
Ingår i Numerical Mathematics and Advanced Applications, s. 519-527, 2015
-
Efficient inter-process synchronization for parallel discrete event simulation on multicores
Ingår i Proc. 3rd ACM SIGSIM Conference on Principles of Advanced Discrete Simulation, s. 183-194, 2015
-
X-ray laser imaging of biomolecules using multiple GPUs
Ingår i Parallel Processing and Applied Mathematics, s. 480-489, 2014
-
The well-posedness of diffuse interface modeling of surfactants in two-phase fluid flow
Ingår i Wetting and Evaporation, s. 80-81, 2013
-
Stable and accurate wave simulations in complex geometries and discontinuous media
Ingår i Proc. 11th International Conference on Mathematical and Numerical Aspects of Waves, s. 201-202, 2013
-
Time-parallel simulation of stochastic chemical kinetics
Ingår i Numerical Analysis and Applied Mathematics, s. 174-177, 2008
Licentiatavhandlingar, sammanläggning
Manuskript (preprint)
Proceedings (redaktörskap)
Rapporter
-
Adaptive fast multipole methods on the GPU
2012
-
On the stability of stochastic jump kinetics
2012
-
Simulation of stochastic reaction-diffusion processes on unstructured meshes
2008
-
Parallel in time simulation of multiscale stochastic chemical kinetics
2008
-
A discrete spectral method for the chemical master equation
2008
-
Gaussian quadratures with respect to discrete measures
2006
-
Computing the moments of high dimensional solutions of the master equation
2005