Mats Jirstrand

Showing 94 publications

2024

Effects on district heating networks by introducing demand side economic model predictive control

Henrik Håkansson, Magnus Önnheim, Emil Gustavsson et al
Energy and Buildings. Vol. 309
Journal article
2024

Analyzing the distribution of progression-free survival for combination therapies: A study of model-based translational predictive methods in oncology

Marcus Baaz, Tim Cardilin, Mats Jirstrand
European Journal of Pharmaceutical Sciences. Vol. 203
Journal article
2024

Probabilistic analysis of tumor growth inhibition models to Support trial design

Marcus Baaz, Tim Cardilin, Torbjörn Lundh et al
Journal of Theoretical Biology. Vol. 595
Journal article
2023

Utilization of convolutional neural networks for HI source finding: Team FORSKA-Sweden approach to SKA Data Challenge 2

Henrik Håkansson, Anders Sjöberg, Maria Carmen Toribio Perez et al
Astronomy and Astrophysics. Vol. 671
Journal article
2023

Data-driven analysis and prediction of dynamic postprandial metabolic response to multiple dietary challenges using dynamic mode decomposition

Viktor Skantze, Mats Jirstrand, Carl Brunius et al
Frontiers in Nutrition. Vol. 10
Journal article
2023

Identification of metabotypes in complex biological data using tensor decomposition

Viktor Skantze, Mikael Wallman, Ann-Sofie Sandberg et al
Chemometrics and Intelligent Laboratory Systems. Vol. 233
Journal article
2023

Online geometry assurance in individualized production by feedback control and model calibration of digital twins

Anders Sjöberg, Magnus Önnheim, Otto Frost et al
Journal of Manufacturing Systems. Vol. 66, p. 71-81
Journal article
2023

Model-based assessment of combination therapies - ranking of radiosensitizing agents in oncology

Marcus Baaz, Tim Cardilin, Floriane Lignet et al
BMC Cancer. Vol. 23 (1), p. 409-
Journal article
2023

SKA Science Data Challenge 2: analysis and results

Philippa Hartley, A. Bonaldi, Robert Braun et al
Monthly Notices of the Royal Astronomical Society. Vol. 523 (2), p. 1967-1993
Journal article
2023

Model-based prediction of progression-free survival for combination therapies in oncology

Marcus Baaz, Tim Cardilin, Mats Jirstrand
CPT: Pharmacometrics and Systems Pharmacology. Vol. 12 (9), p. 1227-1237
Journal article
2023

Model-based Prediction of Progression-Free Survival for Combination Therapies in Oncology

Marcus Baaz, Tim Cardilin, Mats Jirstrand
Conference poster
2022

A Model Based Approach for Translation in Oncology - From Xenografts to RECIST

Marcus Baaz, Tim Cardilin, Floriane Lignet et al
Conference poster
2022

Identifying metabotypes from tensor data

Viktor Skantze, Mikael Wallman, Ann-Sofie Sandberg et al
Conference poster
2022

Population Modeling of Toxicological Combination Effects

Marcus Baaz, Tim Cardilin, Mats Jirstrand et al
Conference poster
2022

Optimized scaling of translational factors in oncology: from xenografts to RECIST

Marcus Baaz, Tim Cardilin, Floriane Lignet et al
Cancer Chemotherapy and Pharmacology. Vol. 90 (3), p. 239-250
Journal article
2022

A stochastic mixed effects model to assess treatment effects and fluctuations in home-measured peak expiratory flow and the association with exacerbation risk in asthma

Jacob Leander, Mats Jirstrand, Ulf Eriksson et al
CPT: Pharmacometrics and Systems Pharmacology. Vol. 11 (2), p. 212-224
Journal article
2022

Optimizing study design in LPS challenge studies for quantifying drug induced inhibition of TNFα response: Did we miss the prime time?

Julia Larsson, Edmund Hoppe, Michael Gautrois et al
European Journal of Pharmaceutical Sciences. Vol. 176
Journal article
2022

Exposure-response modeling improves selection of radiation and radiosensitizer combinations

Tim Cardilin, Joachim Almquist, Mats Jirstrand et al
Journal of Pharmacokinetics and Pharmacodynamics. Vol. 49 (2), p. 167-178
Journal article
2021

Identifying metabotypes from complex biological data using PARAFAC

Viktor Skantze, Mikael Wallman, Ann-Sofie Sandberg et al
Current Developments in Nutrition, Volume 5. Vol. 5 (2), p. 882-
Other conference contribution
2021

Second-generation TNFα turnover model for improved analysis of test compound interventions in LPS challenge studies

Julia Larsson, Edmund Hoppe, Michael Gautrois et al
European Journal of Pharmaceutical Sciences. Vol. 165
Journal article
2021

Natural language processing methods for knowledge management - Applying document clustering for fast search and grouping of engineering documents

Ívar Örn Arnarsson, Otto Frost, Emil Gustavsson et al
Concurrent Engineering Research and Applications. Vol. 29 (2), p. 142-152
Journal article
2021

An Integrative Approach for Improved Assessment of Cardiovascular Safety Data

Mikael Wallman, Stefan Scheuerer, Eric Martel et al
Journal of Pharmacology and Experimental Therapeutics. Vol. 377 (2), p. 218-231
Journal article
2021

Optimization of additive chemotherapy combinations for an in vitro cell cycle model with constant drug exposures

Tim Cardilin, Torbjörn Lundh, Mats Jirstrand
Mathematical Biosciences. Vol. 338
Journal article
2021

Nonlinear Mixed Effects Modeling of Deterministic and Stochastic Dynamical Systems in Wolfram Mathematica

Jacob Leander, Joachim Almquist, Anna Johnning et al
IFAC-PapersOnLine. Vol. 54 (7), p. 409-414
Paper in proceeding
2020

Modeling industrial engineering change processes using the design structure matrix for sequence analysis: a comparison of multiple projects

Ívar Örn Arnarsson, Emil Gustavsson, Mats Jirstrand et al
Design Science. Vol. 6
Journal article
2020

S-RASTER: contraction clustering for evolving data streams

Gregor Ulm, Simon Smith, Adrian Nilsson et al
Journal of Big Data. Vol. 7 (1)
Journal article
2020

NLMEModeling: A Wolfram Mathematica Package for Nonlinear Mixed Effects Modeling of Dynamical Systems

Jacob Leander, Joachim Almquist, Anna Johnning et al
Preprint
2019

Parameter Estimation for Nonlinear Mixed Effects Models Implemented in Mathematica

Jacob Leander, Joachim Almquist, Helga Kristín Ólafsdóttir et al
Conference poster
2019

Challenge model of TNFα turnover at varying LPS and drug provocations

Felix Held, Edmund Hoppe, Marija Cvijovic et al
Journal of Pharmacokinetics and Pharmacodynamics. Vol. 46 (3), p. 223-240
Journal article
2019

On Chow-Liu Forest Based Regularization of Deep Belief Networks

Alex Sarishvili, Andreas Wirsen, Mats Jirstrand
Lecture Notes in Computer Science. Vol. 11731, p. 353-364
Paper in proceeding
2019

Dose-Response-Time Data Analysis: An Underexploited Trinity

Johan Gabrielsson, Robert Andersson, Mats Jirstrand et al
Pharmacological Reviews. Vol. 71 (1), p. 89-122
Review article
2019

Reinforcement Learning Informed by Optimal Control

Magnus Önnheim, Pontus Andersson, Emil Gustavsson et al
Lecture Notes in Computer Science. Vol. 11731, p. 403-407
Paper in proceeding
2019

Supporting Knowledge Re-Use with Effective Searches of Related Engineering Documents - A Comparison of Search Engine and Natural Language-Based Processing Algorithms

Ívar Örn Arnarsson, Otto Frost, Emil Gustavsson et al
Proceedings of the International Conference on Engineering Design, ICED. Vol. 2019-August, p. 2597-2606
Paper in proceeding
2019

Modeling long-term tumor growth and kill after combinations of radiation and radiosensitizing agents

Tim Cardilin, Joachim Almquist, Mats Jirstrand et al
Cancer Chemotherapy and Pharmacology. Vol. 83 (6), p. 1159-1173
Journal article
2019

Federated Learning of Deep Neural Decision Forests

Anders Sjöberg, Emil Gustavsson, Ashok Krishna Chaitanya Koppisetty et al
Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics). Vol. 11943, p. 700-710
Paper in proceeding
2019

Architecture-Aware Bayesian Optimization for Neural Network Tuning

Anders Sjöberg, Magnus Önnheim, Emil Gustavsson et al
Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics). Vol. 11728, p. 220-231
Paper in proceeding
2019

Modelling of oscillatory cortisol response in horses using a Bayesian population approach for evaluation of dexamethasone suppression test protocols

Felix Held, Carl Ekstrand, Marija Cvijovic et al
Journal of Pharmacokinetics and Pharmacodynamics. Vol. 46 (1), p. 75-87
Journal article
2019

The tumor static exposure (TSE) concept & utility: Application to combination treatment of radiation and radiosensitizing agent in tumor xenograft experiments

S. El Bawab, Tim Cardilin, Mats Jirstrand et al
Annals of Oncology. Vol. 30 (5 suppl.)
Paper in proceeding
2018

Modeling of radiation therapy and radiosensitizing agents in tumor xenografts

Tim Cardilin, Joachim Almquist, Mats Jirstrand et al
Conference poster
2018

Extending existing structural identifiability analysis methods to mixed-effects models

David Janzén, Mats Jirstrand, Michael Chappell et al
Mathematical Biosciences. Vol. 295, p. 1-10
Journal article
2018

A Performance Evaluation of Federated Learning Algorithms

Adrian Nilsson, Simon Smith, Gregor Ulm et al
DIDL'18: PROCEEDINGS OF THE SECOND WORKSHOP ON DISTRIBUTED INFRASTRUCTURES FOR DEEP LEARNING. Vol. December 2018, p. 1-8
Paper in proceeding
2018

Model-based evaluation of radiation and radiosensitizing agents in oncology

Tim Cardilin, Joachim Almquist, Mats Jirstrand et al
CPT: Pharmacometrics and Systems Pharmacology. Vol. 7 (1), p. 51-58
Journal article
2018

Bayesian hierarchical model of oscillatory cortisol response during drug intervention

Felix Held, Carl Ekstrand, Edmund Hoppe et al
Conference poster
2018

Evaluation and translation of combination therapies in oncology – A quantitative approach

Tim Cardilin, Joachim Almquist, Mats Jirstrand et al
European Journal of Pharmacology. Vol. 834, p. 327-336
Journal article
2018

Analysis of Engineering Change Requests Using Markov Chains

Emil Gustavsson, Ívar Örn Arnarsson, Johan Malmqvist et al
Proceedings of International Design Conference, DESIGN. Vol. 2, p. 523 -532
Paper in proceeding
2018

Exact Gradients Improve Parameter Estimation in Nonlinear Mixed Effects Models with Stochastic Dynamics

Helga Kristín Ólafsdóttir, Jacob Leander, Joachim Almquist et al
AAPS Journal. Vol. 20 (5)
Journal article
2018

Reinforcement learning in real-time geometry assurance

Emilio Jorge, Lucas Brynte, Constantin Cronrath et al
Procedia CIRP. Vol. 72, p. 1073-1078
Paper in proceeding
2017

Modeling of free fatty acid dynamics: insulin and nicotinic acid resistance under acute and chronic treatments

R. Andersson, T. Kroon, Joachim Almquist et al
Journal of Pharmacokinetics and Pharmacodynamics. Vol. 44 (3), p. 203-222
Journal article
2017

Assessment of cardiotoxic effects from ion channel assay data

Mikael Wallman, Ingemar Jacobson, Mats Jirstrand
Proceedings of Advances in Cell Based Screening 2017
Conference poster
2017

Functional Federated Learning in Erlang

Gregor Ulm, Emil Gustavsson, Mats Jirstrand
Proceedings of the 5th Swedish Workshop on Data Science (SweDS 2017)
Conference poster
2017

Purely Functional Federated Learning in Erlang

Gregor Ulm, Emil Gustavsson, Mats Jirstrand
Proceedings of the 29th Symposium on Implementation and Application of Functional Languages (IFL 2017), p. 160-167
Paper in proceeding
2017

Design Analytics is the Answer, But What Questions Would Product Developers Like to Have Answered?

Ívar Örn Arnarsson, Emil Gustavsson, Johan Malmqvist et al
Proceedings of the International Conference on Engineering Design, ICED. Vol. 7 (DS87-7), p. 71-80
Paper in proceeding
2017

Exact Gradients Improve Parameter Estimation in Nonlinear Mixed Effects Models with Stochastic Dynamics

Helga Kristin Olafsdottir, Jacob Leander, Joachim Almquist et al
Conference poster
2017

Tumor Static Concentration Curves in Combination Therapy

Tim Cardilin, Joachim E Almqvist, Mats Jirstrand et al
AAPS Journal. Vol. 19 (2), p. 456-467
Journal article
2016

Towards Big-Data Analysis of Deviation and Error Reports in Product Development Projects

Ívar Örn Arnarsson, Johan Malmqvist, Emil Gustavsson et al
Proceedings of NordDesign 2016, Trondheim, Norway. Vol. 2, p. 83-92
Paper in proceeding
2016

Dose-response-time modelling: Second-generation turnover model with integral feedback control

R. Andersson, Mats Jirstrand, L. Peletier et al
European Journal of Pharmaceutical Sciences. Vol. 81, p. 189-200
Journal article
2016

Extending the Tumor Static Concentration curve to average doses - a combination therapy example using radiation therapy

Tim Cardilin, Astrid Zimmermann, Mats Jirstrand et al
Proceedings of the 25th Annual meeting of the Population Approach Group in Europe, PAGE2016
Conference poster
2015

Two approaches to study structural identifiability analysis in mixed-effects models

David Janzén, Mats Jirstrand, Michael J. Chappell et al
Proceedings of Pharmacokinetics UK (PKUK) 2015, p. 38-
Conference poster
2015

Using sensitivity equations for computing gradients of the FOCE and FOCEI approximations to the population likelihood

Joachim Almquist, Jacob Leander, Mats Jirstrand
Journal of Pharmacokinetics and Pharmacodynamics. Vol. 42 (3), p. 191-209
Journal article
2015

Structural Identifiability in Mixed-Effects Models: Two different approaches

David Janzén, Mats Jirstrand, Neil D. Evans et al
IFAC-PapersOnLine. Vol. 48 (20), p. 563-568
Paper in proceeding
2015

Mixed Effects Modeling Using Stochastic Differential Equations: Illustrated by Pharmacokinetic Data of Nicotinic Acid in Obese Zucker Rats

Jacob Leander, Joachim Almquist, Christine Ahlström et al
AAPS Journal. Vol. 17 (3), p. 586-596
Journal article
2015

Bile canalicular dynamics in hepatocyte sandwich cultures

Raymond Reif, Johan Karlsson, Georgia Günther et al
Archives of Toxicology. Vol. 89 (10), p. 1861-1870
Journal article
2015

Dose-response-time modelling - Second generation turnover model with integral feedback control

Robert Andersson, Mats Jirstrand, Lambertus A. Peletier et al
Proceedings of the 24th Annual meeting of the Population Approach Group in Europe, PAGE2015
Conference poster
2015

Modelling and Analysis of Tumor Growth Inhibition for Combination Therapy using Tumor Static Concentration Curves

Tim Cardilin, Alexandre Sostelly, Johan Gabrielsson et al
Proceedings of the 24th Annual meeting of the Population Approach Group in Europe, PAGE2015
Conference poster
2015

A nonlinear mixed effects approach for modeling the cell-to-cell variability of Mig1 dynamics in yeast.

Joachim Almquist, Loubna Bendrioua, Caroline B. Adiels et al
PLoS ONE. Vol. 10 (4), p. e0124050-
Journal article
2014

Joint feedback analysis modeling of nonesterified fatty acids in obese zucker rats and normal sprague-dawley rats after different routes of administration of nicotinic acid

Sofia Tapani, Joachim Almquist, Jacob Leander et al
Journal of Pharmaceutical Sciences. Vol. 103 (8), p. 2571-2584
Journal article
2014

Dose-Response-Time Modelling, Input Estimation and Structural Identiability as tools for Systems Pharmacology

Magnus Trägårdh, David Janzén, Robert Andersson et al
In proceedings of the 7th Noordwijkerhout Symposium on Pharmacokinetics, Pharmacodynamics and Systems Pharmacology
Conference poster
2014

Yeast AMP-activated protein kinase monitors glucose concentration changes and absolute glucose levels

Loubna Bendrioua, Maria Smedh, Joachim Almquist et al
Journal of Biological Chemistry. Vol. 289 (18), p. 12863-12875
Journal article
2014

Mixed-effects modeling using stochastic differential equations - Applications to pharmacokinetic modeling

Jacob Leander, Joachim Almquist, Christine Ahlström et al
Population Approach Group Europe (PAGE) 2014
Conference poster
2014

Bridging the gaps in systems biology

Marija Cvijovic, Joachim Almquist, Jonas Hagmar et al
Molecular Genetics and Genomics. Vol. 289 (5), p. 727-734
Review article
2014

Structural Identifiability Analysis of Large Models of Dynamical Systems

Johan Karlsson, Milena Anguelova, Mats Jirstrand
In proceedings of PKUK 2014, p. 6-6
Paper in proceeding
2014

Stochastic differential equations as a tool to regularize the parameter estimation problem for continuous time dynamical systems given discrete time measurements

Jacob Leander, Torbjörn Lundh, Mats Jirstrand
Mathematical Biosciences. Vol. 251 (1), p. 54-62
Journal article
2014

Input estimation in nonlinear dynamical systems for model – based drug discovery using optimal control techniques

Magnus Trägårdh, Michael Chappell, Niel Evans et al
In proceedings of PKUK 2014
Conference poster
2014

Comparison of approaches for parameter identifiability analysis of biological systems.

Andreas Raue, Johan Karlsson, Maria Pia Saccomani et al
Bioinformatics. Vol. 30 (10), p. 1440-8
Journal article
2014

Structural Identifiability in mixed-effects models

David Janzén, James Yates, Mats Jirstrand et al
In proceedings of PKUK 2014
Conference poster
2014

A Mechanistic Lung-Disposition Model for Real-time Simulation of Pharmacokinetics and Pharmacodynamics for Pulmonary Drug Delivery

Elin Boger, Markus Fridén, Ulf Eriksson et al
In proceedings of the 7th Noordwijkerhout Symposium on Pharmacokinetics, Pharmacodynamics and Systems Pharmacology
Conference poster
2014

Kinetic models in industrial biotechnology - Improving cell factory performance

Joachim Almquist, Marija Cvijovic, V. Hatzimanikatis et al
Metabolic Engineering. Vol. 24, p. 38-60
Review article
2014

Dose-response-time data analysis of nicotinic acid-induced changes in non-esterified fatty acids in rats

Robert Andersson, Mats Jirstrand, Johan Gabrielsson
In proceedings of PKUK 2014
Conference poster
2013

A continuous-time adaptive particle filter for estimations under measurement time uncertainties with an application to a plasma-leucine mixed effects model.

Annette Krengel, Jan Hauth, Marja-Riitta Taskinen et al
BMC Systems Biology. Vol. 7 (8), p. 33 sidor-
Journal article
2013

Toward Quantifying the Thymic Dysfunctional State in Mouse Models of Inflammatory Bowel Disease

A. Jansson, A. K. Pernestig, P. Nilsson et al
Inflammatory Bowel Diseases. Vol. 19 (4), p. 881-888
Journal article
2012

Minimal output sets for identifiability

Milena Anguelova, Johan Karlsson, Mats Jirstrand
Mathematical Biosciences
Journal article
2012

Optimal posterior density approximation for bearings-only tracking

M. Morelande, Lennart Svensson, J. Hagmar et al
ICASSP, IEEE International Conference on Acoustics, Speech and Signal Processing - Proceedings, p. 3585-3588
Paper in proceeding
2012

Investigations of a compartmental model for leucine kinetics using non-linear mixed effects models with ordinary and stochastic differential equations.

Martin Berglund, Mikael Sunnåker, Martin Adiels et al
Mathematical Medicine and Biology. Vol. 29 (4), p. 361-384
Journal article
2012

An Efficient Method for Structural Identiability Analysis of Large Dynamic Systems

Milena Anguelova, Mats Jirstrand, Johan Karlsson
16th IFAC Symposium on System Identification. Vol. 16 (1), p. 941-946
Paper in proceeding
2012

Heterogeneous kinetics of AKT signaling in individual cells are accounted for by variable protein concentration

René Meyer, Lorenza A. D'Alessandro, Sandip Kar et al
Frontiers in Physiology. Vol. 3 (451)
Journal article
2011

A Method for Zooming of Nonlinear Models of Biochemical Systems

Mikael Sunnåker, Gunnar Cedersund, Mats Jirstrand
BMC Systems Biology. Vol. 5
Journal article
2011

Optimal parameterization of posterior densities using homotopy

Jonas Hagmar, Lennart Svensson, Mark Morelande et al
14th International Conference on Information Fusion, Fusion 2011; Chicago, IL; 5 July 2011 through 8 July 2011
Paper in proceeding
2010

A Kinetic Model of the Monocarboxylate Transporter MCT1 and its Interaction with Carbonic Anhydrase II

Joachim E Almqvist, Patrick Lang, Dieter Prätzel-Wolters et al
Journal of Computer Science and Systems Biology. Vol. 3 (5), p. 107-116
Journal article
2010

Zooming of states and parameters using a lumping approach including back-translation

Mikael Sunnåker, Henning Schmidt, Mats Jirstrand et al
BMC Systems Biology. Vol. 4 (28)
Journal article
2010

Biochemical Modeling with Systems Biology Graphical Notation

Mats Jirstrand, Andreas Jansson
Drug Discovery Today. Vol. 15 (9-10), p. 365-370
Journal article
2010

Modeling the Effect of Kv1.5 Block on the Canine Action Potential

Joachim E Almqvist, Mikael Wallman, Ingemar Jacobson et al
Biophysical Journal. Vol. 99 (9), p. 2726-2736
Journal article

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