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Mathematical Modelling of MASLD ‐ Towards Digital Twins in Liver Disease
Linköping University, Department of Biomedical Engineering, Division of Biomedical Engineering. Linköping University, Faculty of Science & Engineering.
2024 (English)Doctoral thesis, comprehensive summary (Other academic)
Abstract [en]

Unhealthy dieting and a sedentary lifestyle are causing an increased prevalence of obesity related complications. One such complication is metabolic dysfunction-associated steatotic liver disease (MASLD) the manifestation of metabolic dysregulation and insulin resistance in the liver. Today, MASLD effect a third of the world’s population. One of the main characteristics of MASLD is accumulation of ectopic lipids in the liver, also denoted steatosis. Steatosis is not inherently dangerous but is an indication of metabolic dysregulation, and long-term MASLD can progress into severe conditions such as chronic hepatic inflammation denoted metabolic dysfunction-associated steatohepatitis (MASH), liver scarring (cirrhosis), and primary liver cancer (hepatocellular carcinoma, HCC). Moreover, these conditions can be further aggravated by alcohol consumption. The increase in potential patients with MASLD will have an enormous burden on future healthcare. Thus, future healthcare has a need for innovative solutions to lessen this burden. Such solutions should be capable of personalized and preventive measures, cost-effective high throughput screening methods, and frameworks integrating all available patient data, for all stages of MASLD. Today, some of these methodologies already exist, however there is still a need for ways to integrate different liver biomarkers into a user-friendly framework, with strong personalization and predictive capabilities. For this purpose, data-driven mathematical modelling is of use. Data-driven mathematical models has proven useful for such integration in other disease areas such as stroke. In this thesis, I have created and explored several mathematical models aimed at exploring different aspects of MASLD, as well as developed several models using data from example: our own collected magnetic resonance imaging (MRI) data from patients suffering from chronic liver disease or HCC, and pre-clinical mouse data of insulin resistance progression. The studies presented in this thesis investigate diet-driven insulin resistance development, steatosis development and screening, as well as lifestyle interventions for alcohol and dietary habits, and liver function evaluation at late-stage liver disease. Thus, this thesis presents a possible fundament to create a so-called digital twin of MASLD – a highly personalized model capable of making predictions based on lifestyle. 

Place, publisher, year, edition, pages
Linköping: Linköping University Electronic Press, 2024. , p. 100
Series
Linköping Studies in Science and Technology. Dissertations, ISSN 0345-7524 ; 2399
National Category
Clinical Medicine
Identifiers
URN: urn:nbn:se:liu:diva-205932DOI: 10.3384/9789180757348ISBN: 9789180757331 (print)ISBN: 9789180757348 (electronic)OAI: oai:DiVA.org:liu-205932DiVA, id: diva2:1883937
Public defence
2024-09-09, Belladonna, building 511, Campus US, Linköping, 08:30 (English)
Opponent
Supervisors
Available from: 2024-07-12 Created: 2024-07-12 Last updated: 2024-08-19Bibliographically approved
List of papers
1. Digital twin predicting diet response before and after long-term fasting
Open this publication in new window or tab >>Digital twin predicting diet response before and after long-term fasting
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2022 (English)In: PloS Computational Biology, ISSN 1553-734X, E-ISSN 1553-7358, Vol. 18, no 9, article id e1010469Article in journal (Refereed) Published
Abstract [en]

Today, there is great interest in diets proposing new combinations of macronutrient compositions and fasting schedules. Unfortunately, there is little consensus regarding the impact of these different diets, since available studies measure different sets of variables in different populations, thus only providing partial, non-connected insights. We lack an approach for integrating all such partial insights into a useful and interconnected big picture. Herein, we present such an integrating tool. The tool uses a novel mathematical model that describes mechanisms regulating diet response and fasting metabolic fluxes, both for organ-organ crosstalk, and inside the liver. The tool can mechanistically explain and integrate data from several clinical studies, and correctly predict new independent data, including data from a new study. Using this model, we can predict non-measured variables, e.g. hepatic glycogen and gluconeogenesis, in response to fasting and different diets. Furthermore, we exemplify how such metabolic responses can be successfully adapted to a specific individuals sex, weight, height, as well as to the individuals historical data on metabolite dynamics. This tool enables an offline digital twin technology.

Place, publisher, year, edition, pages
Public Library of Science, 2022
National Category
Bioinformatics and Computational Biology
Identifiers
urn:nbn:se:liu:diva-190824 (URN)10.1371/journal.pcbi.1010469 (DOI)000892372100004 ()36094958 (PubMedID)
Note

Funding Agencies|Swedish Research Council [2018-05418, 2018-03319, 2020-04826, 2014-6157]; CENIIT [15.09]; Swedish Foundation for Strategic Research [ITM17-0245]; SciLifeLab National COVID-19 Research Programme - Knut and Alice Wallenberg Foundation [2020.0182]; Swedish Fund for Research without Animal Experiments [F2019-0010]; ELLIIT [2020A12]; VINNOVA [2020-04711]; Swedish Fund for Research without Animal Experiments; Swedish Research Council; H2020 project PRECISE4Q [777107]

Available from: 2023-01-04 Created: 2023-01-04 Last updated: 2025-02-07
2. A multi-scale in silico mouse model for diet-induced insulin resistance
Open this publication in new window or tab >>A multi-scale in silico mouse model for diet-induced insulin resistance
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2023 (English)In: Biochemical engineering journal, ISSN 1369-703X, E-ISSN 1873-295X, Vol. 191, article id 108798Article in journal (Refereed) Published
Abstract [en]

Insulin resistance causes compensatory insulin production, which in humans can eventually progress to beta-cell failure and type 2 diabetes (T2D). This disease progression involves multi-scale processes, ranging from intracellular signaling to organ and whole-body level regulations, on timescales from minutes to years. T2D progression is commonly studied using overfed and genetically modified rodents. Available multi-scale data from rodents is too complex to fully comprehend using traditional analysis, not based on mathematical modelling. To help resolve these issues, we here present an in silico mouse model, featuring 38 ordinary differential equations and 78 parameters. This is the first mathematical model that simultaneously explains (chi-square cost=28.1 <51 =cut-off, p = 0.05) multi-scale mouse insulin resistance data on all three levels - cells, organs, body - ranging from minutes to months. The model predicts new independent multi-scale simulations, on e.g., weight and meal response changes, which are corroborated by our own new experimental data. The thus validated model provides insights and non-trivial predictions regarding complex non-measured processes, such as the relation between insulin resistance and insulin-dependent glucose uptake for adipose tissue. Finally, we add a beta-cell failure module to the in silico mouse model to simulate different human-like scenarios of progression towards T2D. In summary, our in silico mouse model is an extendable and interactive knowledge-base for the study of T2D, which could help simulate treatment scenarios in rodents and translate results to the human situation.

Place, publisher, year, edition, pages
ELSEVIER, 2023
Keywords
Systems biology; Mechanistic and multi -level modelling; Insulin resistance; Type 2 diabetes
National Category
Water Engineering
Identifiers
urn:nbn:se:liu:diva-194203 (URN)10.1016/j.bej.2022.108798 (DOI)000975942900001 ()
Note

Funding Agencies|Novo Nordisk [NNF20OC0063659]; Swedish Research Council [IDs: 2018-05418, 2018-03319, 2019-03767]; Swedish Diabetes foundation, Albert P?hlsson foundation; Crafoord founda-tion; Center for Industrial Information Technology (CENIIT) [15.09, 20.08]; Swedish foundation for strategic research [ITM17-0245]; SciLifeLab; Knut and Alice Wallenberg foundation (KAW) [2020.0182]; ELLIIT [PRE-CISE4Q (777107)]; VINNOVA [2020-04711]

Available from: 2023-06-01 Created: 2023-06-01 Last updated: 2024-07-12
3. A unified framework for prediction of liver steatosis dynamics in response to different diet and drug interventions
Open this publication in new window or tab >>A unified framework for prediction of liver steatosis dynamics in response to different diet and drug interventions
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2024 (English)In: Clinical Nutrition, ISSN 0261-5614, E-ISSN 1532-1983, Vol. 43, no 6, p. 1532-1543Article in journal (Refereed) Published
Abstract [en]

Background & aims: Non-alcoholic fatty liver disease (NAFLD) is a common metabolic disorder, characterized by the accumulation of excess fat in the liver, and is a driving factor for various severe liver diseases. These multi -factorial and multi-timescale changes are observed in different clinical studies, but these studies have not been integrated into a uni fied framework. In this study, we aim to present such a uni fied framework in the form of a dynamic mathematical model. Methods: For model training and validation, we collected data for dietary or drug -induced interventions aimed at reducing or increasing liver fat. The model was formulated using ordinary differential equations (ODEs) and the mathematical analysis, model simulation, model formulation and the model parameter estimation were all performed in MATLAB. Results: Our mathematical model describes accumulation of fat in the liver and predicts changes in lipid fluxes induced by both dietary and drug interventions. The model is validated using data from a wide range of drug and dietary intervention studies and can predict both short-term (days) and long-term (weeks) changes in liver fat. Importantly, the model computes the contribution of each individual lipid flux to the total liver fat dynamics. Furthermore, the model can be combined with an established bodyweight model, to simulate even longer scenarios (years), also including the effects of insulin resistance and body weight. To help prepare for corresponding eHealth applications, we also present a way to visualize the simulated changes, using dynamically changing lipid droplets, seen in images of liver biopsies. Conclusion: In conclusion, we believe that the minimal model presented herein might be a useful tool for future applications, and to further integrate and understand data regarding changes in dietary and drug induced changes in ectopic TAG in the liver. With further development and validation, the minimal model could be used as a disease progression model for steatosis. (c) 2024 The Author(s). Published by Elsevier Ltd. This is an open access article under the CC BY license (http://creativecommons.org/licenses/by/4.0/).

Place, publisher, year, edition, pages
CHURCHILL LIVINGSTONE, 2024
Keywords
Mathematical modelling; NAFLD; Steatosis; Systems biology; Diets
National Category
Gerontology, specialising in Medical and Health Sciences
Identifiers
urn:nbn:se:liu:diva-205433 (URN)10.1016/j.clnu.2024.05.017 (DOI)001243567200001 ()38754305 (PubMedID)2-s2.0-85192813337 (Scopus ID)
Note

Funding Agencies|Swedish Research Council [2018-05418, 2018-03319, 2019-03767]; CENIIT [15.09]; Knut and Alice Wallenberg Foundation [2020.0182]; H2020 project PRECISE4Q [777107]; H-EUROPE project STRATIF-AI [101080875]; Swedish Fund for Research without Animal Experiments [F2019-0010]; ELLIIT [2020-A12]; VINNOVA [2020-04711]; Knowledge Foundation [20200017]; CENIIT; Ake Wibergs Stiftelse; Swedish Fund for Research; [ITM17-0245]

Available from: 2024-06-26 Created: 2024-06-26 Last updated: 2025-04-09
4. A physiologically-based digital twin for alcohol consumption-predicting real-life drinking responses and long-term plasma PEth
Open this publication in new window or tab >>A physiologically-based digital twin for alcohol consumption-predicting real-life drinking responses and long-term plasma PEth
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2024 (English)In: npj Digital Medicine, E-ISSN 2398-6352, Vol. 7, no 1, article id 112Article in journal (Refereed) Published
Abstract [en]

Alcohol consumption is associated with a wide variety of preventable health complications and is a major risk factor for all-cause mortality in the age group 15-47 years. To reduce dangerous drinking behavior, eHealth applications have shown promise. A particularly interesting potential lies in the combination of eHealth apps with mathematical models. However, existing mathematical models do not consider real-life situations, such as combined intake of meals and beverages, and do not connect drinking to clinical markers, such as phosphatidylethanol (PEth). Herein, we present such a model which can simulate real-life situations and connect drinking to long-term markers. The new model can accurately describe both estimation data according to a chi 2 -test (187.0 < T-chi 2 = 226.4) and independent validation data (70.8 < T-chi 2 = 93.5). The model can also be personalized using anthropometric data from a specific individual and can thus be used as a physiologically-based digital twin. This twin is also able to connect short-term consumption of alcohol to the long-term dynamics of PEth levels in the blood, a clinical biomarker of alcohol consumption. Here we illustrate how connecting short-term consumption to long-term markers allows for a new way to determine patient alcohol consumption from measured PEth levels. An additional use case of the twin could include the combined evaluation of patient-reported AUDIT forms and measured PEth levels. Finally, we integrated the new model into an eHealth application, which could help guide individual users or clinicians to help reduce dangerous drinking.

Place, publisher, year, edition, pages
NATURE PORTFOLIO, 2024
National Category
Drug Abuse and Addiction
Identifiers
urn:nbn:se:liu:diva-203432 (URN)10.1038/s41746-024-01089-6 (DOI)001214185200002 ()38702474 (PubMedID)2-s2.0-85192106051 (Scopus ID)
Note

Funding Agencies|Linkoping University; ALF Grants; Knut and Alice Wallenberg Foundation [2020.0182]; Wallenberg Center for Molecular Medicine; Swedish Society of Medicine; Bengt Ihre Foundation; Magtarmfonden, Sweden; Swedish Research Council [2018-05418, 2018-03319]; CENIIT [15.09]; Swedish Foundation for Strategic Research [ITM17-0245]; H2020 project PRECISE4Q [777107]; Swedish Fund for Research without Animal Experiments [F2019-0010]; ELLIIT [2020-A12]; VINNOVA (Visual Sweden) [2020-04711]; Horizon Europe project STRATIF-AI [101080875]; Exploring Inflammation in Health and Disease (X-HiDE) Consortium; Knowledge Foundation [20200017]; Area of Strengthe-Health at Linkoping University; Region Ostergotland

Available from: 2024-05-14 Created: 2024-05-14 Last updated: 2025-04-09

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