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The ISBGroup Blog

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Here you can read about everything that's happening in the ISB Group.

STRATIF-AI: Digital Twins for Stoke in Brazil

Uncategorised Posted on Wed, March 06, 2024 06:34:13

Our EU project STRATIF-AI (https://stratif-ai.eu/en), in which we develop digital twins for prevention, acute treatment and rehabilitation of stroke, was presented as part of “Clinical applications of computer modeling” at Latin American Summer School for Computational Neuroscience (LASCON) in Sao Paulo Brazil Jan 2024.

Figure shows how modern medicine has been changing and indicates role of modeling in modern (future) clinical practice — part of personalized medicine, data-mining, self-monitoring, omics, surgical planning, medical education, research, screening, etc



VPH News Letter – Dancing digital twins

Uncategorised Posted on Mon, October 17, 2022 09:00:00

The opening ceremony of the Virtual Physiological Human (VPH) conference was something special, it featured a lecture-performance with our physiologically based dancing digital twins. The VPH Institute has now published a news letter were you can read more about the development of the digital twins for the past 20 years, and more about the future visions for using them within biomedical teaching and patient-centric care.

Take your digital twin with you throughout your health journey: from dance performances to patient-centric, preventive healthcare” For link click HERE



ICSB 2022

Uncategorised Posted on Mon, October 10, 2022 09:59:46

The 21st International Conference on Systems Biology (ICSB 2022) was held in Berlin, Germany, these past few days. We had a great time there and had the opportunity to meet great people, take part in interesting discussions, and see some of Berlin. During the conference, we presented several posters and gave some talks (summarized below). We would like to extend our thanks to the ICSB committee for a well-organized conference. Until next time, from the ISB group.

The full program can be found here: https://www.icsb2022.berlin/, and down below is a summary of our contributions.

M4-health: digital twins that follow you throughout your health journey, Gunnar Cedersund

Authors: Gunnar Cedersund

An interconnected multi-level mechanistic model of the human brain, Nicolas Sundqvist

Authors: Nicolas Sundqvist, Henrik Podéus, Malin Ejneby Silverå, Sebastian Sten, Salvador Dura-Bernal, Soroush Safaei, Maria Engström and Gunnar Cedersund

Digital twins and hybrid modelling for simulation of physiological variables and stroke risk, Tilda Herrgårdh

Authors: Tilda Herrgårdh, Elizabeth Hunter, Kajsa Tunedal, John D. Kelleher and Gunnar Cedersund

Insights on hemodynamic changes in hypertension and T2D through non-invasive cardiovascular modeling, Kajsa Tunedal

Authors: Kajsa Tunedal, Carl-Johan Carlhäll, Federica Viola, Tino Ebbers and Gunnar Cedersund

Mathematical modeling of cytokine interplay in human monocytes during LPS stimulation, Niloofar Nikaein

Authors: Niloofar Nikaein, Kedeye Tuerxun, Daniel Eklund, Alexander Persson, Robert Kruse, Eva Särndahl, Eewa Nånberg, Antje Thonig, Gunnar Cedersund, Elin Nyman, Dirk Repsilber and On Behalf Of The X-Hide Consortium

Connecting the Neurovascular coupling and Electrophysiological signaling – a modeling approach, Henrik Podéus

Authors: Henrik Podéus, Gunnar Cedersund and Salvador Dura-Bernal

An in silico resection to estimate global and regional hepatobiliary function in patients undergoing hepatectomy, Christian Simonsson

Authors: Christian Simonsson, Wolf Claus Bartholomä, Anna Lindhoff Larsson, Markus Karlsson, Bengt Norén, Gunnar Cedersund, Nils Dahlström, Per Sandström and Peter Lundberg

A comprehensive mechanistic model of adipocyte signaling with layers of confidence, William Lövfors

Authors: William Lövfors, Cecilia Jönsson, Charlotta S. Olofsson, Gunnar Cedersund and Elin Nyman



New article in PLoS Computational Biology

News, Systems biology and science Posted on Mon, May 02, 2022 07:00:00

Sundqvist N, Grankvist N, Watrous J, Mohit J, Nilsson R, Cedersund G. Validation-based model selection for 13C metabolic flux analysis with uncertain measurement errors. PLoS Comput Biol. 2022 Apr 11;18(4):e1009999. doi: 10.1371/journal.pcbi.1009999

Author summary: Measuring metabolic reaction fluxes in living cells is difficult, yet important. The gold standard is to label extracellular metabolites with 13C, to use mass spectrometry to find out where the 13C-atoms ends up, and finally use mathematical modelling to calculate how quickly each reaction must have flowed, for the 13C-atoms to end up like that. This measurement thus relies on usage of the right mathematical model, which must be selected among various candidate models. In this manuscript, we present a new way to do this model selection step, utilizing validation data. Using an adopted approach to calculate the uncertainty of model predictions, we identify new validation experiments, which are neither too similar, nor too dissimilar, compared to the previous training data. The model candidate that is best at predicting this new validation data is the one chosen. Tests on simulated data where the true model is known, shows that the validation-based method is robust when the magnitude of the error in the measurement uncertainty is unknown, something that conventional methods are not. This improvement is important since true uncertainties can be difficult to estimate for these data. Finally, we demonstrate how the new method can be used on real data, to identify fluxes and important reactions.