Multi-scale Modelling of Erythropoiesis and Hemoglobin Production

Bouchnita, Anass; Rocca, Alexandre; Fanchon, Éric; Koury, Mark J.; Moulis, Jean‐Marc; Volpert, Vitaly

doi:10.1007/s10904-016-0437-0

Cited by 8 publications

(19 citation statements)

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“…The paper Bouchnita et al (2016) addressed, on an experimental protocol model, the problem of refining the parameters space, and to fit multiple data sets of experimental results. In Bouchnita et al (2016), the experimental protocol was not explicitly formalized as a hybrid system. However, we use the parameters value from this previous work as starting instantiation to provide less restrictive constraints on the time varying parameter k 3 .…”

Section: Application To Haemoglobin Production and Resultsmentioning

confidence: 99%

“…Finally, these measurements provide results on the variation during the cell differentiation of the integration of iron in heme, which is associated to the parameter k 3 . The controlled hybrid system H associated to the experiment studied in Bouchnita et al (2016) and the haemoglobin production model are given, in a shortened version, in Tables 1 and 2. The ODEs (f ctrl ) and (f rad ), as well as the numerical values of the parameters, are given in Appendix.…”

Section: Application To Haemoglobin Production and Resultsmentioning

confidence: 99%

“…We release a software package 2 , in MATLAB, implementing this algorithm. We evaluate this algorithm and its implementation, on the haemoglobin production model taken from Bouchnita et al (2016).…”

Section: Main Contributionsmentioning

confidence: 99%

“…Section 3 presents our main contribution to the resolution of the hybrid optimal control problem with intermediate points. Finally, in Section 4 we study and discuss the model revision of the haemoglobin production model taken from Bouchnita et al (2016).…”

Section: Main Contributionsmentioning

confidence: 99%

“…The parameters a k3 and b k3 are not used, as we search a new function to model k 3 (t). The initial condition of the controlled hybrid system, H, is determined by the initial condition in Bouchnita et al (2016): (i 0 , x(0)) = (1, (0, Fe 0 , 0, 0, 0)). Table 5.…”

Section: Appendixmentioning

confidence: 99%

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Occupation measure methods for modelling and analysis of biological hybrid systems

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Mechanistic models in biology often involve numerous parameters about which we do not have direct experimental information. The traditional approach is to fit these parameters using extensive numerical simulations (e.g. by the Monte-Carlo method), and eventually revising the model if the predictions do not correspond to the actual measurements. In this work we propose a methodology for hybrid system model revision, when new types of functions are needed to capture time varying parameters. To this end, we formulate a hybrid optimal control problem with intermediate points as successive infinite-dimensional linear programs (LP) on occupation measures. Then, these infinite-dimensional LPs are solved using a hierarchy of semidefinite relaxations. The whole procedure is exposed on a recent model for haemoglobin production in erythrocytes.

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Section: Application To Haemoglobin Production and Resultsmentioning

confidence: 99%

Section: Application To Haemoglobin Production and Resultsmentioning

confidence: 99%

Section: Main Contributionsmentioning

confidence: 99%

Section: Main Contributionsmentioning

confidence: 99%

Section: Appendixmentioning

confidence: 99%

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Occupation measure methods for modelling and analysis of biological hybrid systems

et al. 2018

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A 3D Multiscale Model to Explore the Role of EGFR Overexpression in Tumourigenesis

Bouchnita

Hellander

2019

Bull Math Biol

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The epidermal growth factor receptor (EGFR) signalling cascade is one of the main pathways that regulate the survival and division of mammalian cells. It is also one of the most altered transduction pathways in cancer. Acquired mutations in the EGFR/ERK pathway can cause the overexpression of EGFR on the surface of the cell, while others downregulate the inactivation of switched on intracellular proteins such as Ras and Raf. This upregulates the activity of ERK and promotes cell division. We develop a 3D multiscale model to explore the role of EGFR overexpression on tumour initiation. In this model, cells are described as individual objects that move, interact, divide, proliferate, and die by apoptosis. We use Brownian Dynamics to describe the extracellular and intracellular regulations of cells as well as the spatial and stochastic effects influencing them. The fate of each cell depends on the number of active transcription factors in the nucleus. We use numerical simulations to investigate the individual and combined effects of mutations on the intracellular regulation of individual cells. Next, we show that the distance between active receptors increase the level of EGFR/ERK signalling. We demonstrate the usefulness of the model by quantifying the impact of mutational alterations in the EGFR/ERK pathway on the growth rate of in silico tumours.

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Quantitative MRI evaluation of bone marrow in sickle cell disease: relationship with haemolysis and clinical severity

Lins¹,

Salmon²,

Souza³

et al. 2023

Clinical Radiology

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Multi-scale Modelling of Erythropoiesis and Hemoglobin Production

Cited by 8 publications

References 46 publications

Occupation measure methods for modelling and analysis of biological hybrid systems

Occupation measure methods for modelling and analysis of biological hybrid systems

A 3D Multiscale Model to Explore the Role of EGFR Overexpression in Tumourigenesis

Quantitative MRI evaluation of bone marrow in sickle cell disease: relationship with haemolysis and clinical severity

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