Mathematical models of filtration by Wey, A

“…We show that solutions of this multiscale model match those of the network model from (II) in a particular asymptotic limit, even though they are obtained at considerably reduced computational cost. …”

Balance of mechanical forces drives endothelial gap formation and may facilitate cancer and immune-cell extravasation by Escribano, Jorge, Chen, Michelle B., Moeendarbary, Emad, Kamm, Roger D., Spill, Fabian

“…Here, we present a stochastic-mechanical multiscale model of an endothelial cell monolayer and show that the dynamic nature of the endothelium leads to spontaneous gap formation, even without intervention from the transmigrating cells. …”
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Using Deep Learning to Predict Fracture Patterns in Crystalline Solids by Hsu, Yu-Chuan, Yu, Chi-Hua, Buehler, Markus J

“…To this end, we present a machine-learning approach to predict fracture processes connecting molecular simulation into a physics-based artificial intelligence (AI) multiscale model. Our model exhibits predictive power not only regarding the computed fracture patterns but also for fracture toughness—the resistance of cracks to grow. …”
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Structural basis for endotoxin neutralisation and anti-inflammatory activity of thrombin-derived C-terminal peptides by Saravanan, Rathi, Holdbrook, Daniel A, Petrlova, Jitka, Singh, Shalini, Berglund, Nils A, Choong, Yeu Khai, Kjellström, Sven, Bond, Peter J, Malmsten, Martin, Schmidtchen, Artur

“…Employing a combination of nuclear magnetic resonance spectroscopy (NMR), biophysical, mass spectrometry and cellular studies combined with in silico multiscale modelling, we here determine the bound conformation of HVF18 (HVFRLKKWIQKVIDQFGE), a TCP generated by neutrophil elastase, in complex with bacterial lipopolysaccharide (LPS) and define a previously undisclosed interaction between TCPs and human CD14. …”
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Random blebbing motion: A simple model linking cell structural properties to migration characteristics by Woolley, T, Gaffney, E, Goriely, A

“…Further, by considering mechanically isolated blebbing events, which are randomly distributed over the cell we can derive equations linking the macroscopic migration characteristics to the microscopic structural parameters of the cell. This multiscale modelling framework is then used to provide parameter estimates, which are in agreement with current experimental data. …”

Extending the multi-level method for the simulation of stochastic biological systems by Lester, C, Baker, R, Giles, M, Yates, C

“…The multi-level method for discrete-state systems, first introduced by Anderson and Higham (SIAM Multiscale Model Simul 10(1):146-179, 2012), is a highly efficient simulation technique that can be used to elucidate statistical characteristics of biochemical reaction networks. …”

Toward a quantitative understanding of the Wnt/beta-catenin pathway through simulation and experiment by Lloyd-Lewis, B, Fletcher, A, Dale, T, Byrne, H

“…Such models range in complexity, from time‐dependent, ordinary differential equations that describe the biochemical interactions between key pathway components within a single cell, to complex, multiscale models that incorporate the role of the Wnt/β‐catenin pathway target genes in tissue homeostasis and carcinogenesis. …”

Crypt dynamics and colorectal cancer: advances in mathematical modelling. by van Leeuwen, I, Byrne, H, Jensen, O, King, JR

“…Finally, we explain how we aim to gain further understanding of the crypt system and of colorectal carcinogenesis with the aid of multiscale models that cover all levels of organization from the molecular to the whole organ.…”

Particle interactions mediated by dynamical networks: Assessment of macroscopic descriptions by Barré, J, Carrillo de la Plata, JA, Degond, P, Peurichard, D, Zatorska, E

“…We provide a numerical study of the macroscopic model of Barré et al. (Multiscale Model Simul, 2017, to appear) derived from an agent-based model for a system of particles interacting through a dynamical network of links. …”

Method for the explicit insertion of microstructure in Cellular Automata Finite Element (CAFE) models based on an irregular tetrahedral Finite Element mesh: Application in a multi-... by Saucedo-Mora, L, Marrow, T

“…Abstract Multiscale models are needed in simulations of mechanical and thermal properties that consider the microstructural heterogeneity of materials, in which a coupling is essential between the numerical models that deal with the different scales. …”

A dynamic multiscale viscosity algorithm for shock capturing in Runge Kutta Discontinuous Galerkin methods by Brachet, Jean-Baptiste

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Graphical model based spatio-temporal modeling of extreme events by Zhang, Liaofan

“…The GEV parameters are then coupled together using a monoscale thin-membrane model across the space and a multiscale model across the time domain. Efficient inference algorithm has been proposed based on the framework of smoothing based optimization. …”
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Modelling the response of vascular tumours to chemotherapy: A multiscale approach by Byrne, H, Owen, MR, Alarcon, T, Murphy, J, Maini, P

“…An existing multiscale model is extended to study the response of a vascularised tumour to treatment with chemotherapeutic drugs which target proliferating cells. …”

Finite element methods for deterministic simulation of polymeric fluids by Knezevic, D

“…In this work we consider a finite element method for solving the coupled Navier-Stokes (NS) and Fokker-Planck (FP) multiscale model that describes the dynamics of dilute polymeric fluids. …”

Modelling the response of vascular tumours to chemotherapy: A multiscale approach by Byrne, H, Owen, M, Alarcon, T, Murphy, J, Maini, P

“…An existing multiscale model is extended to study the response of a vascularised tumour to treatment with chemotherapeutic drugs which target proliferating cells. …”

The impact of cell crowding and active cell movement on vascular tumour growth by Betteridge, R, Owen, M, Byrne, H, Alarcon, T, Maini, P

“…A multiscale model for vascular tumour growth is presented which includes systems of ordinary differential equations for the cell cycle and regulation of apoptosis in individual cells, coupled to partial differential equations for the spatio-temporal dynamics of nutrient and key signalling chemicals. …”

The impact of cell crowding and active cell movement on vascular tumour growth by Betteridge, R, Owen, MR, Byrne, H, Alarcon, T, Maini, P

“…A multiscale model for vascular tumour growth is presented which includes systems of ordinary differential equations for the cell cycle and regulation of apoptosis in individual cells, coupled to partial differential equations for the spatio- temporal dynamics of nutrient and key signalling chemicals. …”

SBML level 3: An extensible format for the exchange and reuse of biological models by Keating, SM, Waltemath, D, König, M, Zhang, F, Dräger, A, Chaouiya, C, Bergmann, FT, Finney, A, Gillespie, CS, Helikar, T, Hoops, S, Malik-Sheriff, RS, Moodie, SL, Moraru, II, Myers, CJ, Naldi, A, Olivier, BG, Sahle, S, Schaff, JC, Smith, LP, Swat, MJ, Thieffry, D, Watanabe, L, Wilkinson, DJ, Blinov, ML, Begley, K, Faeder, JR, Gómez, HF, Hamm, TM, Inagaki, Y, Liebermeister, W, Lister, AL, Lucio, D, Mjolsness, E, Proctor, CJ, Raman, K, Rodriguez, N, Shaffer, CA, Shapiro, BE, Stelling, J, Swainston, N, Tanimura, N, Wagner, J, Meier-Schellersheim, M, Sauro, HM, Palsson, B, Bolouri, H, Kitano, H, Funahashi, A, Hermjakob, H, Doyle, JC, Hucka, M

“…More recently, the rise of multiscale models of whole cells and organs, and new data sources such as single-cell measurements and live imaging, has precipitated new ways of integrating data with models. …”

Differentiable Multiscale Molecular Simulations by Wang, Wujie

“…The algorithms introduced in this thesis bridge the gap between scales for data-driven modeling, opening possibilities for more powerful and predictive multiscale models.…”
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Mathematical modeling of monoclonal conversion in the colonic crypt by Fletcher, A, Breward, C, Chapman, S

“…A novel spatial multiscale model of a colonic crypt is described, which couples the cell cycle (including cell division) with the mechanics of cell movement. …”