Literature DB >> 24982249

A framework for multi-scale modelling.

B Chopard1, Joris Borgdorff2, A G Hoekstra3.   

Abstract

We review a methodology to design, implement and execute multi-scale and multi-science numerical simulations. We identify important ingredients of multi-scale modelling and give a precise definition of them. Our framework assumes that a multi-scale model can be formulated in terms of a collection of coupled single-scale submodels. With concepts such as the scale separation map, the generic submodel execution loop (SEL) and the coupling templates, one can define a multi-scale modelling language which is a bridge between the application design and the computer implementation. Our approach has been successfully applied to an increasing number of applications from different fields of science and technology.
© 2014 The Author(s) Published by the Royal Society. All rights reserved.

Keywords:  framework; methodology; modelling; multi-scale; multi-scale parallelism; simulation

Year:  2014        PMID: 24982249      PMCID: PMC4084523          DOI: 10.1098/rsta.2013.0378

Source DB:  PubMed          Journal:  Philos Trans A Math Phys Eng Sci        ISSN: 1364-503X            Impact factor:   4.226


  7 in total

Review 1.  Multi-scale modelling and simulation in systems biology.

Authors:  Joseph O Dada; Pedro Mendes
Journal:  Integr Biol (Camb)       Date:  2011-01-06       Impact factor: 2.192

2.  The application of multiscale modelling to the process of development and prevention of stenosis in a stented coronary artery.

Authors:  D J W Evans; P V Lawford; J Gunn; D Walker; D R Hose; R H Smallwood; B Chopard; M Krafczyk; J Bernsdorf; A Hoekstra
Journal:  Philos Trans A Math Phys Eng Sci       Date:  2008-09-28       Impact factor: 4.226

3.  Multiscale modelling and simulation: a position paper.

Authors:  Alfons Hoekstra; Bastien Chopard; Peter Coveney
Journal:  Philos Trans A Math Phys Eng Sci       Date:  2014-08-06       Impact factor: 4.226

4.  Multi-scale simulations of the dynamics of in-stent restenosis: impact of stent deployment and design.

Authors:  Hannan Tahir; Alfons G Hoekstra; Eric Lorenz; Patricia V Lawford; D Rodney Hose; Julian Gunn; David J W Evans
Journal:  Interface Focus       Date:  2011-03-30       Impact factor: 3.906

5.  Flexible composition and execution of high performance, high fidelity multiscale biomedical simulations.

Authors:  D Groen; J Borgdorff; C Bona-Casas; J Hetherington; R W Nash; S J Zasada; I Saverchenko; M Mamonski; K Kurowski; M O Bernabeu; A G Hoekstra; P V Coveney
Journal:  Interface Focus       Date:  2013-04-06       Impact factor: 3.906

6.  Performance of distributed multiscale simulations.

Authors:  J Borgdorff; M Ben Belgacem; C Bona-Casas; L Fazendeiro; D Groen; O Hoenen; A Mizeranschi; J L Suter; D Coster; P V Coveney; W Dubitzky; A G Hoekstra; P Strand; B Chopard
Journal:  Philos Trans A Math Phys Eng Sci       Date:  2014-08-06       Impact factor: 4.226

7.  Modelling the effect of a functional endothelium on the development of in-stent restenosis.

Authors:  Hannan Tahir; Carles Bona-Casas; Alfons G Hoekstra
Journal:  PLoS One       Date:  2013-06-13       Impact factor: 3.240

  7 in total
  10 in total

1.  Application of the extreme scaling computing pattern on multiscale fusion plasma modelling.

Authors:  O O Luk; O Hoenen; O Perks; K Brabazon; T Piontek; P Kopta; B Bosak; A Bottino; B D Scott; D P Coster
Journal:  Philos Trans A Math Phys Eng Sci       Date:  2019-04-08       Impact factor: 4.226

2.  Semi-intrusive multiscale metamodelling uncertainty quantification with application to a model of in-stent restenosis.

Authors:  A Nikishova; L Veen; P Zun; A G Hoekstra
Journal:  Philos Trans A Math Phys Eng Sci       Date:  2019-04-08       Impact factor: 4.226

3.  Multiscale modelling: approaches and challenges.

Authors:  Sergey Karabasov; Dmitry Nerukh; Alfons Hoekstra; Bastien Chopard; Peter V Coveney
Journal:  Philos Trans A Math Phys Eng Sci       Date:  2014-08-06       Impact factor: 4.226

4.  Performance of distributed multiscale simulations.

Authors:  J Borgdorff; M Ben Belgacem; C Bona-Casas; L Fazendeiro; D Groen; O Hoenen; A Mizeranschi; J L Suter; D Coster; P V Coveney; W Dubitzky; A G Hoekstra; P Strand; B Chopard
Journal:  Philos Trans A Math Phys Eng Sci       Date:  2014-08-06       Impact factor: 4.226

5.  A Comparison of Fully-Coupled 3D In-Stent Restenosis Simulations to In-vivo Data.

Authors:  Pavel S Zun; Tatiana Anikina; Andrew Svitenkov; Alfons G Hoekstra
Journal:  Front Physiol       Date:  2017-05-23       Impact factor: 4.566

6.  Developing a Policy Flight Simulator to Facilitate the Adoption of an Evidence-Based Intervention.

Authors:  Michael J Pennock; Zhongyuan Yu; Karen B Hirschman; Kara Pepe; Mark V Pauly; Mary D Naylor; William B Rouse
Journal:  IEEE J Transl Eng Health Med       Date:  2018-05-07       Impact factor: 3.316

Review 7.  Community effort endorsing multiscale modelling, multiscale data science and multiscale computing for systems medicine.

Authors:  Massimiliano Zanin; Ivan Chorbev; Blaz Stres; Egils Stalidzans; Julio Vera; Paolo Tieri; Filippo Castiglione; Derek Groen; Huiru Zheng; Jan Baumbach; Johannes A Schmid; José Basilio; Peter Klimek; Nataša Debeljak; Damjana Rozman; Harald H H W Schmidt
Journal:  Brief Bioinform       Date:  2019-05-21       Impact factor: 11.622

8.  Cell studio: A platform for interactive, 3D graphical simulation of immunological processes.

Authors:  Asaf Liberman; Danny Kario; Matan Mussel; Jacob Brill; Kenneth Buetow; Sol Efroni; Uri Nevo
Journal:  APL Bioeng       Date:  2018-06-04

9.  VECMAtk: a scalable verification, validation and uncertainty quantification toolkit for scientific simulations.

Authors:  D Groen; H Arabnejad; V Jancauskas; W N Edeling; F Jansson; R A Richardson; J Lakhlili; L Veen; B Bosak; P Kopta; D W Wright; N Monnier; P Karlshoefer; D Suleimenova; R Sinclair; M Vassaux; A Nikishova; M Bieniek; Onnie O Luk; M Kulczewski; E Raffin; D Crommelin; O Hoenen; D P Coster; T Piontek; P V Coveney
Journal:  Philos Trans A Math Phys Eng Sci       Date:  2021-03-29       Impact factor: 4.226

10.  Towards the virtual artery: a multiscale model for vascular physiology at the physics-chemistry-biology interface.

Authors:  Alfons G Hoekstra; Saad Alowayyed; Eric Lorenz; Natalia Melnikova; Lampros Mountrakis; Britt van Rooij; Andrew Svitenkov; Gábor Závodszky; Pavel Zun
Journal:  Philos Trans A Math Phys Eng Sci       Date:  2016-11-13       Impact factor: 4.226

  10 in total

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