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Resource type: thesis

Large Scale Computational Modelling of Cellular Biosystems


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Title Large Scale Computational Modelling of Cellular Biosystems
Title variant: Wielkoskalowe obliczenia w matematycznym modelowaniu komórkowych układów biologicznych
Persons Authors: Maciej Wacław Cytowski
Partner: Systems Research Institute Polish Academy of Sciences, Warsaw
Description Biological processes are inherently very complex and involve many unknown relationships and mechanisms at different scales. Despite many efforts, one still cannot explain all the observed phenomena nor, if necessary, make any desirable changes in their dynamics. Recently, it has become apparent that the opportunity lies in complementing the traditional, heuristic experimental approach with mathematical modelling and computer simulations. To obtain a simulation scale that corresponds, for instance, to clinically detectable tumour sizes is still a huge challenge, however, it is necessary to understand and control complex biological processes. In this thesis we present a novel large scale parallel computational model allowing 3-D simulations of cell colonies, growing and interacting with variable environment in previously unavailable tissue scale.The cells are modeled as individuals located in the lattice-free 3-D space. The model incorporates cellular environment, modelled in a continuous manner, as well as mathematical description based on partial differential equations, formulated for selected important components of the environment. Discrete and continuous formulations are efficiently coupled in one model and allow for consideration in different scales: sub-cellular, cellular and tissue scale. High parallel scalability achieved allows for simulation of up to 109 individual cells. This large scale computational approach allows for simulations to be carried out over realistic spatial scales up to 1cm in size i.e. the tissue scale. For the first time, a single model fills the gap between intracellular dynamics and the tissue. (English)
Keywords "modelowanie matematyczne"@pl, "modelowanie matematyczne w biologii"@pl, "obliczenia równoległe"@pl, "metody agentowe"@pl
Classification Resource type: thesis
Scientific discipline: dziedzina nauk technicznych / informatyka (2011)
Destination group: scientists, students, entrepreneurs
Harmful content: No
Characteristics Place of creation: Warszawa
Creation time: 2014
Number of pages: 96
Supervisor: Marek Antoni Niezgódka
Resource language: English
Location: Warszawa
License CC BY-SA 4.0
Technical information Submitter: Justyna Kupczak
Availability date: 26-10-2018
Collections Kolekcja Instytutu Badań Systemowych PAN w Warszawie, Kolekcja e-Biblio IBS PAN



Maciej Wacław Cytowski. Large Scale Computational Modelling of Cellular Biosystems. [thesis] Available in Atlas of Open Science Resources, . License: CC BY-SA 4.0, Date of access: DD.MM.RRRR.

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