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Cell-based models are mathematical models that represent biological cells as discrete entities. Within the field of computational biology they are often simply called agent-based models [1] of which they are a specific application and they are used for simulating the biomechanics of multicellular structures such as tissues. to study the influence of these behaviors on how tissues are organised ...
It is possibly a good example of a mathematical model as it deals with simple calculus but gives valid results. Two research groups [1] [2] have produced several models of the cell cycle simulating several organisms. They have recently produced a generic eukaryotic cell cycle model which can represent a particular eukaryote depending on the ...
The state of each cell in a totalistic cellular automaton is represented by a number (usually an integer value drawn from a finite set), and the value of a cell at time t depends only on the sum of the values of the cells in its neighborhood (possibly including the cell itself) at time t − 1.
Modelling biological systems is a significant task of systems biology and mathematical biology. [a] Computational systems biology [b] [1] aims to develop and use efficient algorithms, data structures, visualization and communication tools with the goal of computer modelling of biological systems.
A specialized form of the PhysiCell agent-based modeling platform that directly integrates Boolean signaling networks into cell Agents [19] multiplatform (C++) BSD-3: Yes, but only for reactions PhysiCell: A agent-based [20] modeling framework for multicellular systems biology. multiplatform (C++) BSD-3: Yes, but only for reactions PySCeS
In geometric topology, a cellular decomposition G of a manifold M is a decomposition of M as the disjoint union of cells (spaces homeomorphic to n-balls B n). The quotient space M/G has points that correspond to the cells of the decomposition. There is a natural map from M to M/G, which is given the quotient topology.
Coarse-grained models are widely used for molecular modeling of biomolecules [1] [2] at various granularity levels. A wide range of coarse-grained models have been proposed. They are usually dedicated to computational modeling of specific molecules: proteins, [1] [2] nucleic acids, [3] [4] lipid membranes, [2] [5] carbohydrates [6] or water. [7]
Swiss-model (stylized as SWISS-MODEL) is a structural bioinformatics web-server dedicated to homology modeling of 3D protein structures. [ 1 ] [ 2 ] As of 2024 [update] , homology modeling is the most accurate method to generate reliable three-dimensional protein structure models and is routinely used in many practical applications.