scholarly journals ya||a: GPU-powered Spheroid Models for Mesenchyme and Epithelium

2019 ◽  
Author(s):  
Philipp Germann ◽  
Miquel Marin-Riera ◽  
James Sharpe
Keyword(s):  
Agent Based Model ◽  
Agent Based ◽  
Tissue Polarity ◽  
Link Type ◽  
Computationally Expensive ◽  
Epithelial Sheets ◽  
And Migration

ya||a is yet another parallel agent-based model for morphogenesis. It is several orders of magnitude faster than onventional models, because it runs on GPUs and because it has been designed for performance: Previously only complex and therefore computationally expensive models could simulate both mesenchyme and epithelium. We chose o extend the simple spheroid model by the addition of spin-like polarities to simulate epithelial sheets and tissue polarity. We also incorporate recently developed models for protrusions and migration. ya||a is written in concise, plain UDA/C++ and available at github.com/germannp/yalla under the MIT license.

scholarly journals Isolation, Characterization, and Agent-Based Modeling of Mesenchymal Stem Cells in a Bio-construct for Myocardial Regeneration Scaffold Design

Data ◽  
2019 ◽  
Vol 4 (2) ◽  
pp. 71 ◽  
Author(s):  
Diana Victoria Ramírez López ◽  
María Isabel Melo Escobar ◽  
Carlos A. Peña-Reyes ◽  
Álvaro J. Rojas Arciniegas ◽  
Paola Andrea Neuta Arciniegas
Keyword(s):  
Stem Cells ◽  
Mesenchymal Stem Cells ◽  
In Silico ◽  
Cardiac Tissue ◽  
Cellular Level ◽  
Cell Behavior ◽  
Agent Based Model ◽  
Agent Based ◽  
And Migration

Regenerative medicine involves methods to control and modify normal tissue repair processes. Polymer and cell constructs are under research to create tissue that replaces the affected area in cardiac tissue after myocardial infarction (MI). The aim of the present study is to evaluate the behavior of differentiated and undifferentiated mesenchymal stem cells (MSCs) in vitro and in silico and to compare the results that both offer when it comes to the design process of biodevices for the treatment of infarcted myocardium in biomodels. To assess in vitro behavior, MSCs are isolated from rat bone marrow and seeded undifferentiated and differentiated in multiple scaffolds of a gelled biomaterial. Subsequently, cell behavior is evaluated by trypan blue and fluorescence microscopy, which showed that the cells presented high viability and low cell migration in the biomaterial. An agent-based model intended to reproduce as closely as possible the behavior of individual MSCs by simulating cellular-level processes was developed, where the in vitro results are used to identify parameters in the agent-based model that is developed, and which simulates cellular-level processes: Apoptosis, differentiation, proliferation, and migration. Thanks to the results obtained, suggestions for good results in the design and fabrication of the proposed scaffolds and how an agent-based model can be helpful for testing hypothesis are presented in the discussion. It is concluded that assessment of cell behavior through the observation of viability, proliferation, migration, inflammation reduction, and spatial composition in vitro and in silico, represents an appropriate strategy for scaffold engineering.

Tool of forecasting the natural and migration movement of the population in the region based on simulation methods

2019 ◽  
Vol 5 (4) ◽  
pp. 155-168
Author(s):  
Marsel M. Nizamutdinov ◽  
Аlsu R. Atnabaeva
Keyword(s):  
Economic Development ◽  
State Diagram ◽  
Regional Level ◽  
Statistical Regression ◽  
Agent Based Model ◽  
Agent Based ◽  
Connection Management ◽  
The Republic ◽  
And Cluster Analysis ◽  
And Migration

The demographic policy of the Russian Federation is aimed at increasing the population in the country. In this connection, management decisions made at the regional level focus at attracting skilled migrants, increasing the birth rate, and reducing mortality. On the one hand, such politics affects the size of the population; on the other hand, the reaction of the population can adjust the policy. In turn, state programs are intended for a long period of time, thus, there is a need to assess the effectiveness of the taken decisions. Therefore, the authors have proposed a concept of an agent-based model of demographic processes at the regional level. In addition, they have developed the model itself, which aims to increase the accuracy of forecasting the population in the face of changing socio-economic indicators. Each of the agents (represented by “Person” and “Region”) have their own set of characteristics. To describe the logic of the agent behavior, the authors have used statistical (regression and cluster analysis) and probability (Bernoulli, Gamma, Betta, exponential distribution) methods. The life cycle of the agent “Person” is presented in the developed state diagram. The testing of the agent-based model was performed in solving the problems of forecasting the population in the Republic of Bashkortostan on the basis of the prognosis data from the RF Ministry of Economic Development. The article also presents experimental research on two scenarios of economic development (basic and conservative). An assessment of changes in fertility, mortality, and migration based on the use of cluster and regression analysis is presented.

A-KinGDom: An Agent-based Model and Software for the Emergence of Social Structure in Primates

2012 ◽  
Author(s):  
Ruth Dolado ◽  
Vicenc Quera ◽  
Francesc Salvador
Keyword(s):  
Social Structure ◽  
Agent Based Model ◽  
Agent Based

Simulations of an Agent-Based Model that Consists of a Large Number of Agents Moving Stochastically in a Wide Bounded Domain

2001 ◽  
Author(s):  
Minoru Tabata ◽  
Akira Ide ◽  
Nobuoki Eshima ◽  
Kyushu Takagi ◽  
Yasuhiro Takei ◽  
...  
Keyword(s):  
Bounded Domain ◽  
Agent Based Model ◽  
Agent Based

An Agent-Based Model for Understanding the Influence of the 11-M Terrorist Attacks on the 2004 Spanish Elections

2016 ◽  
Author(s):  
Ignacio Moya ◽  
Manuel Chica ◽  
Jose Luis S aez-Lozano
Keyword(s):  
Terrorist Attacks ◽  
Agent Based Model ◽  
Agent Based
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