izpis_h1_title_alt

Pregled orodij za agentno modeliranje bioloških sistemov in njihova uporaba na modelu večceličnega biološkega oscilatorja
ID Gazvoda, Silvo (Author), ID Moškon, Miha (Mentor) More about this mentor... This link opens in a new window

.pdfPDF - Presentation file, Download (1,93 MB)
MD5: E92C7319E27068CE5D8D03F6542777B0
PID: 20.500.12556/rul/6f9109ce-99b2-47a3-aad6-1a97abeb7abc

Abstract
V magistrski nalogi smo opravili pregled orodij za agentno modeliranje bioloških sistemov. Agentno modeliranje je osredotočeno na modeliranje opazovanega sistema z avtonomnimi entitetami imenovanimi agenti. Tovrstno modeliranje nam omogoča predstavitev biološkega sistema na različnih nivojih abstrakcije. V pregled smo vključili splošno orodje za agentno modeliranje in orodja, ki so specializirana na modeliranje celice kot agent. Orodja smo primerjali in pregledali z vidika načina opisa agentove dinamike, modelirnega programskega jezika, simuliranega virtualnega okolja in z vidika implementiranih celičnih lastnosti, procesov ter dinamike, kot je na primer celična rast in celično gibanje. Podrobneje smo opisali okolja NetLogo, BSim, Gro in CellModeller. Pri vsakem smo opisali interaktivno okolje, modelirni jezik in arhitekturo oziroma implementacijo orodja. Uporabo izbranih orodij smo demonstrirali na vzorčnem primeru večceličnega modela biološkega oscilatorja. V zaključku smo podali predlog ogrodja orodja za agentno modeliranje bioloških sistemov, ki bi uporabnikom še dodatno olajšal postavitev tovrstnih modelov.

Language:Slovenian
Keywords:agentno modeliranje, večcelično modeliranje, simulacija, biološki sistemi, skupinsko vedenje, oscilator
Work type:Master's thesis/paper
Organization:FRI - Faculty of Computer and Information Science
Year:2017
PID:20.500.12556/RUL-96525 This link opens in a new window
Publication date in RUL:04.10.2017
Views:1709
Downloads:645
Metadata:XML RDF-CHPDL DC-XML DC-RDF
:
Copy citation
Share:Bookmark and Share

Secondary language

Language:English
Title:Overview of the agent-based tools for the modelling of biological systems and their application to the analysis of multi-cellular biological oscillator
Abstract:
In this thesis, we overview computational tools for agent-based modelling of biological systems. Agent-based modelling focuses on the modelling of observed system with individual components called agents. This type of modelling offers a representation of a biological system at multiple levels of abstraction. We overview general-purpose agent-based framework and agent-based tools, which use cells as the primary agents. We compare and examine available tools from different perspectives. We examine how agent dynamics can be modelled, and properties of modelling languages, simulated environments, and built-in complex cellular traits (e.g. growth and movement) are checked. Afterwards, we examine NetLogo, BSim, Gro, and CellModeller framework. For each tool we provide description of their interactive environment, properties of modelling language, and their design and implementation principles. In the last part, we perform analysis of the above mentioned tools on the case study of a multi-cellular biological oscillator model. We conclude with the agent-based framework proposition, which would simplify the process of implementation of multi-agent biological models.

Keywords:agent-based modelling, multicellular modelling, simulation, biological systems, emergent behaviour, oscillator

Similar documents

Similar works from RUL:
Similar works from other Slovenian collections:

Back