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공공누리This item is licensed Korea Open Government License

Title
ezBioNet: A Modeling and Simulation System for Analyzing Biological Reaction Networks
Author(s)
유석종ThaiQuangTung
Publication Year
2012-10-31
Abstract
Toachieverobustnessagainstlivingenvironments,alivingorganismiscomposedofcomplicated
regulatorymechanismsrangingfromgeneregulationstosignaltransduction.Ifsuchlifephenomena
aretobeunderstand,anintegratedanalysistoolthatshouldhavemodelingandsimulation
functionsforbiologicalreactions,aswellasnewexperimentalmethodsformeasuringbiologicalphenomena,
isfundamentallyrequired.Wehavedesignedandimplementedmodelingandsimulation
software(ezBioNet)foranalyzingbiologicalreactionnetworks.Thesoftwarecansimultaneously
performanintegratedmodelingofvariousresponsesoccurringincells,rangingfromgeneexpressions
tosignalingprocesses.Tosupportmassiveanalysisofbiologicalnetworks,wehaveconstructed
aserver-sidesimulationsystem(VCellSim)thatcanperformordinarydifferentialequations(ODE)
analysis,sensitivityanalysis,andparameterestimates.ezBioNetintegratestheBioModeldatabase
byconnectingtheeuropeanbioinformaticsinstitute(EBI)serversthroughWebservicesAPIsand
supportsthehandlingofsystemsbiologymarkuplanguage(SBML)files.Inaddition,weemployed
eclipseRCP(richclientplatform)whichisapowerfulmodularityframeworkallowingvariousfunctional
expansions.ezBioNetisintendedtobeaneasy-to-usemodelingtool,aswellasasimulation
system,tounderstandthecontrolmechanismbymonitoringthechangeofeachcomponentina
biologicalnetwork.Aresearchermayperformthekineticmodelingandexecutethesimulation.
ThesimulationresultcanbemanagedandvisualizedonezBioNet,whichisfreelyavailableat
http://ezbionet.cbnu.ac.kr.
Keyword
Systemsbiology; Simulation; Biologicalnetwork; Signaltransductionanalysis
Journal Title
JournaloftheKoreanPhysicalSociety
Citation Volume
61
ISSN
0374-4884
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Appears in Collections:
7. KISTI 연구성과 > 학술지 발표논문
URI
https://repository.kisti.re.kr/handle/10580/14057
http://www.ndsl.kr/ndsl/search/detail/article/articleSearchResultDetail.do?cn=NART64985035
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