Modeling and simulation using cellDesigner

Yukiko Matsuoka, Akira Funahashi, Samik Ghosh, Hiroaki Kitano

Research output: Contribution to journalArticle

35 Citations (Scopus)


In silico modeling and simulation are effective means to understand how the regulatory systems function in life. In this chapter, we explain how to build a model and run the simulation using Cell Designer, adopting the standards such as SBML and SBGN.

Original languageEnglish
Pages (from-to)121-145
Number of pages25
JournalMethods in Molecular Biology
Publication statusPublished - 2014 Jan 1
Externally publishedYes


  • CellDesigner
  • Garuda platform
  • SBGN (systems biology graphical notation)
  • SBML (systems biology markup language)
  • Transcription regulatory network

ASJC Scopus subject areas

  • Molecular Biology
  • Genetics

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