All systems go: Launching cell simulation fueled by integrated experimental biology data

Masanori Arita, Martin Robert, Masaru Tomita

Research output: Contribution to journalReview article

21 Citations (Scopus)


Biological simulation serves to unify the basic elements of systems biology, namely, model selection, experimentation and model refinement. To select biochemical models for simulation, metabolome analysis can be performed using capillary electrophoresis or liquid chromatography coupled with mass spectrometry. In this manner, selected models can be elaborated with temporal/spatial gene and protein expression data obtained from model organisms such as Escherichia coli. The E. coli single gene deletion mutant library (KO collection) and His-tag/GFP-fusion single open reading frame clone expression library (ASKA) are powerful resources for this task. The integration of parallel experimental datasets into dynamic simulation tools forms the remaining challenge for the systematic analysis and elucidation of biological networks and holds promise for biotechnological applications.

Original languageEnglish
Pages (from-to)344-349
Number of pages6
JournalCurrent Opinion in Biotechnology
Issue number3 SPEC. ISS.
Publication statusPublished - 2005 Jun


ASJC Scopus subject areas

  • Biotechnology
  • Bioengineering
  • Biomedical Engineering

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