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Integrative modeling of gene expression and metabolism with E-CELL System

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Abstract

A gene-expression model for an E-CELL simulation was constructed, and the simulation was carried out. The model was integrated with a metabolism model of the self-sustaining virtual cell model which was constructed based on aMycoplasma genitalium cell. Details of the model structure and the results of the simulation are shown. AnEscherichia coli lac-operon model was also constructed by integrating and abstracting the gene-expression model. Wherever possible, experimental parameters were used to construct the model

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References

  1. Tomita M, Hashimoto K, Takahashi K, et al. (1999) E-CELL: software environment for whole-cell simulation. Bioinformatics 15:72–84

    Article  Google Scholar 

  2. Tomita M, Hashimoto K, Takahashi K, et al. (2000) The E-CELL Project: towards intergrative simulation of cellular processes. New Gener Comput 18:1–12

    Article  Google Scholar 

  3. Tomita M (2001) Whole-cell simulation: a grand challenge of the 21 st century. Trends Biotechnol 19(6):205–210

    Article  Google Scholar 

  4. Triendl R (2000) Computerized role models. Nature, 417(6892):7

    Article  Google Scholar 

  5. Fraser CM, Gocayne JD, White O, et al. (1995) The minimal gene complement ofMycoplasma genitalium. Science 270:397–403

    Google Scholar 

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Author information

Authors and Affiliations

  1. Institute for Advanced Biosciences, Keio University, 997-0035, Tsuruoka, Japan

    Kenta Hashimoto, Sae Seno, Pawan Kumar Dhar & Masaru Tomita

Authors
  1. Kenta Hashimoto
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  2. Sae Seno
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  3. Pawan Kumar Dhar
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  4. Masaru Tomita
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Corresponding author

Correspondence to Kenta Hashimoto.

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Cite this article

Hashimoto, K., Seno, S., Dhar, P.K. et al. Integrative modeling of gene expression and metabolism with E-CELL System. Artif Life Robotics 6, 99–107 (2002). https://doi.org/10.1007/BF02481322

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  • DOI: https://doi.org/10.1007/BF02481322

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