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Network Analysis of the Kinetics of Amino Acid Metabolism in a Liver Cell Bioreactor

  • Wolfgang Schmidt-Heck
  • Katrin Zeilinger
  • Michael Pfaff
  • Susanne Toepfer
  • Dominik Driesch
  • Gesine Pless
  • Peter Neuhaus
  • Joerg Gerlach
  • Reinhard Guthke
Part of the Lecture Notes in Computer Science book series (LNCS, volume 3337)

Abstract

The correlation of the kinetics of 18 amino acids, ammonia and urea in 18 liver cell bioreactor runs was analyzed and described by network structures. Three kinds of networks were investigated: i) correlation networks, ii) Bayesian networks, and iii) dynamic networks that obtain their structure from systems of differential equations. Three groups of liver cell bioreactor runs with low, medium and high performance, respectively, were investigated. The aim of this study was to identify patterns and structures of the amino acid metabolism that can characterize different performance levels of the bioreactor.

Keywords

Bayesian Network Amino Acid Metabolism Membership Degree Correlation Network Capillary Membrane 
These keywords were added by machine and not by the authors. This process is experimental and the keywords may be updated as the learning algorithm improves.

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References

  1. 1.
    Sauer, I.M., Obermayer, N., Kardassis, D., Theruvath, T., Gerlach, J.C.: Development of a Hybrid Liver Support System. Ann. N.Y. Acad. Sci. 944, 308–319 (2001)CrossRefGoogle Scholar
  2. 2.
    Pfaff, M., Toepfer, S., Woetzel, D., Driesch, D., Zeilinger, K., Pless, G., Neuhaus, P., Gerlach, J.C., Schmidt-Heck, W., Guthke, R.: Fuzzy Cluster and Rule Based Analysis of the System Dynamics of a Bioartificial 3D Human Liver Cell Bioreactor for Liver Support Therapy. In: Dounias, G., Magoulas, G., Linkens, D. (eds.) Intelligent Technologies in Bioinformatics and Medicine. Special Session Proceedings of the EUNITE 2004 Symposium, A Publication of the University of the Aegean, vol. 57 (2004)Google Scholar
  3. 3.
    D’haeseleer, P., Liang, S., Somogyi, R.: Genetic Network Inference: From Co- Expression Clustering to Reverse Engineering. Bioinformatics 16, 707–726 (2000)CrossRefGoogle Scholar
  4. 4.
    De Jong, H.: Modeling and Simulation of Genetic Regulatory Systems: A Literature Review. J. Comput. Biol. 9, 69–105 (2002)Google Scholar
  5. 5.
    Pless, G., Obermayer, N., Sauer, I.M., Zeilinger, K., Buentemeyer, H., Lehmann, J., Gerlach, J.C., Neuhaus, P.: Aminosäurestoffwechselmuster humaner Leberzellen in 3-D-Hochdichtekultur. In: Jahrestagung der Deutschen Arbeitsgemeinschaft zum Studium der Leber, Berlin, vol. 19 (2003)Google Scholar
  6. 6.
    Arkin, A., Shen, P., Ross, J.: A Test Case of Correlation Metric Construction of a Reaction Pathway from Measurements. Science 277, 1275–1279 (1997)CrossRefGoogle Scholar
  7. 7.
    Cooper, G.F., Herskovits, E.: A Bayesian Method for the Induction of Probabilistic Networks from Data. Machine Learning 9, 309–347 (1992)zbMATHGoogle Scholar
  8. 8.
    Kitano, H. (ed.): Foundations of Systems Biology. MIT Press, Cambridge (2001)Google Scholar
  9. 9.
    Schmidt-Heck, W., Guthke, R., Toepfer, S., Reischer, H., Duerrschmid, K., Bayer, K.: Reverse Engineering of the Stress Response during Expression of a Recombinant Protein. In: Proceedings of the EUNITE 2004 Symposiumé Verlag Mainz, Aachen, pp. 407–412 (2004)Google Scholar
  10. 10.
    Ramoni, M., Sebastiani, P.: Bayesian Methods. In: Intelligent Data Analysis, An Introduction, pp. 129–166. Physica Verlag, Heidelberg (1999), www.bayesware.com Google Scholar

Copyright information

© Springer-Verlag Berlin Heidelberg 2004

Authors and Affiliations

  • Wolfgang Schmidt-Heck
    • 1
  • Katrin Zeilinger
    • 2
  • Michael Pfaff
    • 3
  • Susanne Toepfer
    • 3
  • Dominik Driesch
    • 3
  • Gesine Pless
    • 2
  • Peter Neuhaus
    • 2
  • Joerg Gerlach
    • 2
  • Reinhard Guthke
    • 1
  1. 1.Hans Knoell Institute for Natural Products ResearchJenaGermany
  2. 2.Charité Campus VirchowUniversity Medicine BerlinBerlinGermany
  3. 3.BioControl Jena GmbHJenaGermany

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