Modeling of Cell-to-Cell Communication Processes with Petri Nets Using the Example of Quorum Sensing

Janowski SJ, Kormeier B, Töpel T, Hippe K, Hofestädt R, Willassen N, Friesen R, Rubert S, Borck D, Haugen P, Chen M (2011)
In: Biological Petri Nets. Wingender E (Ed); Studies in health technology and informatics, 162. Amsterdam: IOS Press: 182-203.

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Wingender, Edgar
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The understanding of the molecular mechanism of cell-to-cell communication is fundamental for system biology. Up to now, the main objectives of bioinformatics have been reconstruction, modeling and analysis of metabolic, regulatory and signaling processes, based on data generated from high-throughput technologies. Cell-to-cell communication or quorum sensing (QS), the use of small molecule signals to coordinate complex patterns of behavior in bacteria, has been the focus of many reports over the past decade. Based on the quorum sensing process of the organism Aliivibrio salmonicida, we aim at developing a functional Petri net, which will allow modeling and simulating cell-to-cell communication processes. Using a new editor-controlled information system called VANESA (http://vanesa.sf.net), we present how to combine different fields of studies such as life-science, database consulting, modeling, visualization and simulation for a semi-automatic reconstruction of the complex signaling quorum sensing network. We show how cell-to-cell communication processes and information-flow within a cell and across cell colonies can be modeled using VANESA and how those models can be simulated with Petri net network structures in a sophisticated way.
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Janowski SJ, Kormeier B, Töpel T, et al. Modeling of Cell-to-Cell Communication Processes with Petri Nets Using the Example of Quorum Sensing. In: Wingender E, ed. Biological Petri Nets. Studies in health technology and informatics. Vol 162. Amsterdam: IOS Press; 2011: 182-203.
Janowski, S. J., Kormeier, B., Töpel, T., Hippe, K., Hofestädt, R., Willassen, N., Friesen, R., et al. (2011). Modeling of Cell-to-Cell Communication Processes with Petri Nets Using the Example of Quorum Sensing. In E. Wingender (Ed.), Studies in health technology and informatics: Vol. 162. Biological Petri Nets (pp. 182-203). Amsterdam: IOS Press.
Janowski, S. J., Kormeier, B., Töpel, T., Hippe, K., Hofestädt, R., Willassen, N., Friesen, R., Rubert, S., Borck, D., Haugen, P., et al. (2011). “Modeling of Cell-to-Cell Communication Processes with Petri Nets Using the Example of Quorum Sensing” in Biological Petri Nets, Wingender, E. ed. Studies in health technology and informatics, vol. 162, (Amsterdam: IOS Press), 182-203.
Janowski, S.J., et al., 2011. Modeling of Cell-to-Cell Communication Processes with Petri Nets Using the Example of Quorum Sensing. In E. Wingender, ed. Biological Petri Nets. Studies in health technology and informatics. no.162 Amsterdam: IOS Press, pp. 182-203.
S.J. Janowski, et al., “Modeling of Cell-to-Cell Communication Processes with Petri Nets Using the Example of Quorum Sensing”, Biological Petri Nets, E. Wingender, ed., Studies in health technology and informatics, vol. 162, Amsterdam: IOS Press, 2011, pp.182-203.
Janowski, S.J., Kormeier, B., Töpel, T., Hippe, K., Hofestädt, R., Willassen, N., Friesen, R., Rubert, S., Borck, D., Haugen, P., Chen, M.: Modeling of Cell-to-Cell Communication Processes with Petri Nets Using the Example of Quorum Sensing. In: Wingender, E. (ed.) Biological Petri Nets. Studies in health technology and informatics. 162, p. 182-203. IOS Press, Amsterdam (2011).
Janowski, Sebastian Jan, Kormeier, Benjamin, Töpel, Thoralf, Hippe, Klaus, Hofestädt, Ralf, Willassen, Nils, Friesen, Rafael, Rubert, Sebastian, Borck, Daniela, Haugen, Peik, and Chen, Ming. “Modeling of Cell-to-Cell Communication Processes with Petri Nets Using the Example of Quorum Sensing”. Biological Petri Nets. Ed. Edgar Wingender. Amsterdam: IOS Press, 2011.Vol. 162. Studies in health technology and informatics. 182-203.
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Identification of novel cholesteatoma-related gene expression signatures using full-genome microarrays.
Klenke C, Janowski S, Borck D, Widera D, Ebmeyer J, Kalinowski J, Leichtle A, Hofestädt R, Upile T, Kaltschmidt C, Kaltschmidt B, Sudhoff H., PLoS One 7(12), 2012
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