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Infobiotics Workbench: An In Silico Software Suite for Computational Systems Biology
Zhang, G. Pérez-Jiménez, M.J. Riscos-Núñez, A. Verlan, S. Konur, Savas Hinze, T. Gheorghe, Marian
Zhang, G.
Pérez-Jiménez, M.J.
Riscos-Núñez, A.
Verlan, S.
Konur, Savas
Hinze, T.
Gheorghe, Marian
Publication Date
2021
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© 2021 Springer. Reproduced in accordance with the publisher's self-archiving policy.
The final publication is available at Springer via the doi below.
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Abstract
This chapter presents the Infobiotics Workbench (IBW), an integrated software suite developed for computational systems biology. The tool is built upon stochastic P systems, a probabilistic extension of P systems, as modelling framework. The platform utilises computer-aided modelling and
analysis of biological systems through simulation, verification and optimisation. IBW allows modelling and analysing not only cell level behaviour, but also multi-compartmental population dynamics. This enables comparing be tween macroscopic and mesoscopic interpretations of molecular interaction
networks and investigating temporo-spatial phenomena in multicellular systems. These capabilities make IBW a useful, coherent and comprehensive in silico tool for systems biology research.
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Accepted manuscript
Citation
Zhang G, Pérez-Jiménez MJ, Riscos-Núñez A, et al (2021) Infobiotics Workbench: An In Silico Software Suite for Computational Systems Biology. In: Zhang G, Pérez-Jiménez MJ, Riscos-Núñez A, et al. Membrane Computing Models: Implementations. Singapore: Springer. Chapter 3, pp 71-99.
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Book chapter