caa a22 4500 445842806 CHVBK 20180317145350.0 cr unu---uuuuu 170323e20110901xx s 000 0 eng 10.1007/s11047-009-9151-y doi (NATIONALLICENCE)springer-10.1007/s11047-009-9151-y Petri net models for the semi-automatic construction of large scale biological networks [Elektronische Daten] [Ming Chen, Sridhar Hariharaputran, Ralf Hofestädt, Benjamin Kormeier, Sarah Spangardt] For the implementation of the virtual cell, the fundamental question is how to model and simulate complex biological networks. During the last 15years, Petri nets have attracted more and more attention to help to solve this key problem. Regarding the published papers, it seems clear that hybrid functional Petri nets are the adequate method to model complex biological networks. Today, a Petri net model of biological networks is built manually by drawing places, transitions and arcs with mouse events. Therefore, based on relevant molecular database and information systems biological data integration is an essential step in constructing biological networks. In this paper, we will motivate the application of Petri nets for modeling and simulation of biological networks. Furthermore, we will present a type of access to relevant metabolic databases such as KEGG, BRENDA, etc. Based on this integration process, the system supports semi-automatic generation of the correlated hybrid Petri net model. A case study of the cardio-disease related gene-regulated biological network is also presented. MoVisPP is available at http://agbi.techfak.uni-bielefeld.de/movispp/. Springer Science+Business Media B.V., 2009 Functional Petri net nationallicence Model construction nationallicence Data integration nationallicence Cardio-disease network nationallicence MoVisPP nationallicence Chen Ming Bioinformatics Department, College of Life Sciences, Zhejiang University, Zijingang Campus, 310058, Hangzhou, China aut Hariharaputran Sridhar Bioinformatics Department, Faculty of Technology, Bielefeld University, 33615, Bielefeld, Germany aut Hofestädt Ralf Bioinformatics Department, Faculty of Technology, Bielefeld University, 33615, Bielefeld, Germany aut Kormeier Benjamin Bioinformatics Department, Faculty of Technology, Bielefeld University, 33615, Bielefeld, Germany aut Spangardt Sarah Bioinformatics Department, Faculty of Technology, Bielefeld University, 33615, Bielefeld, Germany aut Natural Computing Springer Netherlands 10/3(2011-09-01), 1077-1097 1567-7818 10:3<1077 2011 10 11047 https://doi.org/10.1007/s11047-009-9151-y text/html Onlinezugriff via DOI 1 research-article jats NATIONALLICENCE 856 40 https://doi.org/10.1007/s11047-009-9151-y text/html Onlinezugriff via DOI NATIONALLICENCE 700 1- Chen Ming Bioinformatics Department, College of Life Sciences, Zhejiang University, Zijingang Campus, 310058, Hangzhou, China aut NATIONALLICENCE 700 1- Hariharaputran Sridhar Bioinformatics Department, Faculty of Technology, Bielefeld University, 33615, Bielefeld, Germany aut NATIONALLICENCE 700 1- Hofestädt Ralf Bioinformatics Department, Faculty of Technology, Bielefeld University, 33615, Bielefeld, Germany aut NATIONALLICENCE 700 1- Kormeier Benjamin Bioinformatics Department, Faculty of Technology, Bielefeld University, 33615, Bielefeld, Germany aut NATIONALLICENCE 700 1- Spangardt Sarah Bioinformatics Department, Faculty of Technology, Bielefeld University, 33615, Bielefeld, Germany aut NATIONALLICENCE 773 0- Natural Computing Springer Netherlands 10/3(2011-09-01), 1077-1097 1567-7818 10:3<1077 2011 10 11047 Metadata rights reserved Springer special CC-BY-NC licence nationallicence BK010053 XK010053 XK010000 NATIONALLICENCE NATIONALLICENCE NL-springer