rxncon 2.0 publications
rxncon 2.0: a language for executable molecular systems biology, Romers JC and Krantz M (2017), bioRxiv, doi:10.1101/107136
A scalable method for parameter-free simulation and validation of mechanistic cellular signal transduction network models, Romers JC*, Thieme S*, Münzner U and Krantz M (2017), bioRxiv, doi: 10.1101/107235
The rxncon workbench. Wajnberg M, Thieme S, Romers J and Krantz M, in preparation.
A comprehensive, mechanistically detailed, and executable model of the Cell Division Cycle. Mütnzner U, Klipp E and Krantz M (2018), bioRxiv, doi: 10.1101/298745
Using rxncon to develop rule based models, Romers J, Thieme S, Münzner, U and Krantz, M, to appear in Modeling Biomolecular Site Dynamics (Springer Methods in Molecular Biology).
Toward Genome-Scale Models of Signal Transduction Networks, Münzner U, Lubitz T, Klipp E and Krantz M (2017), in Systems Biology (eds J. Nielsen and S. Hohmann) DOI: 10.1002/9783527696130.ch8
rxncon 1.0 publications
A framework for mapping, visualisation and automatic model creation of signal transduction networks. , Tiger CF, Krause F, Cedersund G, Palmér R, Klipp E, Hohmann S, Kitano H & Krantz M (2012), Mol Syst Biol, 2012. 8: 578. DOI: 10.1038/msb.2012.12
Network reconstruction and validation of the Snf1/AMPK pathway in baker's yeast based on a comprehensive literature review, Lubitz T, Welkenhuysen N, Shashkova S, Bendrioua L, Hohmann S, Klipp E, Krantz M (2015), npj Systems Biology and Applications 1. doi:10.1038/npjsba.2015.7
Reaction-contingency based bipartite Boolean modelling. , Flöttmann M, Krause F, Klipp E and Krantz M(2013), BMC Syst Biol. 7, 58. DOI: 10.1186/1752-0509-7-58
Stochastic simulation of Boolean rxncon models: towards quantitative analysis of large signaling networks, Mori T, Flöttmann M, Krantz M, Akutsu T, Klipp E (2015) BMC systems biology 9 (1), 1. DOI: 10.1186/s12918-015-0193-8
Information content and scalability in signal transduction network reconstruction formats. , Rother M, Münzner U, Thieme S and Krantz M, (2013) Molecular BioSystems 9 (8), 1993-2004. DOI: 10.1039/C3MB00005B