Publications

2016 König M., Marchesini G., Vilstrup H., and Holzhütter HG.
A Multiscale Computational Model Predicts Human Liver Function From Single-Cell Metabolism
[in preparation]
2016 König M.*, Oellrich A.*, Waltemath D.*, Dobson R., Hubbard T., and Wolkenhauer O.
* equal contribution
Challenges and opportunities for system biology standards and tools in medical research
[submitted]
2016 König M.
cy3sabiork: A Cytoscape app for visualizing kinetic data from SABIO-RK
[version 1; referees: awaiting peer review]. F1000Research 2016, 5:1736 (doi: 10.12688/f1000research.9211.1)
2016 Choi K., Medley JK., Cannistra C., König M., Smith L., Stocking K., and Sauro HM.
Tellurium: A Python Based Integrated Environment for Biological Modeling and Simulation
bioRxiv 054601; doi: http://dx.doi.org/10.1101/054601 [in revision]
2016 Wholecell Consortium (König M.)
Toward community standards and software for whole-cell modeling
IEEE Trans Biomed Eng. 2016 Jun 10. [PubMed]
2015 Kerstin A.*, König M.*, Hoppe A., Thomas M., Müller I., Ebert M., Weng H., Holzhütter HG., Zanger UM., Bode J., Vollmar B. and Dooley S.
* equal contribution
Pathobiochemical signatures of cholestatic liver disease in bile duct ligated mice
BMC Syst Biol. 2015 Nov 20;9(1):83. doi: 10.1186/s12918-015-0229-0 [PubMed]
2015 Werner D., Ricken T., Dahmen U., Dirsch O., Holzhütter HG., König M.
On the Influence of Growth in Perfusion Dependent Biological Systems - at the Example of the Human Liver.
PAMM 15 (1), 119-120, 2015 [doi:10.1002/pamm.201510050]
2015 Somogyi ET., Bouteiller JM., Glazier JA., König M., Medley JK., Swat MH and Sauro HM.
LibRoadRunner: a high performance SBML simulation and analysis library.
Bioinformatics. 2015 Jun 17. pii: btv363. [PubMed]
2014 Ricken T., Werner D., Holzhütter HG., König M., Dahmen U., Dirsch O.
Modeling function-perfusion behavior in liver lobules including tissue, blood, glucose, lactate and glycogen by use of a coupled two-scale PDE-ODE approach.
Biomech Model Mechanobiol. 2014 Sep 19. [doi, PubMed]
2014 König M. and Holzhütter HG.
Homeostasis of blood glucose - Computer simulations of central liver functions.
systembiologie.de 2014; 8:p.53-57 [PDF (de), PDF (en)]
2013 König M., Holzhütter HG., Berndt N.
Metabolic Gradients as Key Regulators in Zonation of Tumor Energy Metabolism: A Tissue-scale Model Based Study.
Biotechnol J. 2013 Apr 16. [doi, PubMed]
2012 König M. and Holzhütter HG.
Kinetic Modeling of Human Hepatic Glucose Metabolism in T2DM Predicts Higher Risk of Hypoglycemic Events in Rigorous Insulin Therapy
J Biol Chem. 2012 [DOI 10.1074/jbc.M112.382069]
2012 König M., Dräger A. and Holzhütter HG.
CySBML: a Cytoscape plugin for SBML
Bioinformatics. 2012 Jul 5. [PubMed]
2012 König M., Bulik S. and Holzhütter HG.
Quantifying the Contribution of the Liver to the Homeostasis of Plasma Glucose: A Detailed Kinetic Model of Hepatic Glucose Metabolism Integrated with the Hormonal Control by Insulin, Glucagon and Epinephrine
PLoS Comput Biol. 2012 Jun;8(6):e1002577. Epub 2012 Jun 21. [PubMed]
2011 Herling A, König M, Bulik S, Holzhütter HG.
Enzymatic Features of the Glucose Metabolism in Tumor Cells.
FEBS J. 2011 Jul;278(14):2436-59. [doi, PubMed]
2011 König M. and Holzhütter HG.
FluxViz - Cytoscape Plug-in for Vizualisation of Flux Distributions in Networks
Genome Informatics 2010, Vol.24, p.96-103 [PubMed]
2010 Gille C, Bölling C, Hoppe A, Bulik S, Hoffmann S, Hübner K, Karlstädt A, Ganeshan R, König M, Rother K, Weidlich M, Behre J, Holzhütter HG.
HepatoNet1: a comprehensive metabolic reconstruction of the human hepatocyte for the analysis of liver physiology.
Mol Syst Biol., 6:411. [PubMed]