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List of works by Matthias König

Computational Modeling in Liver Surgery

scientific article published on 14 November 2017

CySBML: a Cytoscape plugin for SBML

scientific article published on 05 July 2012

Dynamic Flux Balance Analysis Models in SBML

Enzymatic features of the glucose metabolism in tumor cells

scientific article published on 10 June 2011

HEPATOKIN1 is a biochemistry-based model of liver metabolism for applications in medicine and pharmacology.

scientific article published on 19 June 2018

Harmonizing semantic annotations for computational models in biology

Harmonizing semantic annotations for computational models in biology

scientific article published on 01 March 2019

HepatoNet1: a comprehensive metabolic reconstruction of the human hepatocyte for the analysis of liver physiology

scientific article

Kinetic modeling of human hepatic glucose metabolism in type 2 diabetes mellitus predicts higher risk of hypoglycemic events in rigorous insulin therapy

scientific article published on 12 September 2012

MEMOTE for standardized genome-scale metabolic model testing

scientific article published on 01 March 2020

Metabolic gradients as key regulators in zonation of tumor energy metabolism: a tissue-scale model-based study

scientific article

Modeling function-perfusion behavior in liver lobules including tissue, blood, glucose, lactate and glycogen by use of a coupled two-scale PDE-ODE approach

scientific article published on 19 September 2014

OMEX metadata specification (version 1.2)

scientific article published in 2021

Open modeling and exchange (OMEX) metadata specification version 1.0.

scientific article published on 25 June 2020

Pathobiochemical signatures of cholestatic liver disease in bile duct ligated mice

scientific article published on 20 November 2015

Publisher Correction: MEMOTE for standardized genome-scale metabolic model testing

scientific article published on 01 April 2020

Quantifying the contribution of the liver to glucose homeostasis: a detailed kinetic model of human hepatic glucose metabolism

scientific article

SBML Level 3: an extensible format for the exchange and reuse of biological models

scientific article published on 01 August 2020

Simulation Experiment Description Markup Language (SED-ML) Level 1 Version 3 (L1V3).

scientific article published on 19 March 2018

Specifications of Standards in Systems and Synthetic Biology: Status and Developments in 2019

scientific article published on 13 July 2019

Specifications of standards in systems and synthetic biology: status and developments in 2021

Specifications of standards in systems and synthetic biology: status and developments in 2022 and the COMBINE meeting 2022

scientific article published in March 2023

Specifications of standards in systems and synthetic biology: status, developments, and tools in 2024

Systems Biology Markup Language (SBML) Level 3 Package: Distributions, Version 1, Release 1

scientific article published on 04 August 2020

Tellurium notebooks-An environment for reproducible dynamical modeling in systems biology.

scientific article published on 15 June 2018

The Systems Biology Markup Language (SBML): Language Specification for Level 3 Version 2 Core Release 2

scientific article published on 20 June 2019

The first 10 years of the international coordination network for standards in systems and synthetic biology (COMBINE)

scientific article published on 29 June 2020

The simulation experiment description markup language (SED-ML): language specification for level 1 version 4

scientific article published in 2021

The simulation experiment description markup language (SED-ML): language specification for level 1 version 5

scientific article published in March 2024

Toward Community Standards and Software for Whole-Cell Modeling

scientific article

cy3sabiork: A Cytoscape app for visualizing kinetic data from SABIO-RK

scholarly article published 5 July 2016

cy3sabiork: A Cytoscape app for visualizing kinetic data from SABIO-RK

scholarly article by Matthias König published 18 July 2016 in F1000Research

libRoadRunner 2.0: a high performance SBML simulation and analysis library

scientific article published in 2022

libRoadRunner: a high performance SBML simulation and analysis library

scientific article published on 17 June 2015