Matthias König

Disorders of the liver show up through changes in blood tests. These blood tests indicate markers for events taking place in the liver. Usually studies of liver tissue cannot be performed: as liver samples would need to be obtained through a liver biopsy, and this procedure is not without risk, therefore these samples are usually unavailable. Complex metabolism models based on existing and new scientific data can simulate changes in the liver caused by disease. They often reveal unknown relationships ...

This comprises the whole LiSyM network

This generic project is intended to be a forum for all LiSyM partner and external stakeholders interested in participating in the BMBF initiative LiSyM-Krebs.

This is a generic project that comprises all LiSyM data management PALs and associated FAIRDOM PALs, as well as the LiSyM data management team. Olga Maja Alain

Dr. Matthias König (Humboldt University, Berlin) models the human liver on the computer. His simulations show the extent of individual differences in liver function and the external factors influencing it. König has shown that smoking falsifies the result of an important liver test (LiMAx). With his models, drug doses can be calculated so that they can be administered in doses that do not harm the liver.

We face a crisis in reproducibility, where it is impossible to believe most of the computational results shown in conferences and papers. Recent replication efforts and theoretical considerations indicate that most published research findings in biomedical research are wrong. This is especially problematic for the translation of computational models into the clinics. Modelling standards, software, and community initiatives are fundamental for reproducibility in systems biology and systems medicine. ...

Test for SEEK API upload.

Introduction: The field of pharmacokinetics describe the kinetics of substances administered to the body, consisting of absorption, distribution, metabolization and elimination (ADME) of the substance. An important use case is the testing of liver function via test substances like caffeine, methacetin or galactose in dynamical liver function tests. Understanding the kinetics of test substances and drugs is crucial to evaluate therapeutic outcome and diagnostic value.

Results: Physiologically based ...

Collection of Presentations and Posters from Dresden LiSyM Jamboree (LiFuDi & MM-PLF)

Pillar IV Jamboree • (10 min) Introduction to Pillar IV (Hergo Holzhütter) • (20 min) Precise Measurement of Hepatic Elasticity for Fibrosis Detection (Christian Hudert) • (20 min) Tissue Scale Metabolic Modelling (Sascha Bulik) • (10 min) Multi-scale models for liver function tests (Matthias König) • (20 min) Improving the diagnostic precision of the 13C-methacetin dynamic liver function test (LiMAx) (Tilo ...

A multitude of pharmacokinetics studies have been published. However, due to the lack of an open database, pharmacokinetics data, as well as the corresponding meta-information, have been difficult to access. We present PK-DB (https://develop.pk-db.com), an open database for pharmacokinetics information from clinical trials including pre-clinical research. PK-DB provides curated information on (i) characteristics of studied patient cohorts and subjects (e.g. age, bodyweight, smoking status); (ii) ...

Pharmacokinetics data set for caffeine

Data digitized from publication.

Hetzler1990 Description

Data digitized from publication.

Spigset1999a Description

Data digitized from publication.

Akinyinka2000 Description

Data digitized from publication.

Perera2011 Description

Data digitized from publication.

Amchin1999 Description

Digitized pharmacokinetics data.

Digitized pharmacokinetics data.

Digitized pharmacokinetics data.

Digitized pharmacokinetics data.

Digitized pharmacokinetics data.

PK-DB: PharmacoKinetics DataBase for Individualized and Stratified Computational Modeling Jan Grzegorzewski, Janosch Brandhorst, Dimitra Eleftheriadou, Kathleen Green, Matthias König bioRxiv 760884; doi: https://doi.org/10.1101/760884

We face a reproducibility crisis and computational science, with most published models neither being accessible nor reproducible. The Systems Biology Markup Language (SBML) is the de facto standard format for encoding pathway based models, which provides a means for exchanging process based models between researchers and tools. The talk gives an overview of SBML and SBML-based tools.

Assessment of liver function is a key task in hepatology but accurate quantification of hepatic function has remained a clinical challenge. Dynamic liver function tests are a promising tool for the non-invasive evaluation of liver function in vivo. Quantitative dynamical liver function tests evaluate the function of the liver via the clearance of a given test substance, thereby providing in vivo information on the metabolic capacity of the liver. Here, we present recent results in establishing ...

Hünfeld 2018 presention on reproducible research and open science.

Improved evaluation of caffeine-based dynamical liver function tests by accounting for lifestyle and pharmacological modifiers like smoking and oral contraceptive use

Matthias König1,*, Ute Hofmann2, Jan Grzegorzewski1, Reinhold Kerb2, Svitlana Igel2, Elke Schäffeler2 and Matthias Schwab2,3

1Institute for Theoretical Biology, Institute of Biology, Humboldt University, Berlin, Germany, koenigmx@hu-berlin.de, orcid.org/0000-0003-1725-179X 2Dr Margarete Fischer-Bosch Institute of Clinical Pharmacology, ...

Modeling tutorial as part of the 1st LiSyM Retreat Meeting in Hünfeld (20-22 November 2017).

This tutorial gives a quick introduction into standards used in computational modeling and visualizes, simulates and analysis showcase example models. A basic introduction to simple kinetic models is provided.

The latest material is available from https://github.com/matthiaskoenig/lisym-tutorial under https://github.com/matthiaskoenig/lisym-tutorial/releases. The presentation is available from the within ...