AA3-11 Flux cones of metabolic networks
Prof. Dr. Alexander Bockmayr , Prof. Dr. Martin Henk , Frederik Wieder
Jan 01, 2021 — Dec 31, 2021
The project aims at better understanding the structure and function of metabolic networks in biology by analyzing geometric, algebraic and combinatorial properties of the steady-state flux cone, a polyhedral cone defined by the network. The mathematical insights gained will be used to develop new ...
Dr. Mathilde Noual
Jun 19, 2017 — Jun 18, 2020
Boolean Automata Networks are formal prototypes of networks. Using them as such, this project studies general, scalable network features (eg synchronism, reversibility, non-monotony) and addresses questions about (1) the intrinsic effect of these features, (2) their vicariousness, i.e. the ...
GRK 1772: Computational Systems Biology
Prof. Dr. Alexander Bockmayr Katinka Becker (2014-2017) Aljoscha Palinkas (2011-2014)
Feb 01, 2011 — Jan 31, 2020
Biology has turned into a quantitative, information-driven science. Like physics in the first half of the twentieth century, biology now generates very challenging questions and masses of data that drive the development of theory and technology. There are numerous applications of biological ...
Prof. Dr. Alexander Bockmayr Alexandra-Mirela Reimers (2016-2017) Dr. Manon Bondouy (2018) Dr. Ling Sun (2018)
Dec 01, 2015 — Mar 31, 2019
Microbial strains used in biotechnological industry need to produce their biotechnological products at high yield and at the same time they are desired to be robust to the intrinsic nutrient dynamics of large-scale bioreactors, most noticeably to transient limitations of carbon sources and oxygen. ...
SE16 Numerical solution of dynamic metabolic resource allocation problems for bioenergy production
Prof. Dr. Alexander Bockmayr Dr. Markus Arthur Köbis
Jun 01, 2017 — Mar 03, 2019
In the field of sustainable energies, microbial cell factories such as yeasts and cyanobacteria are receiving increasing interest due to their potential to produce biofuels. A major question is how the metabolism of these microorganisms is coordinated in a dynamic environment such that the correct ...
A-CH5 Model classification under uncertainties for cellular signaling networks
Prof. Dr. Alexander Bockmayr
Jun 01, 2014 — May 31, 2017
Mathematical modeling in biological and medical applications is almost always faced with the problem of incomplete and often noisy data. Rather than adding unsupported assumptions to obtain a unique model, a different approach generates a pool of models in agreement with all available ...
Übergangsmetalle und phototrophes Wachstum: Ein neuer Ansatz der contraintbasierten Modellierung großer Stoffwechselnetzte
Prof. Dr. Alexander Bockmayr Marco Rügen
Apr 01, 2012 — Mar 31, 2015
Die Stoffwechselvorgänge von Blaualgen standen im Vordergrund des Vorhabens. Mathematische Modelle erlauben die Analyse und Vorhersage dieser Stoffwechselvorgänge mit weitreichenden Anwendungen in der Biotechnologie. Blaualgen sind beispielsweise für die Herstellung von Biokraftstoffen ...
A18 Mathematical Systems Biology
Prof. Dr. Alexander Bockmayr, Dr. Heike Siebert, Dr.-Ing. Steffen Waldherr, Dr. Yaron Goldstein, Lászlo David, Hannes Klarner
Jun 01, 2010 — May 31, 2014
Systems biology is a lively interdisciplinary research field that has received considerable attention in recent years. While traditional molecular biology studies the various components of a biological system (genes, RNAs, proteins,...) in isolation, systems biology aims to understand how these ...
TiGeRNet - Timed Genetic Regulatory Networks
Prof. Dr. Alexander Bockmayr, Dr. Heike Siebert
Jan 01, 2009 — Dec 31, 2010
Project partners Prof. Dr. Gilles Bernot , Ecole Polytechnique de l'Université de Nice Sophia Antipolis Prof. Dr. Jean-Paul Comet , Ecole Polytechnique de l'Université de Nice Sophia Antipolis Prof. Dr. Olivier Roux , Institut de Recherche en Communication et Cybernetique de ...
A8 Constraint-based Modeling in Systems Biology
Prof. Dr. Alexander Bockmayr, Dr. Heike Siebert, Hannes Klarner, Lazlo David, Dr. Abdelhalim Larhlimi
Apr 01, 2005 — May 31, 2010
Systems biology is a new area of biology that studies how the various components of a biological system (genes, RNA, proteins) interact in order to perform complex biological functions. Given that biological information is typically incomplete, the idea of constraint-based modeling is to describe ...
Fast and Accurate Multiple Structural RNA Alignment by Mathematical Optimization
Dr. Gunnar W. Klau Dr. Markus Bauer Inken Wohlers
Mar 01, 2007 — Sep 30, 2009
During the last years, the number of genes known for producing non-coding functional RNA had increased significantly, and it was assumed that many more of these ncRNA genes were still undiscovered. Yet, many functional classes of RNA showed little sequence conservation, but rather a conserved ...