Der Transistorschalter im analogen Rechenkreis. - Ernst Dieter Gilles; H. Schuchmann (Elektron. Rechenanlagen, 1966)

Structural theory of distributed systems: A. G. Butkovskiy. - Ernst Dieter Gilles; U. Knöpp (Autom., 1985)

Ein integriertes Navigationssystem zur Ortung und Führung von Flächenpeilschiffen auf Binnenwasserstraßen. - Martin Sandler; M. Faul; Ernst Dieter Gilles (AMS, 1996)

Towards an Object-Oriented Framework for the Modeling of Integrated Metabolic Processes. - G. Breuel; Ernst Dieter Gilles (German Conference on Bioinformatics - Selected Papers, 1996)

Towards an Objeet-Oriented Framework for the Modeling of Bacterial Metabolism. - G. Breuel; Ernst Dieter Gilles (German Conference on Bioinformatics, 1996)

Autonomous guidance of ships on waterways. - Martin Sandler; Anja Wahl; Reinhard Zimmermann; M. Faul; U. Kabatek; Ernst Dieter Gilles (Robotics Auton. Syst., 1996)

Ein Multi-Sensor-System zur automatischen Flußkartengenerierung. - Thomas Gern; M. Sielaff; Ernst Dieter Gilles; Paul Levi (AMS, 1997)

Objektverfolgung und Leitlinienplanung für ein autonomes Binnenschiff. - Thomas Gern; U. Kabatek; Ernst Dieter Gilles (AMS, 1998)

Konfliktanalyse auf Binnenwasserstraßen. - Roland Barthel; Jörn Beschnidt; Ernst Dieter Gilles; Thomas Gern (AMS, 1999)

Model predictive versus linear quadratic control for the tracking problem of automatic river navigation. - Anja Wahl; Ernst Dieter Gilles (ECC, 1999)

Control of moving bed chromatographic processes. - Henning Schramm; Stefan Grüner; Achim Kienle; Ernst Dieter Gilles (ECC, 2001)

FluxAnalyzer: A Graphical User Interface for Analyzing Structural Properties and Fluxes in Balanced Metabolic Networks. - Steffen Klamt; Ernst Dieter Gilles (German Conference on Bioinformatics, 2001)

Computation and performance assessment of nonlinear model predictive control. - Rolf Findeisen; Moritz Diehl; Ilknur Disli-Uslu; Stefan Schwarzkopf; Frank Allgöwer; Hans Georg Bock; Johannes P. Schlöder; Ernst Dieter Gilles (CDC, 2002)

"Virtual Waterway" - eine Simulationsumgebung für die Erprobung von Navigationssystemen zur autonomen Führung von Binnenschiffen. - Jörn Beschnidt; Ernst Dieter Gilles (AMS, 2003)

Towards Whole Cell "in Silico" Models for Cellular Systems: Model Set-up and Model Validation. - Andreas Kremling; Katja Bettenbrock; Sophia Fischer; Martin Ginkel; Thomas Sauter; Ernst Dieter Gilles (POSTA, 2003)

Modular Modeling of Cellular Systems with ProMoT/Diva. - Martin Ginkel; Andreas Kremling; Torsten Nutsch; R. Rehner; Ernst Dieter Gilles (Bioinform., 2003)

The systems biology markup language (SBML): a medium for representation and exchange of biochemical network models. - Michael Hucka; Andrew Finney; Herbert M. Sauro; H. Bolouri; John C. Doyle 001; Hiroaki Kitano; Adam P. Arkin; Benjamin J. Bornstein; Dennis Bray; Athel Cornish-Bowden; Autumn A. Cuellar; Serge Dronov; et al. (Bioinform., 2003)

FluxAnalyzer: exploring structure, pathways, and flux distributions in metabolic networks on interactive flux maps. - Steffen Klamt; Jörg Stelling; Martin Ginkel; Ernst Dieter Gilles (Bioinform., 2003)

An Approach for Dividing Models of Biological Reaction Networks into Functional Units. - Michael Ederer; Thomas Sauter; Eric Bullinger; Ernst Dieter Gilles; Frank Allgöwer (Simul., 2003)

Minimal cut sets in biochemical reaction networks. - Steffen Klamt; Ernst Dieter Gilles (Bioinform., 2004)

A model library for membrane reactors implemented in the process modelling tool PROMoT. - Michael Mangold; Martin Ginkel; Ernst Dieter Gilles (Comput. Chem. Eng., 2004)

Workbench zur Modellbildung, Simulation und Analyse zellulärer Systeme (Workbench for Model Set Up, Simulation, and Analysis of Cellular Systems). - Andreas Kremling; Steffen Klamt; Martin Ginkel; Ernst Dieter Gilles (it Inf. Technol., 2004)

Dissecting the puzzle of life: modularization of signal transduction networks. - Julio Saez-Rodriguez; Andreas Kremling; Ernst Dieter Gilles (Comput. Chem. Eng., 2005)

A domain-oriented approach to the reduction of combinatorial complexity in signal transduction networks. - Holger Conzelmann; Julio Saez-Rodriguez; Thomas Sauter; Boris N. Kholodenko; Ernst Dieter Gilles (BMC Bioinform., 2006)

A methodology for the structural and functional analysis of signaling and regulatory networks. - Steffen Klamt; Julio Saez-Rodriguez; Jonathan A. Lindquist; Luca Simeoni; Ernst Dieter Gilles (BMC Bioinform., 2006)

Visual setup of logical models of signaling and regulatory networks with ProMoT. - Julio Saez-Rodriguez; Sebastian Mirschel; Rebecca Hemenway; Steffen Klamt; Ernst Dieter Gilles; Martin Ginkel (BMC Bioinform., 2006)

Signal transduction and regulation in bacteria. - Ernst Dieter Gilles (Comput. Chem. Eng., 2006)

Reduced modeling of signal transduction - a modular approach. - Markus Koschorreck; Holger Conzelmann; Sybille Ebert; Michael Ederer; Ernst Dieter Gilles (BMC Bioinform., 2007)

Structural and functional analysis of cellular networks with CellNetAnalyzer. - Steffen Klamt; Julio Saez-Rodriguez; Ernst Dieter Gilles (BMC Syst. Biol., 2007)

Analysis of global control of Escherichia coli carbohydrate uptake. - Andreas Kremling; Katja Bettenbrock; Ernst Dieter Gilles (BMC Syst. Biol., 2007)

A Logical Model Provides Insights into T Cell Receptor Signaling. - Julio Saez-Rodriguez; Luca Simeoni; Jonathan A. Lindquist; Rebecca Hemenway; Ursula Bommhardt; Boerge Arndt; Utz-Uwe Haus; Robert Weismantel; Ernst Dieter Gilles; Steffen Klamt; Burkhart Schraven (PLoS Comput. Biol., 2007)

Automatic decomposition of kinetic models of signaling networks minimizing the retroactivity among modules. - Julio Saez-Rodriguez; Stefan Gayer; Martin Ginkel; Ernst Dieter Gilles (ECCB, 2008)

Analyse der evolutiven Adaptation am Beispiel einer pyruvat-auxotrophen Escherichia coli-Mutante (Analysis of the Evolutive Adaptation of a Pyruvate-auxotrophic Escherichia coli Mutant). - Ronny Feuer; Michael Ederer; Ernst Dieter Gilles; Georg A. Sprenger; Oliver Sawodny; Thomas Sauter (Autom., 2008)

A feed-forward loop guarantees robust behavior in Escherichia coli carbohydrate uptake. - Andreas Kremling; Katja Bettenbrock; Ernst Dieter Gilles (Bioinform., 2008)

Exact model reduction of combinatorial reaction networks. - Holger Conzelmann; Dirk Fey; Ernst Dieter Gilles (BMC Syst. Biol., 2008)

Host-pathogen systems biology: logical modelling of hepatocyte growth factor and Helicobacter pylori induced c-Met signal transduction. - Raimo Franke; Melanie Müller; Nicole Wundrack; Ernst Dieter Gilles; Steffen Klamt; Thilo Kähne; Michael Naumann (BMC Syst. Biol., 2008)

Mathematical modeling and analysis of insulin clearance in vivo. - Markus Koschorreck; Ernst Dieter Gilles (BMC Syst. Biol., 2008)

ALC: automated reduction of rule-based models. - Markus Koschorreck; Ernst Dieter Gilles (BMC Syst. Biol., 2008)

PROMOT: modular modeling for systems biology. - Sebastian Mirschel; Katrin Steinmetz; Michael Rempel; Martin Ginkel; Ernst Dieter Gilles (Bioinform., 2009)

The Glansdorff-Prigogine stability criterion for biochemical reaction networks. - Michael Ederer; Ernst Dieter Gilles; Oliver Sawodny (Autom., 2011)