Bioinformatics and Computational Biochemistry

Visualisation of Biochemical Network Simulations with SimWiz | IEE Systems Biol., 1, 184-189
Ursula Rost, Ursula Kummer
CombAlign: A Protein Sequence Alignment Algorithm Considering Recombinations | In Silico Biol., 4, 0021
On the Encoding and Decoding of Calcium Signals in Hepatocytes | Biophys. Chem., 107, 83-99
Ann Zahle Larsen, Lars Folke Olsen, Ursula Kummer

2003:

Small-Worlds in RNA | Nucl. Acid Res., 31, 1108-1117 Stefan Wuchty
Information Processing in Calcium Signal Transduction | Lecture Notes in Physics, Understanding Calcium Dynamics, Springer, ISBN 3-540-40236-5, 153-178
Ann Zahle Larsen, Ursula Kummer
From Molecular Structure to Chemical Oscillations by Combining Simulation Techniques | Biophys. J., 85, 1421-1428
Razif G. Gabdoulline, Ursula Kummer, Lars Folke Olsen, Rebecca C. Wade
Mechanism of Protection of Peroxidase Activity by Oscillatory Dynamics | Eur. J. Biochem., 270, 2796-2804
Lars Folke Olsen, Marcus J.B. Hauser, Ursula Kummer
On the Mechanism of Melatonin-induced Oscillations in the Peroxidase-Oxidase Reaction | Arch. Biochem. Biophys., 410, 287-295
Lars Folke Olsen, Anita Lunding, Ursula Kummer
A Model of the Oscillatory Metabolism of Activated Neutrophils | Biophys. J., 84, 69-81
Lars Folke Olsen, Ursula Kummer, Andreii Kindezelskii, Howard R. Petty

2002:

Fold-Hopf Bursting in a Model for Calcium Signal Transduction | Z. Phys. Chem., 216, 487-497
Lutz Brusch, Wolfram Lorenz, Michal Or-Guil, Markus Bär, Ursula Kummer
Interaction and Domain Networks of Yeast | Proteomics, 2, 1715-1723 Stefan Wuchty

2001:

TreeWiz - Interactive Exploration of Huge Trees | Bioinformatics, 18, 1-6
Ursula Rost, Erich Bornberg-Bauer
STODE - Automatic Stochastic Simulation of Systems Described by Differential Equations | Proceedings of the 2nd International Conference on Systems Biology (Yi, Hucka, Morohashi, Kitano, eds.), Omnipress, Madison, USA, 326-333
Ursula Kummer
Mitochondria Regulate the Amplitude of Simple and Complex Calcium Oscillations | J. Biophys. Chem., in press
Vladimir Grubelnik, Ann Zahle Larsen, Ursula Kummer, Lars F. Olsen, Marko Marhl
Oscillatory Dynamics Protect Enzymes and Possibly Cells Against Toxic Substances | Faraday Discussions, 120, 215-227
Marcus J.B. Hauser, Ursula Kummer, Ann Z. Larsen, Lars F. Olsen

2000:

Switching from Simple to Complex Oscillations in Calcium-Signalling | Biophys. J., 79, 1188-1195
Ursula Kummer, Lars F. Olsen, C. Jane Dixon, Anne K. Green, Erich Bornberg-Bauer, Gerold Baier
Robustness in a model for calcium signal transduction dynamics | Proceedings of BTK2000 - Animating the Cellular Map (Hofmeyr, Rohwer, Snoep, eds.), Stellenbosch University Press, Stellenbosch, 171-177
Ursula Kummer, Gerold Baier, Lars F. Olsen

1999:

Dynamics and Information Processing in Biochemical Pathways | Proceedings of the Workshop on Computation of Biochemical Pathways and Genetic Networks (Bornberg-Bauer, DeBeuckelaer, Kummer, Rost, eds.), Logos, Berlin, 123-134
Lars F. Olsen, Ursula Kummer, Anne K. Green, C. Jane Dixon, Marcus J.B. Hauser
An Electrochemically Induced Dynamic Instability | J. Phys. Chem., 103, 33-37
Gerold Baier, Ursula Kummer, Sven Sahle

1998:

A Dynamic Enzymatic Switch | J. Phys. Chem. , 102, 5892-5897
Ursula Kummer, Gerold Baier