Ursula Kummer

19 papers Misc 2Journal 16Unranked 1
YearRankTypeTitle / Venue / Authors
2025 J jnl
A comparative computational analysis of IFN-alpha pharmacokinetics and its induced cellular response in mice and humans.
PLoS Comput. Biol.
Priyata Kalra, Bastian Kister, Rebekka Fendt, Mario Köster, Julia Pulverer, Sven Sahle, Lars Kuepfer, Ursula Kummer
2023 — conf
Embedding the de.NBI Cloud in the National Research Data Infrastructure Activities.
CoRDI
Nils Hoffmann, Irena Maus, Sebastian Beier, Peter Belmann, Jan Krüger, Andreas Tauch, Alexander Goesmann, Roland Eils, Peer Bork, Oliver Kohlbacher, Ursula Kummer, Rolf Backofen, Ivo Buchhalter, Alexander Sczyrba
2022 J jnl
Stochastic dynamics of Type-I interferon responses.
PLoS Comput. Biol.
Benjamin D. Maier, Luis U. Aguilera, Sven Sahle, Pascal Mutz, Priyata Kalra, Christopher Dächert, Ralf Bartenschlager, Marco Binder, Ursula Kummer
2021 J jnl
Impact of explicit area scaling on kinetic models involving multiple compartments.
BMC Bioinform.
Pascal Holzheu, Ruth Großeholz, Ursula Kummer
2017 J jnl
A new efficient approach to fit stochastic models on the basis of high-throughput experimental data using a model of IRF7 gene expression as case study.
BMC Syst. Biol.
Luis U. Aguilera, Christoph Zimmer, Ursula Kummer
2013 J jnl
Organism-Adapted Specificity of the Allosteric Regulation of Pyruvate Kinase in Lactic Acid Bacteria.
PLoS Comput. Biol.
Nadine Veith, Anna Feldman-Salit, Vlad Cojocaru, Stefan Henrich, Ursula Kummer, Rebecca C. Wade
2012 J jnl
Simplification of biochemical models: a general approach based on the analysis of the impact of individual species and reactions on the systems dynamics.
BMC Syst. Biol.
Irina Surovtsova, Natalia Simus, Katrin Hübner, Sven Sahle, Ursula Kummer
2009 J jnl
Accessible methods for the dynamic time-scale decomposition of biochemical systems.
Bioinform.
Irina Surovtsova, Natalia Simus, Thomas Lorenz, Artjom König, Sven Sahle, Ursula Kummer
2009 J jnl
The metabolic pH response in Lactococcus lactis: An integrative experimental and modelling approach.
Comput. Biol. Chem.
Ann Zahle Andersen, Ana Lúcia Carvalho, Ana Rute Neves, Helena Santos, Ursula Kummer, Lars Folke Olsen
2008 J jnl
Information transfer in signaling pathways: A study using coupled simulated and experimental data.
BMC Bioinform.
Jürgen Pahle, Anne K. Green, C. Jane Dixon, Ursula Kummer
2008 J jnl
SYCAMORE - a systems biology computational analysis and modeling research environment.
Bioinform.
Andreas Weidemann, Stefan Richter, Matthias Stein, Sven Sahle, Ralph Gauges, Razif R. Gabdoulline, Irina Surovtsova, Nils Semmelrock, Bruno Besson, Isabel Rojas, Rebecca C. Wade, Ursula Kummer
2007 J jnl
Usage of Reaction Kinetics Data Stored in Databases - A Modeler's Point of View.
Silico Biol.
Ursula Kummer
2006 Misc conf
Approaches to complexity reduction in a systems biology research environment (SYCAMORE).
WSC
Irina Surovtsova, Sven Sahle, Jürgen Pahle, Ursula Kummer
2006 J jnl
COPASI - a COmplex PAthway SImulator.
Bioinform.
Stefan Hoops, Sven Sahle, Ralph Gauges, Christine Lee, Jürgen Pahle, Natalia Simus, Mudita Singhal, Liang Xu, Pedro Mendes, Ursula Kummer
2006 Misc conf
Simulation of biochemical networks using COPASI: a complex pathway simulator.
WSC
Sven Sahle, Ralph Gauges, Jürgen Pahle, Natalia Simus, Ursula Kummer, Stefan Hoops, Christine Lee, Mudita Singhal, Liang Xu, Pedro Mendes
2005 J jnl
A New Time-Dependent Complexity Reduction Method for Biochemical Systems.
Trans. Comp. Sys. Biology
Jürgen Zobeley, Dirk Lebiedz, Julia Kammerer, Anton Ishmurzin, Ursula Kummer
2005 J jnl
A new dynamical layout algorithm for complex biochemical reaction networks.
BMC Bioinform.
Katja Wegner, Ursula Kummer
2004 J jnl
combAlign: A protein sequence comparison algorithm considering recombinations.
Silico Biol.
Katja Wegner, Stephan Jansen, Stefan Wuchty, Ralph Gauges, Ursula Kummer
2003 J jnl
The systems biology markup language (SBML): a medium for representation and exchange of biochemical network models.
Bioinform.
Michael Hucka, Andrew Finney, Herbert M. Sauro, H. Bolouri, John C. Doyle, Hiroaki Kitano, Adam P. Arkin, Benjamin J. Bornstein, Dennis Bray, Athel Cornish-Bowden, Autumn A. Cuellar, Serge Dronov, Ernst Dieter Gilles, Martin Ginkel, Victoria Gor, Igor Goryanin, W. J. Hedley, T. Charles Hodgman, Jan-Hendrik S. Hofmeyr, Peter J. Hunter, Nick S. Juty, J. L. Kasberger, Andreas Kremling, Ursula Kummer, Nicolas Le Novère, Leslie M. Loew, D. Lucio, Pedro Mendes, E. Minch, Eric Mjolsness, Yoichi Nakayama, M. R. Nelson, Poul M. F. Nielsen, T. Sakurada, James C. Schaff, Bruce E. Shapiro, Thomas Simon Shimizu, Hugh D. Spence, Jörg Stelling, Koichi Takahashi, Masaru Tomita, J. Wagner, J. Wang