
Kummer, Ursula Prof. Dr.Universität HeidelbergHeidelberg
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- Levering, Jennifer (4)
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Publications in heiBIB 
- Loghmani, Seyed Babak: Comparing genome-scale metabolic models of the non-resistant Enterococcus faecalis ATCC 19433 and the multi-resistant Enterococcus faecalis V583 / Seyed Babak Loghmani, Eric Zitzow, Luisa Schwarzmüller, Yvonne Humboldt, Philip Eisenberg, Bernd Kre… , 10 September 2024. - 9 S. : Illustrationen
In: Journal of biotechnology, ISSN 1873-4863. 392(2024), Seite 109-117
DOI: 10.1016/j.jbiotec.2024.07.006
- Bendig, Tamara: The pH-dependent lactose metabolism of Lactobacillus delbrueckii subsp. bulgaricus : an integrative view through a mechanistic computational model / Tamara Bendig, Andreas Ulmer, Laura Luzia, Susanne Müller, Sven Sahle, Frank T. Bergmann, Maren Lösc… , 10 September 2023. - 11 S. : Illustrationen
In: Journal of biotechnology, ISSN 1873-4863. 374(2023) vom: Aug., Seite 90-100
DOI: 10.1016/j.jbiotec.2023.08.001
- Maier, Benjamin D.: Stochastic dynamics of type-I interferon responses / Benjamin D. Maier, Luis U. Aguilera, Sven Sahle, Pascal Mutz, Priyata Kalra, Christopher Dächert, Ra… . - Version 2, October 21, 2022. - 24 S.
In: PLoS Computational Biology, ISSN 1553-7358. 18(2022), 10, Artikel-ID e1010623, Seite 1-24
DOI: 10.1371/journal.pcbi.1010623
- Großeholz, Ruth: Computational modeling and quantitative physiology reveal central parameters for brassinosteroid-regulated early cell physiological processes linked to elongation growth of the Arabidopsis root / Ruth Großeholz, Friederike Wanke, Leander Rohr, Nina Glöckner, Luiselotte Rausch, Stefan Scholl, Ema… , 07 September 2022. - 35 S.
In: eLife, ISSN 2050-084X. 11(2022), Artikel-ID e73031, Seite 1-35
DOI: 10.7554/eLife.73031
- Wehling, Lilija: Spatial modeling reveals nuclear phosphorylation and subcellular shuttling of YAP upon drug-induced liver injury / Lilija Wehling, Liam Keegan, Paula Fernández-Palanca, Reham Hassan, Ahmed Ghallab, Jennifer Schmitt,… , 18 October 2022. - 28 S.
In: eLife, ISSN 2050-084X. 11(2022), Artikel-ID e78540, Seite 1-28
DOI: 10.7554/eLife.78540
- Loghmani, Seyed Babak: Inspecting the solution space of genome-scale metabolic models / Seyed Babak Loghmani, Nadine Veith, Sven Sahle, Frank T. Bergmann, Brett G. Olivier and Ursula Kumme… , 5 January 2022. - 20 S.
In: Metabolites, ISSN 2218-1989. 12(2022), 1, Artikel-ID 43, Seite 1-20
DOI: 10.3390/metabo12010043
- Loghmani, Seyed Babak: All driven by energy demand? : integrative comparison of metabolism of Enterococcus faecalis wildtype and a glutamine synthase mutant / Seyed Babak Loghmani, Eric Zitzow, Gene Ching Chiek Koh, Andreas Ulmer, Nadine Veith, Ruth Großeholz… , 2 March 2022. - 15 S.
In: Microbiology spectrum, ISSN 2165-0497. 10(2022), 2, Artikel-ID e02400-21, Seite 1-15
DOI: 10.1128/spectrum.02400-21
- Holzheu, Pascal: An integrative view on vacuolar pH homeostasis in Arabidopsis thaliana : combining mathematical modeling and experimentation / Pascal Holzheu, Melanie Krebs, Catharina Larasati, Karin Schumacher, and Ursula Kummer, 29 March 2021. - 16 S.
In: The plant journal, ISSN 1365-313X. 106(2021), 6, Seite 1541-1556
DOI: 10.1111/tpj.15251
- Grigaitis, Pranas: Protein cost allocation explains metabolic strategies in Escherichia coli / Pranas Grigaitis, Brett G. Olivier, Tomas Fiedler, Bas Teusink, Ursula Kummer, Nadine Veith, 2021. - 10 S.
In: Journal of biotechnology, ISSN 1873-4863. 327(2021), Seite 54-63
DOI: 10.1016/j.jbiotec.2020.11.003
- Großeholz, Ruth: Specifying the role of BAK1-interacting receptor-like kinase 3 in brassinosteroid signaling / Ruth Großeholz, Anna Feldman‐Salit, Friederike Wanke, Sarina Schulze, Nina Glöckner, Birgit Kemmerli… , April 2020. - 14 S. : Illustrationen
In: Journal of integrative plant biology, ISSN 1744-7909. 62(2020), 4, Seite 456-469
DOI: 10.1111/jipb.12803
- Holzheu, Pascal: Computational systems biology of cellular processes in Arabidopsis thaliana : an overview / Pascal Holzheu, Ursula Kummer, 2020. - 8 Seiten S.
In: Cellular and molecular life sciences, ISSN 1420-9071. 77(2020), 3, Seite 433-440
DOI: 10.1007/s00018-019-03379-9
- Feldman-Salit, Anna: Distribution of control in the sulfur assimilation in Arabidopsis thaliana depends on environmental conditions / Anna Feldman-Salit, Nadine Veith, Markus Wirtz, Rüdiger Hell and Ursula Kummer, 25 January 2019. - 13 S.
In: The new phytologist, ISSN 1469-8137. 222(2019), 3, Seite 1392-1404
DOI: 10.1111/nph.15704
- Kalra, Priyata: Quantitative systems pharmacology of interferon alpha administration : A multi-scale approach / Priyata Kalra, Julian Brandl, Thomas Gaub, Christoph Niederalt, Jörg Lippert, Sven Sahle, Lars Küpfe… , February 13, 2019. - 21 S.
In: PLOS ONE, ISSN 1932-6203. 14(2019,2) Artikel-Nummer e0209587, 21 Seiten
DOI: 10.1371/journal.pone.0209587
- Kudla, Jörg: Advances and current challenges in calcium signaling / Jörg Kudla, Dirk Becker, Erwin Grill, Rainer Hedrich, Michael Hippler, Ursula Kummer, Martin Parnisk… , 14 January 2018. - 18 S.
In: The new phytologist, ISSN 1469-8137. 218(2018), 2, Seite 414-431
DOI: 10.1111/nph.14966
- Aguilera, Luis U.: Robustness of frequency vs. amplitude coding of calcium oscillations during changing temperatures / Luis Aguilera, Frank T. Bergmann, Giovanni Dalmasso, Sinan Elmas, Tobias Elsässer, Ruth Großeholz, P… , 2019. - 8 S.
In: Biophysical chemistry, ISSN 1873-4200. 245(2019), Seite 17-24
DOI: 10.1016/j.bpc.2018.11.003
- Pinna, Federico: A20/TNFAIP3 discriminates tumor necrosis factor (TNF)-induced NF-[kappa]B from JNK pathway activation in hepatocytes / Federico Pinna, Michaela Bissinger, Katharina Beuke, Nicolas Huber, Thomas Longerich, Ursula Kummer,… , 23 August 2017. - 13 S.
In: Frontiers in physiology, ISSN 1664-042X. 8(2017), Artikel-ID 610
DOI: 10.3389/fphys.2017.00610
- Beuke, Katharina: Quantitative and integrative analysis of paracrine hepatocyte activation by nonparenchymal cells upon lipopolysaccharide induction / Katharina Beuke, Frank A. Schildberg, Federico Pinna, Ute Albrecht, Roman Liebe, Michaela Bissinger,… , 21 January 2017. - 18 S.
In: The FEBS journal, ISSN 1742-4658. 284(2017), 5, Seite 796-813
DOI: 10.1111/febs.14022
- Bergmann, Frank T.: COPASI and its applications in biotechnology / Frank T. Bergmann, Stefan Hoops, Brian Klahn, Ursula Kummer, Pedro Mendes, Jürgen Pahle, Sven Sahle, 24 June 2017. - 6 S.
In: Journal of biotechnology, ISSN 1873-4863. 261(2017), Seite 215-220
DOI: 10.1016/j.jbiotec.2017.06.1200
- Aguilera, Luis U.: 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 / Luis U. Aguilera, Christoph Zimmer and Ursula Kummer. -
London: BioMed Central, 2017. - 1 Online-Ressource (14 Seiten)
DOI: 10.1186/s12918-017-0406-4
- Levering, Jennifer: Genome-scale reconstruction of the streptococcus pyogenes M49 metabolic network reveals growth requirements and indicates potential drug targets / Jennifer Levering, Tomas Fiedler, Antje Sieg, Koen W.A. van Grinsven, Silvio Hering, Nadine Veith, B… , 10 March 2016. - 13 S.
In: Journal of biotechnology, ISSN 1873-4863. 232(2016), Seite 25-37
DOI: 10.1016/j.jbiotec.2016.01.035
- Willems, Peter H. G. M.: PKC-mediated inhibitory feedback of the cholecystokinin 1 receptor controls the shape of oscillatory Ca2+ signals / Peter H.G.M. Willems, Jürgen Pahle, Xenia L. Stalpers, Douaa Mugahid, Alexander Nikolaew, Werner J.H… . - 15 S.
In: The FEBS journal, ISSN 1742-4658. 282(2015), 11, S. 2187-2201
DOI: 10.1111/febs.13267
- Kesten Weth, Duygu: A new model for the aerobic metabolism of yeast allows the detailed analysis of the metabolic regulation during glucose pulse / Duygu Kesten, Ursula Kummer, Sven Sahle, Katrin Hübner. - 18 S.
In: Biophysical chemistry, ISSN 1873-4200. 206(2015), S. 40-57
DOI: 10.1016/j.bpc.2015.06.010
- Veith, Nadine: Using a genome-scale metabolic model of enterococcus faecalis V583 to assess amino acid uptake and its impact on central metabolism / Nadine Veith, Margrete Solheim, Koen W.A. van Grinsven, Brett G. Olivier, Jennifer Levering, Ruth Gr… , 2015. - 12 S.
In: Applied and environmental microbiology, ISSN 1098-5336. 81(2015), 5, Seite 1622-1633
DOI: 10.1128/AEM.03279-14
- Hübner, Katrin: Ca2 + dynamics correlates with phenotype and function in primary human neutrophils / Katrin Hübner, Irina Surovtsova, Klaus Yserentant, Maria Hänsch, Ursula Kummer. - 10 S.
In: Biophysical chemistry, ISSN 1873-4200. 184(2013), S. 116-125
DOI: 10.1016/j.bpc.2013.09.006
- Veith, Nadine: Organism-adapted specificity of the allosteric regulation of pyruvate kinase in lactic acid bacteria / Nadine Veith, Anna Feldman-Salit, Vlad Cojocaru, Stefan Henrich, Ursula Kummer, Rebecca C. Wade, July 25, 2013. - 15 S.
In: PLOS ONE, ISSN 1932-6203. 9(2013,7) Artikel-Nummer e1003159, 15 Seiten
DOI: 10.1371/journal.pcbi.1003159
- Kent, Edward: What can we learn from global sensitivity analysis of biochemical systems? / Edward Kent, Stefan Neumann, Ursula Kummer, Pedro Mendes
In: PLOS ONE, ISSN 1932-6203. 8(2013,11) Artikel-Nummer e79244, 13 Seiten
DOI: 10.1371/journal.pone.0079244
- Levering, Jennifer: Glycolytic oscillations in a model of a lactic acid bacterium metabolism / Jennifer Levering, Ursula Kummer, Konrad Becker, Sven Sahle, 2013. - 8 S.
In: Biophysical chemistry, ISSN 1873-4200. 172(2013), Seite 53-60
DOI: 10.1016/j.bpc.2012.11.002
- Pinna, Federico: A systems biology study on NF[kappa]B signaling in primary mouse hepatocytes / Federico Pinna, Sven Sahle, Katharina Beuke, Michaela Bissinger, Selcan Tuncay, Lorenza D'Alessandro… , 31. December 2012. - 14 S.
In: Frontiers in physiology, ISSN 1664-042X. 3(2012), Artikel-Nummer 466, 14 Seiten
DOI: 10.3389/fphys.2012.00466
- Wegner, Katja: Dynamics and feedback loops in the transforming growth factor β signaling pathway / Katja Wegner, Anastasia Bachmann, Jan-Ulrich Schad, Philippe Lucarelli, Sven Sahle, Peter Nickel, Ch… , 2012. - 13 S.
In: Biophysical chemistry, ISSN 1873-4200. 162(2012), Seite 22-34
DOI: 10.1016/j.bpc.2011.12.003
- Sahle, Sven: International Conference on Systems Biology 2011 : introduction / Sven Sahle, Ursula Kummer. - 1 S.
In: The FEBS journal, ISSN 1742-4658. 279(2012), 18, Special issue, S. 3289-3289
DOI: 10.1111/j.1742-4658.2012.08724.x
- Surovtsova, Irina: Simplification of biochemical models : a general approach based on the analysis of the impact of individual species and reactions on the systems dynamics / Irina Surovtsova, Natalia Simus, Katrin Hübner, Sven Sahle and Ursula Kummer
In: BMC systems biology, ISSN 1752-0509. 6(2012) Artikel-Nummer 14, 16 Seiten
DOI: 10.1186/1752-0509-6-14
- Levering, Jennifer: Role of phosphate in the central metabolism of two lactic acid bacteria : a comparative systems biology approach / Jennifer Levering, Mark W.J.M. Musters, Martijn Bekker, Domenico Bellomo,Tomas Fiedler, Willem M. de… , 12 March 2012. - 17 S.
In: The FEBS journal, ISSN 1742-4658. 279(2012), 7, Seite 1274-1290
DOI: 10.1111/j.1742-4658.2012.08523.x
- Surovtsova, Irina: Simplification of biochemical models : a general approach based on the analysis of the impact of individual species and reactions on the systems dynamics / Irina Surovtsova, Natalia Simus, Katrin Hübner, Sven Sahle and Ursula Kummer. -
London: BioMed Central, 2016. - 1 Online-Ressource (16 Seiten)
DOI: 10.1186/1752-0509-6-14
- Hübner, Katrin: Applications and trends in systems biology in biochemistry / Katrin Hübner, Sven Sahle and Ursula Kummer. - 91 S.
In: The FEBS journal, ISSN 1742-4658. 278(2011), 16, S. 2767-2857
DOI: 10.1111/j.1742-4658.2011.08217.x
- Schweizer, Nadja: Amplitude-encoded calcium oscillations in fish cells / Schweizer, Nadja ; Kummer, Ursula ; Hercht, Hendrik ; Braunbeck, Thomas. - 9 S.
In: Biophysical chemistry, ISSN 1873-4200. 159(2011), 2/3, S. 294-302
DOI: 10.1016/j.bpc.2011.08.002
- Klipp, Edda: Biochemical network-based drug-target prediction / Edda Klipp, Rebecca C Wade and Ursula Kummer, 4th June 2010. - 6 S.
In: Current opinion in biotechnology, ISSN 1879-0429. 21(2010), 4, Seite 511-516
DOI: 10.1016/j.copbio.2010.05.004
- Maiwald, Tim: Combining theoretical analysis and experimental data generation reveals IRF9 as a crucial factor for accelerating interferon α-induced early antiviral signalling / Tim Maiwald, Annette Schneider, Hauke Busch, Sven Sahle, Norbert Gretz, Thomas S. Weiss, Ursula Kumm… , 21. October 2010. - 14 S.
In: The FEBS journal, ISSN 1742-4658. 277(2010), 22, Seite 4741-4754
DOI: 10.1111/j.1742-4658.2010.07880.x
- Andersen, Ann Zahle: The metabolic pH response in Lactococcus lactis : an integrative experimental and modelling approach / Ann Zahle Andersen, Ana Lúcia Carvalho, Ana Rute Neves, Helena Santos, Ursula Kummer, Lars Folke Ols… . - 13 S.
In: Computational biology and chemistry. 33(2009), 1, S. 71-83
DOI: 10.1016/j.compbiolchem.2008.08.001
- Surovtsova, Irina: Accessible methods for the dynamic time-scale decomposition of biochemical systems / Irina Surovtsova, Natalia Simus, Thomas Lorenz, Artjom König, Sven Sahle and Ursula Kummer. - 8 S.
In: Bioinformatics, ISSN 1367-4811. 25(2009), 21, S. 2816-2823
DOI: 10.1093/bioinformatics/btp451
- Pahle, Jürgen: Information transfer in signaling pathways : a study using coupled simulated and experimental data / Jürgen Pahle, Anne K. Green, C. Jane Dixon and Ursula Kummer
In: BMC bioinformatics, ISSN 1471-2105. 9(2008) Artikel-Nummer 130, 14 Seiten
DOI: 10.1186/1471-2105-9-139
- Sahle, Sven: A new strategy for assessing sensitivities in biochemical models / by Sven Sahle, Pedro Mendes, Stefan Hoops and Ursula Kummer. - 13 S.
In: Philosophical transactions of the Royal Society, ISSN 1471-2962. 366(2008), S. 3619-3631
DOI: 10.1098/rsta.2008.0108
- Weidemann, Andreas: SYCAMORE : a systems biology computational analysis and modeling research environment / Andreas Weidemann, Stefan Richter, Matthias Stein, Sven Sahle, Ralph Gauges, Razif Gabdoulline, Irin… , April 23, 2008. - 2 S.
In: Bioinformatics, ISSN 1367-4811. 24(2008), 12, Seite 1463-1464
DOI: 10.1093/bioinformatics/btn207
- Kummer, Ursula: Elevated glucose concentrations promote receptor-independent activation of adherent human neutrophils : an experimental and computational approach / Ursula Kummer, Jürgen Zobeley, Jens Christian Brasen, Ryan Fahmy, Andrei L. Kindzelskii, Aaron R. Pe… . - 11 S.
In: Biophysical journal, ISSN 1542-0086. 92(2007), 7, S. 2597-2607
DOI: 10.1529/biophysj.106.086769
- Hoops, Stefan: COPASI : a complex pathway simulator$da systems biology computational analysis and modeling research environment / Stefan Hoops, Sven Sahle, Ralph Gauges, Christine Lee, Jürgen Pahle, Natalia Simus, Mudita Singhal, … , 10 October 2006. - 8 S.
In: Bioinformatics, ISSN 1367-4811. 22(2006), 24, Seite 3067-3074
DOI: 10.1093/bioinformatics/btl485
- Wegner, Katja: A new dynamical layout algorithm for complex biochemical reaction networks / Katja Wegner and Ursula Kummer
In: BMC bioinformatics, ISSN 1471-2105. 6(2005) Art.-Nr. 212, 12 S.
DOI: 10.1186/1471-2105-6-212
- Kummer, Ursula: Transition from stochastic to deterministic behavior in calcium oscillations / Ursula Kummer, Borut Krajnc, Jürgen Pahle, Anne K. Green, C. Jane Dixon, Marko Marhl. - 9 S.
In: Biophysical journal, ISSN 1542-0086. 89(2005), 3, S. 1603-1611
DOI: 10.1529/biophysj.104.057216
- Andersen, Ann Zahle: On the encoding and decoding of calcium signals in hepatocytes / Ann Zahle Larsen, Lars Folke Olsen, Ursula Kummer. - 17 S.
In: Biophysical chemistry, ISSN 1873-4200. 107(2004), 1, S. 83-99
DOI: 10.1016/j.bpc.2003.08.010
- Gabdoulline, Razif: Concerted simulations reveal how peroxidase compound III formation results in cellular oscillations / Razif R. Gabdoulline, Ursula Kummer, Lars F. Olsen, Rebecca C. Wade. - 8 S.
In: Biophysical journal, ISSN 1542-0086. 85(2003), 3, S. 1421-1428
DOI: 10.1016/S0006-3495(03)74574-3
- Olsen, Lars F.: A model of the oscillatory metabolism of activated neutrophils / Lars F. Olsen, Ursula Kummer, Andrei L. Kindzelskii, Howard R. Petty. - 13 S.
In: Biophysical journal, ISSN 1542-0086. 84(2003), 1, S. 69-81
DOI: 10.1016/S0006-3495(03)74833-4
