OA Publications of the Max Planck Institute

Journal Article

Benner, P.; Schneider, J.: Uncertainty Quantification for Maxwell's Equations Using Stochastic Collocation and Model Order Reduction. International Journal for Uncertainty Quantification 5 (3), pp. 195 - 208 (2015)

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Journal Article

Bosch, J.; Stoll, M.: A fractional inpainting model based on the vector-valued Cahn–Hilliard equation. SIAM Journal on Imaging Sciences 8 (4), pp. 2352 - 2382 (2015)

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Journal Article

D`Allessandro, L. A.; Samaga, R.; Maiwald, T.; Rho, S.-H.; Bonefas, S.; Raue, A.; Iwamoto, N.; Kienast, A.; Waldow, K.; Meyer, R. et al.; Schilling, M.; Timmer, J.; Klamt, S.; Klingmüller, U.: Disentangling the Complexity of HGF Signaling by Combining Qualitative and Quantitative Modeling. PLoS Computational Biology 11 (4), e1004192 (2015)

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Journal Article

Dolgov, S.; Khoromskij, B. N.; Litvinenko, A.; Matthies, H. G.: Polynomial Chaos Expansion of Random Coefficients and the Solution of Stochastic Partial Differential Equations in the Tensor Train Format. SIAM/ASA Journal on Uncertainty Quantification 3 (1), pp. 1109 - 1135 (2015)

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Journal Article

Dolgov, S. V.; Tyrtyshnikov, E. E.: On evolution of solution times for the chemical master equation of the enzymatic futile cycle. Russian Journal of Numerical Analysis and Mathematical Modelling 30 (1), pp. 37 - 42 (2015)

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Journal Article

Erdrich, P.; Steuer, R.; Klamt, S.: An algorithm for the reduction of genome-scale metabolic network models to meaningful core models. BMC Systems Biology 9, 48 (2015)

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Journal Article

Flassig, R.; Migal, I.; van der Zalm, E.; Rihko-Struckmann, L.; Sundmacher, K.: Rational selection of experimental readout and intervention sites for reducing uncertainties in computational model predictions. BMC Bioinformatics 16, 13 (2015)

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Journal Article

Gallo Ramirez, L. E.; Nikolay, A.; Genzel, Y.; Reichl, U.: Bioreactor concepts for cell culture-based viral vaccine production. Expert Review of Vaccines 14 (9), pp. 1181 - 1191 (2015)

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Journal Article

Genzel, Y.: Designing cell lines for viral vaccine production: Where do we stand? Biotechnology Journal 10 (5), pp. 728 - 740 (2015)

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Journal Article

Hädicke, O.; Bettenbrock, K.; Klamt, S.: Enforced ATP futile cycling increases specific productivity and yield of anaerobic lactate production in Escherichia coli. Biotechnology and Bioengineering 112 (10), pp. 2195 - 2199 (2015)

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Journal Article

Hädicke, O.; Klamt, S.: Manipulation of the ATP pool as a tool for metabolic engineering. Biochemical Society Transactions (London) 43 (6), pp. 1140 - 1145 (2015)

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Journal Article

Heldt, F. S.; Kupke, S. Y.; Dorl, S.; Frensing, T.; Reichl, U.: Single-cell analysis and stochastic modelling unveil large cell-to-cell variability in influenza A virus infection. Nature Communications 6, 8938 (2015)

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Journal Article

Heyer, R.; Kohrs, F.; Reichl, U.; Benndorf, D.: Metaproteomics of complex microbial communities in biogas plants. Microbial Biotechnology 8 (5), pp. 749 - 763 (2015)

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Journal Article

Hossain, M.-S.; Uddin, M. M.: Reduce Order Modelling of Power System Models Using Interpolatory Projections Technique. International Journal of Modeling and Optimization 5 (3), pp. 228 - 233 (2015)

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Journal Article

Hylton, R.; Tizzard, G. J.; Threlfall, T. L.; Ellis, A. L.; Coles, S. J.; Seaton, C. C.; Schulze, E.; Lorenz, H.; Seidel-Morgenstern, A.; Stein, M. et al.; Price, S. L.: Are the crystal structures of enantiopure and racemic mandelic acids determined by kinetics or thermodynamics? Journal of the American Chemical Society 137 (34), pp. 11095 - 11104 (2015)

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Journal Article

Karst, F.; Maestri, M.; Freund, H.; Sundmacher, K.: Reduction of Microkinetic Reaction Models for Reactor Optimization exemplified for Hydrogen Production from Methane. Chemical Engineering Journal 281, pp. 981 - 994 (2015)

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Journal Article

Karsten, C. B.; Büttner, F. F. R.; Cajic, S.; Nehlmeier, I.; Neumann, B.; Klippert, A.; Sauermann, U.; Reichl, U.; Gerardy-Schahn, R.; Rapp, E. et al.; Stahl-Hennig, C.; Pöhlmann, S.: Exclusive Decoration of Simian Immunodeficiency Virus Env with High-Mannose Type N-Glycans Is Not Compatible with Mucosal Transmission in Rhesus Macaques. Journal of Virology 89 (22), pp. 11727 - 11733 (2015)

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Journal Article

Khoromskaia, V.; Khoromskij, B. N.: Tensor numerical methods in quantum chemistry: from Hartree–Fock to excitation energies. Physical Chemistry Chemical Physics 17 (47), pp. 31491 - 31509 (2015)

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Journal Article

Kohrs, F.; Wolter, S.; Benndorf, D.; Heyer, R.; Hoffmann, M.; Rapp, E.; Bremges, A.; Sczyrba, A.; Schlüter, A.; Reichl, U.: Fractionation of biogas plant sludge material improves metaproteomic characterization to investigate metabolic activity of microbial communities. Proteomics 15 (20), pp. 3585 - 3589 (2015)

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Journal Article

Lang, N.; Saak, J.; Benner, P.; Ihlenfeldt, S.; Nestmann, S.; Schädlich, K.: Towards the Identification of Heat Induction in Chip Removing Processes via an Optimal Control Approach. Production Engineering: Development & Research 9 (3), pp. 343 - 349 (2015)

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Journal Article

Liang, X.; Li, R.-C.: The Hyperbolic Quadratic Eigenvalue Problem. Forum of Mathematics, Sigma 3, e13 (2015)

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Journal Article

McBride, K.; Sundmacher, K.: Data driven conceptual process design for the hydroformylation of 1-dodecene in a thermomorphic solvent system. Industrial & Engineering Chemistry Research 54 (26), pp. 6761 - 6771 (2015)

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Journal Article

Michailidou, M.; Melas, I.; Messinis, D.; Klamt, S.; Alexopoulos, L.; Kolisis, F.; Loutrari, H.: Network-Based Analysis of Nutraceuticals in Human Hepatocellular Carcinomas Reveals Mechanisms of Chemopreventive Action. CPT: Pharmacometrics & Systems Pharmacology 4 (6), pp. 350 - 361 (2015)

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Journal Article

Mueller, S.; Huard, J.; Waldow, K.; Huang, X.; D'Alessandro, L.; Bohl, S.; Börner, K.; Grimm, D.; Klamt, S.; Klingmüller, U. et al.; Schilling, M.: T160‐phosphorylated CDK2 defines threshold for HGF‐dependent proliferation in primary hepatocytes. Molecular Systems Biology 11, 795 (2015)

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Journal Article

Püttker, S.; Kohrs, F.; Benndorf, D.; Heyer, R.; Rapp, E.; Reichl, U.: Metaproteomics of activated sludge from a wastewater treatment plant- a pilot study. Proteomics 15 (20), pp. 3596 - 3601 (2015)

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Journal Article

Serve, A.; Pieler, M.; Benndorf, D.; Rapp, E.; Wolff, M. W.; Reichl, U.: Comparison of Influenza Virus Particle Purification Using Magnetic Sulfated Cellulose Particles with an Established Centrifugation Method for Analytics. Analytical Chemistry 87 (21), pp. 10708 - 10711 (2015)

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Journal Article

Stoll, M.; Bosch, J.: Preconditioning for vector-valued Cahn-Hilliard equations. SIAM Journal on Scientific Computing 37 (5), pp. S216 - S243 (2015)

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Journal Article

Stoll, M.; Breiten, T.: A low-rank in time approach to PDE-constrained optimization. SIAM Journal on Scientific Computing 37 (1), pp. B1 - B29 (2015)

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Journal Article

Thiele, S.; Cerone, L.; Saez-Rodriguez, J.; Siegel, A.; Guciolowski, C.; Klamt, S.: Extended notions of sign consistency to relate experimental data to signaling and regulatory network topologies. BMC Bioinformatics 16 (1), 345 (2015)

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Journal Article

Varničić, M.; Vidaković-Koch, T.; Sundmacher, K.: Gluconic Acid Synthesis in an Electroenzymatic Reactor. Electrochimica Acta 174, pp. 480 - 487 (2015)

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Journal Article

Yazdi, S.; Durdagi, S.; Naumann, M.; Stein, M.: Structural modeling of the N-terminal signal–receiving domain of IκBα. frontiers in Molecular Biosciences 2, 32 (2015)

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supplementary-material

Journal Article

Zhang, Y.; Feng, L.; Li, S.; Benner, P.: An Efficient Output Error Estimation for Model Order Reduction of Parametrized Evolution Equations. SIAM Journal on Scientific Computing 37 (6), pp. B910 - B936 (2015)

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Journal Article

Zuyev, A.; Sawodny, O.: Modelling and Control of a Shell Structure Based on a Finite Dimensional Variational Formulation. Mathematical and Computer Modelling of Dynamical Systems: Methods, Tools and Applications in Engineering and Related Sciences 21 (6), pp. 591 - 612 (2015)

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2014

Journal Article

Benner, P.; Ezzati, P.; Quintana-Ortí, E. S.; Remón, A.: Trading Off Performance for Energy in Linear Algebra Operations with Applications in Control Theory. CLEI Electronic Journal 17 (1), 3, 12 pages (2014)

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Journal Article

Benner, P.; Saak, J.; Schieweck, F.; Skrzypacz, P.; Weichelt, H. K.: A Non-Conforming Composite Quadrilateral Finite Element Pair for Feedback Stabilization of the Stokes Equations. Journal of Numerical Mathematics 22 (3), pp. 191 - 220 (2014)

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Journal Article

Benner, P.; Stykel, T.: Numerical Solution of Projected Algebraic Riccati Equations. SIAM Journal on Numerical Analysis 52 (2), pp. 581 - 600 (2014)

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Journal Article

Bosch, J.; Kay, D.; Stoll, M.; Wathen, A. J.: Fast Solvers for Cahn-Hilliard Inpainting. SIAM Journal on Imaging Sciences 7 (1), pp. 67 - 97 (2014)

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Journal Article

Ederer, M.; Steinsiek, S.; Stagge, S.; Rolfe, M. D.; TerBeek, A.; Knies, D.; Teixeira de Mattos, M. J.; Sauter , T.; Green , J.; Poole, R. K. et al.; Bettenbrock, K.; Sawodny, O.: A mathematical model of metabolism and regulation provides a systems-level view of how Escherichia coli responds to oxygen. Frontiers in Microbiology 5, 124 (2014)

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Journal Article

Edler, E.; Stein, M.: Spin‐State‐Dependent Properties of an Iron(III) Hydrogenase Mimic. European Journal of Inorganic Chemistry 2014 (22), pp. 3587 - 3599 (2014)

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Journal Article

Erdrich, P.; Knoop, H.; Steuer, R.; Klamt, S.: Cyanobacterial biofuels: new insights and strain design strategies revealed by computational modeling. Microbial Cell Factories 13, 128 (2014)

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Journal Article

Flassig, R.; Maubach, G.; Täger, C.; Sundmacher, K.; Naumann, M.: Experimental design, validation and computational modeling uncover DNA damage sensing by DNA-PK and ATM. Molecular BioSystems 10 (7), pp. 1978 - 1986 (2014)

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Journal Article

Frensing, T.; Pflugmacher, A.; Bachmann, M.; Peschel, B.; Reichl, U.: Impact of defective interfering particles on virus replication and antiviral host response in cell culture-based influenza vaccine production. Applied Microbiology and Biotechnology 98 (21), pp. 8999 - 9008 (2014)

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Journal Article

Gilmore, K.; Kopetzki, D.; Lee, J. W.; Horvath, Z.; McQuade, D. T.; Seidel-Morgenstern, A.; Seeberger, P. H.: Continuous synthesis of artemisinin-derived medicines. Chemical Communications 50 (84), pp. 12652 - 12655 (2014)

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Journal Article

Henkel, S.; Beek, A. T.; Steinsiek, S.; Stagge, S.; Bettenbrock, K.; M. Joost Teixeira de Mattos, M.; Sawodny, O.; Ederer, M.; Sauter, T.: Basic Regulatory Principles of Escherichia coli's Electron Transport Chain for Varying Oxygen Conditions. PLoS One 9 (9), e107640 (2014)

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Journal Article

Hofmann, S.; Raisch, J.: Inversionsbasierte optimale Steuerung von Batch-Kristallisationsprozessen zur Enantiomertrennung. At-Automatisierungstechnik 62 (2), pp. 78 - 91 (2014)

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Journal Article

Huffman, J. E.; Pucic-Bakovic, M.; Klaric, L.; Hennig, R.; Selman, M. H.J.; Vuckovic, F.; Novokmet, M.; Kristic, J.; Borowiak, M.; Muth, T. et al.; Polasek, O.; Razdorov, G.; Gornik, O.; Plomp, R.; Theodorarou, E.; Wright, A. F.; Rudan, I.; Hayward, C.; Campbell, H.; Deelder, A. M.; Reichl, U.; Aulchenko, Y. S.; Rapp, E.; Wuhrer , M.; Lauc , G.: Comparative Performance of Four Methods for High-throughput Glycosylation Analysis of Immunoglobulin G in Genetic and Epidemiological Research. Molecular and Cellular Proteomics 13 (6), pp. 1598 - 1610 (2014)

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Journal Article

Kamp von, A.; Klamt, S.: Enumeration of Smallest Intervention Strategies in Genome-Scale Metabolic Networks. PLoS Computational Biology 10 (1), e1003378 (2014)

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Journal Article

Kaur-Ghumaan, S.; Stein, M.: [NiFe] hydrogenases: how close do structural and functional mimics approach the active site? Dalton Transactions 43 (25), pp. 9392 - 9405 (2014)

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Journal Article

Lang, N.; Saak, J.; Benner, P.: Model Order Reduction for Systems with Moving Loads. at - Automatisierungstechnik 62 (7), pp. 512 - 522 (2014)

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