Publications of the Institute

2013

Journal Article

Benner, P.; Kürschner, P.; Saak, J.: Efficient Handling of Complex Shift Parameters in the Low-Rank Cholesky Factor ADI method. Numerical Algorithms 62 (2), pp. 225 - 251 (2013)

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Benner, P.; Kürschner, P.; Saak, J.: An Improved Numerical Method for Balanced Truncation for Symmetric Second-Order Systems. Mathematical and Computer Modelling of Dynamical Systems 19 (6), pp. 593 - 615 (2013)

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Benner, P.; Mach, T.: The Preconditioned Inverse Iteration for Hierarchical Matrices. Numerical Linear Algebra with Applications 20 (1), pp. 150 - 166 (2013)

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Benner, P.; Mach, T.: The LR Cholesky Algorithm for Symmetric Hierarchical Matrices. Linear Algebra and its Applications 439 (4), pp. 1150 - 1166 (2013)

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Benner, P.; Mena, H.: Rosenbrock Methods for Solving Riccati Differential Equations. IEEE Transactions on Automatic Control 58 (11), pp. 2950 - 2956 (2013)

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Benner, P.; Saak, J.: Numerical Solution of Large and Sparse Continuous Time Algebraic Matrix Riccati and Lyapunov Equations: A State of the Art Survey. GAMM-Mitteilungen 36 (1), pp. 32 - 52 (2013)

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Benner, P.; Saak, J.; Stoll, M.; Weichelt, H. K.: Efficient Solution of Large-Scale Saddle Point Systems Arising in Riccati-Based Boundary Feedback Stabilization of Incompressible Stokes Flow. SIAM Journal on Scientific Computing 35 , pp. S150 - S170 (2013)

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Benner, P.; Tomljanović, Z.; Truhar, N.: Optimal Damping of Selected Eigenfrequencies Using Dimension Reduction. Numerical Linear Algebra with Applications 20 (1), pp. 1 - 17 (2013)

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Benner, P.; Voigt, M.: Spectral Characterization and Enforcement of Negative Imaginariness for Descriptor Systems. Linear Algebra and its Applications 439 (4), pp. 1104 - 1129 (2013)

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Journal Article

Bensmann, A.; Hanke-Rauschenbach, R.; Sundmacher, K.: Reactor configurations for biogas plants – a model based analysis. Chemical Engineering Science 104, pp. 413 - 426 (2013)

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Bensmann, B.; Hanke-Rauschenbach, R.; Peña Arias, I.; Sundmacher, K.: Energetic evaluation of high pressure PEM electrolyzer systems for intermediate storage of renewable energies. Electrochimica Acta 110, pp. 570 - 580 (2013)

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Borchers, S.; Freund, S.; Rath, A.; Streif, S.; Reichl, U.; Findeisen, R.: Identification of Growth Phases and Influencing Factors in Cultivations with AGE1.HN Cells Using Set-Based Methods. PLoS One 8 (8), e68124 (2013)

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Bornhöft, A.; Hanke-Rauschenbach, R.; Sundmacher, K.: Steady-state analysis of the Anaerobic Digestion Model No. 1 (ADM1). Nonlinear Dynamics 73 (1-2), pp. 535 - 549 (2013)

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Bunz, S.-C.; Rapp, E.; Neusüss, C.: Capillary Electrophoresis/Mass Spectrometry of APTS-Labeled Glycans for the Identification of Unknown Glycan Species in Capillary Electrophoresis/Laser-Induced Fluorescence Systems. Analytical Chemistry 85 (21), pp. 10218 - 10224 (2013)

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Carius, L.; Carius, A. B.; McIntosh, M.; Grammel, H.: Quorum sensing influences growth and photosynthetic membrane production in high-cell-density cultivations of Rhodospirillum rubrum. BMC Microbiology 13, 189 (2013)

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Carius, L.; Hädicke, O.; Grammel, H.: Stepwise reduction of the culture redox potential allows the analysis of microaerobic metabolism and photosynthetic membrane synthesis in Rhodospirillum rubrum. Biotechnology and Bioengineering 110 (2), pp. 573 - 585 (2013)

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Chaoiya, C.; Berenguier, D.; Keating, S. M.; Naldi, A.; van Iersel, M. P.; Rodriguez, N.; Dräger, A.; Büchel, F.; Cokelaer, T.; Kowal, B. et al.; Wicks, B.; Gonçalves, E.; Dorier, J.; Page, M.; Monteiro, P. T.; Kamp von, A.; Xenarius , I.; de Jong, H.; Hucka, M.; Klamt, S.; Thieffrey, D.; Le Novère, N.; Saez-Rodriguez, J.; Helikar, T.: SBML qualitative models: a model representation format and infrastructure to foster interactions between qualitative modelling formlisms and tools. BMC Systems Biology 7, 135 (2013)

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Eicke, M.; Levilain, G.; Seidel-Morgenstern, A.: Efficient Resolution of Enantiomers by Coupling Preferential Crystallization and Dissolution. Part 2: A Parametric Simulation Study to Identify Suitable Process Conditions. Crystal Growth & Design 13 (4), pp. 1638 - 1648 (2013)

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Erdem, Ö. F.; Stein, M.; Kaur-Ghumaan, S.; Reijerse, E. J.; Ott, S.; Lubitz, W.: Effect of Cyanide Ligands on the Electronic Structure of [FeFe] Hydrogenase Active-Site Model Complexes with an Azadithiolate Cofactor. Chemistry – A European Journal 19 (43), pp. 14566 - 14572 (2013)

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Feng, L.; Benner, P.; Korvink, J. G.: Subspace Recycling Accelerates the Parametric Macro‐modeling of MEMS. International Journal for Numerical Methods in Engineering 94 (1), pp. 84 - 110 (2013)

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Flassig, R.; Heise, S.; Sundmacher, K.; Klamt, S.: An effective framework for reconstructing gene regulatory networks from genetical genomics data. Bioinformatics 29 (2), pp. 246 - 254 (2013)

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Flockerzi, D.; Kaspereit, M.; Kienle, A.: Spectral properties of Bi-Langmuir isotherms. Chemical Engineering Science 104, pp. 957 - 959 (2013)

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Frensing, T.; Heldt, S.; Pflugmacher, A.; Behrendt, I.; Jordan, I.; Flockerzi, D.; Genzel, Y.; Reichl, U.: Continuous Influenza Virus Production in Cell Culture Shows a Periodic Accumulation of Defective Interfering Particles. PLoS One 8 (9), e72288 (2013)

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Journal Article

Freund, S.; Rath, A.; Barradas, O. P.; Skerhutt, S.; Scholz, S.; Niklas, J.; Sandig, V.; Rose, T.; Heinzle, E.; Noll, T. et al.; Pörtner, R.; Zeng, A. P.; Reichl, U.: Batch-to-batch variability of two human designer cell lines - AGE1.HN and AGE1.HN.AAT - carried out by different laboratories under defined culture conditions using a mathematical model. Engineering in Life Sciences 13 (6), pp. 580 - 592 (2013)

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Genzel, Y.; Behrendt, I.; Rödig, J.; Rapp, E.; Kueppers, C.; Kochanek, S.; Schiedner, G.; Reichl, U.: CAP, a new human suspension cell line for influenza virus production. Applied Microbiology and Biotechnology 97 (1), pp. 111 - 122 (2013)

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Genzel, Y.; Frensing, T.; Reichl, U.: Herstellung moderner Grippeimpfstoffe: Zellkultur statt Hühnerei. Chemie in unserer Zeit 47 (1), pp. 12 - 22 (2013)

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Gonçalves, E.; Bucher, J.; Ryll, A.; Niklas, J.; Mauch, K.; Klamt, S.; Rocha, M.; Saez-Rodriguez, J.: Bridging the layers: towards integration of signal transduction, regulation and metabolism into mathematical models. Molecular BioSystems 9 (7), pp. 1576 - 1583 (2013)

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González Martinez, I.; Vidaković-Koch, T.; Kuwertz, R.; Turek, T.; Kunz, U.; Sundmacher, K.: The kinetics of hydrogen chloride oxidation. Journal of the Serbian Chemical Society 78 (12), pp. 2115 - 2130 (2013)

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Gruchattka, E.; Hädicke, O.; Klamt, S.; Schuetz, V.; Kayser , O.: In silico profiling of Escherichia coli and Saccharomyces cerevisiae as terpenoid factories. Microbial Cell Factories 12, 84 (2013)

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Journal Article

Hädicke, O.; Lohr, V.; Genzel, Y.; Reichl, U.; Klamt, S.: Evaluating differences of metabolic performances: Statistical methods and their application to animal cell cultivations. Biotechnology and Bioengineering 110 (10), pp. 2633 - 2642 (2013)

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Journal Article

Hanreich, A.; Schimpf, U.; Zakrzewski, M.; Schlüter, A.; Benndorf, D.; Heyer, R.; Rapp, E.; Puhler, A.; Reichl, U.; Klocke, M.: Metagenome and metaproteome analyses of microbial communities in mesophilic biogas-producing anaerobic batch fermentations indicate concerted plant carbohydrate degradation. Systematic and Applied Microbiology 36 (5), pp. 330 - 338 (2013)

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Heldt, S.; Frensing, T.; Pflugmacher, A.; Gröpler, R.; Peschel, B.; Reichl, U.: Multiscale Modeling of Influenza A Virus Infection Supports the Development of Direct-Acting Antivirals. PLoS Computational Biology 9 (11), e1003372 (2013)

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Journal Article

Hess, M. W.; Benner, P.: Fast Evaluation of Time-Harmonic Maxwell's Equations Using the Reduced Basis Method. IEEE Transactions on Microwave Theory and Techniques 61 (6), pp. 2265 - 2274 (2013)

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Heyer, R.; Kohrs, F.; Benndorf, D.; Rapp, E.; Kausmann, R.; Heiermann, M.; Klocke, M.; Reichl, U.: Metaproteome analysis of the microbial communities in agricultural biogas plants. New biotechnology 30 (6), pp. 614 - 622 (2013)

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Journal Article

Hlushkou, D.; Hormann, K.; Höltzel, A.; Khirevich, S.; Seidel-Morgenstern, A.; Tallarek, U.: Comparison of first and second generation analytical silica monoliths by pore-scale simulations of eddy dispersion in the bulk region. Journal of Chromatography A 1303, pp. 28 - 38 (2013)

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Hofmann, S.; Raisch, J.: Solutions to inversion problems in preferential crystallization of enantiomers—part II: Batch crystallization in two coupled vessels. Chemical Engineering Science 88, pp. 48 - 68 (2013)

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Journal Article

Holstein, K.; Flockerzi, D.; Conradi, C.: Multistationarity in Sequential Distributed Multisite Phosphorylation Networks. Bulletin of mathematical biology 75 (11), pp. 2028 - 2058 (2013)

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Journal Article

Hütter, J.; Rödig, J. V.; Höper, D.; Seeberger, P. H.; Reichl, U.; Rapp, E.; Lepenies, B.: Toward Animal Cell Culture-based Influenza Vaccine Design: Viral Hemagglutinin N-Glycosylation Markedly Impacts Immunogenicity. The Journal of Immunology 190 (1), pp. 220 - 230 (2013)

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Journal Article

Isakov, A. I.; Kotelnikova, E. N.; Kryuchkova, L. Y.; Lorenz, H.: Effect of crystallization conditions on polymorphic diversity of malic acid RS — Racemate. Transactions of Tianjin University 19 (2), pp. 86 - 91 (2013)

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Ivanov, I.; Vidaković-Koch, T.; Sundmacher, K.: Alternating electron transfer mechanism in the case of high-performance tetrathiafulvalene–tetracyanoquinodimethane enzymatic electrodes. Journal of Electroanalytical Chemistry 690, pp. 68 - 73 (2013)

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Jahn, S.; Haverkorn van Rijsevijk, B. R.; Sauer, U.; Bettenbrock, K.: A role for EIIANtr in controlling fluxes in the central metabolism of E. coli K12. Biochimica et Biophysica Acta-Molecular Cell Research 1833 (12), pp. 2879 - 2889 (2013)

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Javeed, S.; Qamar, S.; Ashraf, W.; Warnecke, G.; Seidel-Morgenstern, A.: Analysis and numerical investigation of two dynamic models for liquid chromatography. Chemical Engineering Science 90, pp. 17 - 31 (2013)

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Journal Article

Jordan, I.; Lohr, V.; Genzel, Y.; Reichl, U.; Sandig, V.: Elements in the Development of a Production Process for Modified Vaccinia Virus Ankara. Microorganisms 1 (1), pp. 100 - 121 (2013)

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publisher-version

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Jungreuthmeyer, C.; Nair, G.; Klamt, S.; Zanghellini, J.: Comparison and improvement of algorithms for computing minimal cut sets. BMC Bioinformatics 14 (1), 318 (2013)

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Kaemmerer, H.; Seidel-Morgenstern, A.; Lorenz, H.: Chiral separation of systems of high eutectic composition by a combined process: Case study of serine enantiomers. Chemical Engineering and Processing 67, pp. 71 - 79 (2013)

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Kirsch, S.; Hanke-Rauschenbach, R.; Stein, B.; Kraume, R.; Sundmacher, K.: The Electro-Oxidation of H₂, CO in a Model PEM Fuel Cell: Oscillations, Chaos, Pulses. Journal of the Electrochemical Society 160 (4), pp. F436 - F446 (2013)

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Kluge, S.; Rourou, S.; Vester, D.; Majoul, S.; Benndorf, D.; Genzel, Y.; Rapp, E.; Kallel, H.; Reichl, U.: Proteome analysis of virus-host cell interaction: rabies virus replication in Vero cells in two different media. Applied Microbiology and Biotechnology 97 (12), pp. 5493 - 5506 (2013)

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Kolarich, D.; Rapp, E.; Struwe, W. B.; Haslam, S. M.; Zaia, J.; McBride, R.; Agravat, S.; Campell, M. P.; Kato, M.; Ranzinger, R. et al.; Kettner, C.; York, W. S.: The Minimum Information Required for a Glycomics Experiment (MIRAGE) Project: Improving the Standards for Reporting Mass-spectrometry-based Glycoanalytic Data. Molecular and Cellular Proteomics 12 (4), pp. 991 - 995 (2013)

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Journal Article

Kottler, R.; Mank, M.; Hennig, R.; Müller-Werner, B.; Stahl, B.; Reichl, U.; Rapp, E.: Development of a high-throughput glycoanalysis method for the characterization of oligosaccharides in human milk utilizing multiplexed capillary gel electrophoresis with laser-induced fluorescence detection. Electrophoresis 34 (16), pp. 2323 - 2336 (2013)

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post-print

Journal Article

Kröber, T.; Wolff, M. W.; Hundt, B.; Seidel-Morgenstern, A.; Reichl, U.: Continuous purification of influenza virus using simulated moving bed chromatography. Journal of Chromatography A 1307, pp. 99 - 110 (2013)

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Journal Article (2471)