6TH IFAC CONFERENCE ON FOUNDATIONS OF SYSTEMS BIOLOGY IN ENGINEERING FOSBE 2016
Universität Magdeburg
Magdeburg, Germany
October 9-12, 2016
  
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Last updated on September 29, 2016. This conference program is tentative and subject to change

Technical Program for Tuesday October 11, 2016

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TuPMP Plenary Session, Nave Add to My Program 
Hans Westerhoff  
 
 
08:30-09:15, Paper TuPMP.1 Add to My Program
Maps for When the Living Gets Tough: Maneuvering through a Hostile Energy Landscape
Mondeel, Thierry D.G.A. (Univ. of Amsterdam), Rehman, Samrina (Univ. of Manchester), Zhang, Yanfei (Univ. of Amsterdam), Verma, Malkhey (Central Univ. of Punjab), Dürre, Peter (VU Univ. Amsterdam), Barberis, Matteo (Univ. of Amsterdam), Westerhoff, Hans V. (Univ. of Amsterdam, Univ. of Manchester, VU Univ)
 
TuKMP Keynote Session, Nave Add to My Program 
Bas Teusink  
 
 
09:15-09:45, Paper TuKMP.1 Add to My Program
Regulation of Metabolism: Navigating between Desired and Fatal States
Teusink, Bas (VU Univ. Amsterdam)
 
TuCMP Coffee, Nave Add to My Program 
Coffee Break TM  
 
 
TuM1 Regular Session, Nave Add to My Program 
Dynamics and Control  
 
 
10:20-10:40, Paper TuM1.1 Add to My Program
Control of the Production of Saccharomyces Cerevisiae on the Basis of a Reduced Metabolic Model
Wegerhoff, Sven (TU Dortmund), Engell, Sebastian (TU Dortmund)
 
10:40-11:00, Paper TuM1.2 Add to My Program
Bistability and Non-Monotonic Induction of the Lac Operon with Lactose
Zander, Dominique (Max-Planck-Inst. for Dynamics of Complex Tech. Systems), Straube, Ronny (Max-Planck-Inst. for Dynamics of Complex Tech. Systems), Bettenbrock, Katja (Max Planck Inst. for Dynamics of Complex Tech. Systems)
 
11:00-11:20, Paper TuM1.3 Add to My Program
Optimal Scheduling of Vaccination Campaigns Using a Direct Dynamic Optimization Method
Correa Cordova, Max Leo (Tech. Univ. Ilmenau), Geletu, Abebe (Tech. Univ. Ilmenau), Li, Pu (Tech. Univ. Ilmenau)
 
11:20-11:40, Paper TuM1.4 Add to My Program
Contractivity of a Genetic Circuit with Internal Feedback and Cell-To-Cell Communication
Picó-Marco, Enric (Univ. Pol. De Valencia), Boada, Yadira (Univ. Pol. De València), Picó, Jesús (Univ. Pol. De Valencia), Vignoni, Alejandro (Max Planck Inst. of Molecular Cell Biology and Genetics)
 
11:40-12:00, Paper TuM1.5 Add to My Program
Model Reduction of Detailed-Balanced Reaction Networks by Clustering Linkage Classes
Rao, Shodhan (Ghent Univ. Global Campus), Jayawardhana, Bayu (Univ. of Groningen), van der Schaft, Arjan J. (Univ. of Groningen)
 
TuM2 Invited Session, Gallery Add to My Program 
Optimization Based Methods for Understanding the Regulation of Cellular
Metabolism
 
 
Organizer: Waldherr, SteffenKU Leuven
Organizer: Bockmayr, AlexanderFU Berlin
Organizer: Bruggeman, FrankVU Amsterdam
Organizer: Hatzimanikatis, VassilyÉcole_Polytechnique_Fédérale_de_Lausanne (EPFL)
 
10:20-10:40, Paper TuM2.1 Add to My Program
Can Bacteria Maximise Their Growth Rate, and If So, How? (I)
Planque, Bob (Vrije Univ. Amsterdam), Hulshof, Josephus (Department of Mathematics, Vrije Univ. Amsterdam), Teusink, Bas (VU Univ. Amsterdam), Bruggeman, Frank (VU Amsterdam)
 
10:40-11:00, Paper TuM2.2 Add to My Program
EColiCore2: A Reference Network Model of the Central Metabolism of Escherichia Coli and Relationships to Its Genome-Scale Parent Model (I)
Hädicke, Oliver (Max-Planck-Inst. for Dynamics of Complex Tech. Systems), Erdrich, Philipp (Max-Planck-Inst. for Dynamics of Complex Tech. Systems), Klamt, Steffen (Max Planck Inst. for Dynamics of Complex Tech. Systems)
 
11:00-11:20, Paper TuM2.3 Add to My Program
Theoretical Aspects of Bacterial Growth (I)
Klumpp, Stefan (Univ. of Göttingen/MPI Potsdam)
 
11:20-11:40, Paper TuM2.4 Add to My Program
Quantitative Prediction of Genome-Wide Resource Allocation in Bacteria (I)
Goelzer, Anne (INRA), Fromion, Vincent (INRA)
 
11:40-12:00, Paper TuM2.5 Add to My Program
Evaluating the Stoichiometric and Energetic Constraints of Cyanobacterial Diurnal Growth (I)
Reimers, Alexandra-M. (Freie Univ. Berlin), Knoop, Henning (Humboldt-Univ. Zu Berlin), Bockmayr, Alexander (FU Berlin), Steuer, Ralf (Humboldt-Univ. Zu Berlin)
 
TuPP Poster Session, free Add to My Program 
Lunch + Poster Session II  
 
 
12:00-14:00, Paper TuPP.1 Add to My Program
Analyzing the Impact of Heterogeneity in Genetically Engineered Cell Lines for Influenza Vaccine Production Using Population Balance Modeling
Dürr, Robert (Otto-Von-Guericke Univ. Magdeburg), Duvigneau, Stefanie (Otto-Von-Guericke Univ), Laske, Tanja (Otto-Von-Guericke-Univ), Bachmann, Mandy (Max Planck Inst. for Dynamics of Complex Tech. Systems), Kienle, Achim (Otto-Von-Guericke-Univ)
 
12:00-14:00, Paper TuPP.2 Add to My Program
Mathematical Modelling of Anaerobic Digestion with Hydrogen and Methane Production
Borisov, Milen (Inst. Mathematics and Informatics, Bulgarian Acad. of Sciences), Dimitrova, Neli (Inst. Mathematics and Informatics, Bulgarian Acad. of Sciences), Simeonov, Ivan (Inst. of Microbiology, Bulgarian Acad. of Sciences)
 
12:00-14:00, Paper TuPP.3 Add to My Program
Fusion Detection in Time-Lapse Microscopy Images: Application to Lipid Droplets Coalescence in Plant Seeds
Deslandes, François (MaIAGE, INRA, Univ. Paris-Saclay), Laroche, Béatrice (MaIAGE, INRA, Univ. Paris-Saclay), Trubuil, Alain (MaIAGE, INRA, Univ. Paris-Saclay)
 
12:00-14:00, Paper TuPP.4 Add to My Program
Improving Bioprocess Productivity Using Constraint-Based Models in a Dynamic Optimization Scheme
Jabarivelisdeh, Banafsheh (Center for Dynamical Systems, Otto-Von-Guericke-Univ. Magd), Waldherr, Steffen (KU Leuven)
 
12:00-14:00, Paper TuPP.5 Add to My Program
Finding Targets for Genome Reduction in Streptomyces Lividans TK24 Using Flux Balance Analysis
Daniels, Wouter (KU Leuven), Bouvin, Jeroen (KU Leuven), Busche, Tobias (Microbial Genomics and Biotechnology, Center for Biotechnology (), Kalinowski, Jörn (Bielefeld Univ. Center for Biotechnology), Bernaerts, Kristel (KU Leuven)
 
12:00-14:00, Paper TuPP.6 Add to My Program
Extraction of Physiological State Functions in Heterogeneous Cell Population Models
Hussain, Mubashir (Friedrich-Alexander Univ. Erlangen-Nürnberg), Waldherr, Steffen (KU Leuven)
 
12:00-14:00, Paper TuPP.7 Add to My Program
Quantitative Comparison of Competing PDE Models for Pom1p Dynamics in Fission Yeast
Hross, Sabrina (Helmholtz Zentrum München), Fiedler, Anna (Tech. Univ. München), Theis, Fabian J. (Helmholtz Zentrum München), Hasenauer, Jan (Helmholtz Zentrum München)
 
12:00-14:00, Paper TuPP.8 Add to My Program
A Comparative Analysis of Dynamic Models of the Central Carbon Metabolism of Eschericha Coli
Lima, Ana Patricia (Univ. of Minho), Baixinho, Vitor (Univ. of Minho), Machado, Daniel (Univ. of Minho), Rocha, Isabel (Univ. of Minho)
 
12:00-14:00, Paper TuPP.9 Add to My Program
A Supplemental Treatment for Chemotherapy: Control Simulation Using a Mathematical Model with Estimated Parameters Based on in Vivo Experiment
Paryad-zanjani, Sasan (School of Mech. Eng., Coll. of Eng., Univ. of Tehran), Mahjoob, Mohammad J. (Univ. of Tehran), Amanpour, Saeid (Cancer Biology Res. Center, Tehran Univ. of Medical Sciences), Kheirbakhsh, Raheleh (Cancer Biology Res. Center, Tehran Univ. of Medical Sciences), Haji Akhoundzadeh, Mehran (Cancer Biology Res. Center, Tehran Univ. of Medical Sciences)
 
12:00-14:00, Paper TuPP.10 Add to My Program
Metabolomics and Network Biology: Sex Comparative Analysis of Mouse Brain Regional Metabolic Physiology
Vasilopoulou, Catherine G. (Foundation for Res. and Tech. – Hellas, Univ. of Patras), Margarity, Marigoula (Department of Biology, Univ. of Patras), Klapa, Maria (Foundation for Res. and Tech. Univ. of Maryland)
 
12:00-14:00, Paper TuPP.11 Add to My Program
Streamlining GC-MS Metabolomic Analysis Using the M-IOLITE Software Suite
Maga-Nteve, Christoniki (Inst. of Chemical Engineering Sciences Patras, Univ. Patras), Klapa, Maria (Inst. of Chemical Engineering Sciences Patras, Univ. Patras)
 
12:00-14:00, Paper TuPP.12 Add to My Program
Towards Robust, High-Performance Production Strains: Constrained-Based Identification of Strain Designs Leading to an Optimally Growth-Coupled Product Synthesis
Alter, Tobias Benedikt (RWTH Aachen Univ), Ebert, Birgitta Elisabeth (Inst. of Applied Microbiology, RWTH Aachen Univ), Blank, Lars M. (Iamb, RWTH Aachen Univ)
 
12:00-14:00, Paper TuPP.13 Add to My Program
A Dynamic Model of Growth and Metabolism of AGE1.HN Suspension Cells
Ramos, Joao (Max Planck Inst), Reichl, Udo (Max Planck Inst. for Dynamics of Complex Tech), Rath, Alexander Georg (ONCOTEC Pharma Produktion GmbH), Genzel, Yvonne (Max Planck Inst. for Dynamics of Complex Tech. Systems), Sandig, Volker (ProBioGen AG), Rose, Thomas (ProBioGen AG)
 
12:00-14:00, Paper TuPP.14 Add to My Program
New Methods for Modeling of Microbial Communities with Stoichiometric Metabolic Models
Koch, Sabine (Max Planck Inst. for Dynamics of Complex Tech. Systems), Benndorf, Dirk (Otto Von Guericke Univ. Magdeburg), Reichl, Udo (Max Planck Inst. for Dynamics of Complex Tech), Klamt, Steffen (Max Planck Inst. for Dynamics of Complex Tech. Systems)
 
12:00-14:00, Paper TuPP.15 Add to My Program
Genome-Scale Modeling Approach for in Silico Analysis of CHO Cell Metabolic Network
Calmels, Cyrielle (UCB and DTU), Andersen, Mikael Rørdam (Tech. Univ. of Denmark), Malphettes, Laetitia (UCB Pharma S.A., Belgium)
 
12:00-14:00, Paper TuPP.16 Add to My Program
Model-Based Metabolic Engineering of Escherichia Coli for High Yield Itaconic Acid Production
Harder, Björn-Johannes (Max Planck Inst. for Dynamics of Complex Tech. Systems), Bettenbrock, Katja (Max Planck Inst. for Dynamics of Complex Tech. Systems), Klamt, Steffen (Max Planck Inst. for Dynamics of Complex Tech. Systems)
 
12:00-14:00, Paper TuPP.17 Add to My Program
Design Principles As a Guide for Metabolic Engineering: Application to Halophiles
Sehr, Christiana (Tech. Univ. München), Kremling, Andreas (Tech. Univ. München), Marin-Sanguino, Alberto (Tech. Univ. München)
 
12:00-14:00, Paper TuPP.18 Add to My Program
Fast Reconstruction of Context-Specific Metabolic Models and Omics Integration
Pires Pacheco, Maria (Life Sciences Res. Unit, Univ. of Luxembourg,), Vlassis, Nikos () Adobe Res. 345 Park Ave, San Jose, CA, USA), John, Elisabeth (Luxembourg Centre for Systems Biomedicine, Univ. of Luxembourg), Kaoma, Tony (Genomics Res. Unit, LIH, L-1526 Luxembourg, Luxembourg), Heinäniemi, Merja (Inst. of Biomedicine, School of Medicine, Univ. of Eastern Finla), Nicot, Nathalie (Genomics Res. Unit, LIH, L-1526 Luxembourg, Luxembourg), Vallar, Laurent (Genomics Res. Unit, LIH, L-1526 Luxembourg, Luxembourg), Bueb, Jean-Luc (Life Sciences Res. Unit, Univ. of Luxembourg), Sinkkonen, Lasse (Life Sciences Res. Unit, Univ. of Luxembourg), Sauter, Thomas (Univ. of Luxembourg)
 
12:00-14:00, Paper TuPP.19 Add to My Program
The Influence of EGFR/Met Receptor Abundance on Therapy Resistance in Non-Small Cell Lung Cancer Cell Lines
Hass, Helge (Albert-Ludwigs Univ. Freiburg), Salopiata, Florian (Div. of Systems Biology of Signal Transduction, DKFZ Heidelberg), Kreutz, Clemens (Albert-Ludwigs Univ. Freiburg), Klingmüller, Ursula (Systems Biology of Signal Transduction, DKFZ Heidelberg), Timmer, Jens (Albert-Ludwigs Univ. Freiburg)
 
12:00-14:00, Paper TuPP.20 Add to My Program
Energy, Coupled Oscillators & Epilepsy
O'Sullivan-Greene, Elma (The Univ. of Melbourne), Gawthrop, Peter (Univ. of Glasgow), Mareels, Iven (The Univ. of Melbourne)
 
12:00-14:00, Paper TuPP.21 Add to My Program
A Single Catastrophic Genomic Event Is Rate Limiting the Development of Osteosarcoma
Bilke, Sven (National Cancer Inst)
 
12:00-14:00, Paper TuPP.22 Add to My Program
Sepsis Leads to Reduced Variability of Gene and Isoform Expression
Biering, Antje (Hans Knöll Inst. (HKI)), Roell, Daniela (Centre for Sepsis Control and Care, Jena Univ. Hospital), Giszas, Benjamin (Centre for Sepsis Control and Care, Jena Univ. Hospital), Fang, Haoshu (Experimental Transplantation Surgery, Jena Univ. Hospital), Schindler, Claudia (Experimental Transplantation Surgery, Jena Univ. Hospital), Groth, Marco (Fritz Lipmann Inst. Leibniz Inst. for Age Res. (FLI)), Claus, Ralf (Center for Sepsis Control and Care, Jena Univ. Hospital), Dahmen, Uta (Experimental Transplantation Surgery, Jena Univ. Hospital), König, Rainer (Jena Univ. Hospital)
 
12:00-14:00, Paper TuPP.23 Add to My Program
Model-Based Genotype-Phenotype Mapping Used to Investigate Gene Signatures of Immune Sensitivity and Resistance in Melanoma Micrometastasis
Lai, Xin (Erlangen Univ. Hospital), Santos Rosales, Guido (FAU Univ. Nürnberg-Erlangen), Vera-Gonzalez, Julio (Univ. Erlangen)
 
12:00-14:00, Paper TuPP.24 Add to My Program
Prediction of Optimal Profiles for the Production of Monoclonal Antibodies Based on Identified Growth Phases and Key Metabolites
Heinzle, Elmar (Saarland Univ)
 
12:00-14:00, Paper TuPP.25 Add to My Program
Modelling Mixautrophic Growth of Chlorella with Four Organic Substrates
Anais, Bacquet (Lab. D'océanographie De Villefranche, UPMC, Sorbonne Univ), Baroukh, Caroline (INRA), Steyer, Jean-Philippe (INRA), Bernard, Olivier (INRIA)
 
12:00-14:00, Paper TuPP.26 Add to My Program
Thermodynamically Constrained Averaging Theory for Cancer Growth Modelling
Albrecht, Marco (Univ. of Luxembourg), Sciumè, Giuseppe (Univ. of Bordeaux), Lucarelli, Philippe (Univ. of Luxembourg), Sauter, Thomas (Univ. of Luxembourg)
 
12:00-14:00, Paper TuPP.27 Add to My Program
Set-Based Experiment Design for Model Discrimination Using Bilevel Optimization
Rudolph, Nadine (Otto-Von-Guericke Univ. Magdeburg), Streif, Stefan (Tech. Univ. Chemnitz), Findeisen, Rolf (Otto-Von-Guericke-Univ. Magdeburg)
 
12:00-14:00, Paper TuPP.28 Add to My Program
Control of a Class of Large-Scale Boolean Networks for Biological Systems Using Constant Inputs
Yang, Jung-Min (Kyungpook National Univ), Cho, Kwang-Hyun (Korea Advanced Inst. of Science and Tech. (KAIST))
 
12:00-14:00, Paper TuPP.29 Add to My Program
The Chemical-Transcriptional Landscape of Small Molecules
Sirci, Francesco (TIGEM), Napolitano, Francesco (TIGEM), Carrella, Diego (TIGEM), di Bernardo, Diego (TIGEM)
 
12:00-14:00, Paper TuPP.30 Add to My Program
Modeling of Biomass Composition Using Dynamic Flux Balance Analysis for Optimization of Microalgal Biorefineries
Flassig, Robert J (Max Planck Inst. for Dynamics of Complex Tech. Systems), Fachet, Melanie (Max Planck Inst. for Dynamics of Complex Tech. Systems), Gladebeck, Steffie (Max Planck Inst. for Dynamics of Complex Tech. Systems), Pirwitz, Kristin (Max Planck Inst. for Dynamics of Complex Tech. Systems), Rihko-Struckmann, Liisa (Max Planck Inst. for Dynamics of Complex Tech. Systems), Sundmacher, Kai (Max Planck Inst. for Dynamics of Complex Tech. Systems)
 
12:00-14:00, Paper TuPP.31 Add to My Program
Identification and Regression Based on Martingale Dynamics
Mau, Jochen (Iqmeth - Inst. Für Quantitative Methodik)
 
12:00-14:00, Paper TuPP.32 Add to My Program
Efficient Simulation of Heterogeneity and Stochasticity in Microbial Processes
Pischel, Dennis (Otto-Von-Guericke Univ), Flassig, Robert J (Max Planck Inst. for Dynamics of Complex Tech. Systems), Sundmacher, Kai (Max Planck Inst. for Dynamics of Complex Tech. Systems)
 
TuKA1P Keynote Session, Nave Add to My Program 
Pablo Iglesias  
 
 
14:00-14:30, Paper TuKA1P.1 Add to My Program
The Regulation of Cell Motility through an Excitable Network
Bhattacharya, Sayak (The Johns Hopkins Univ), Iglesias, Pablo A. (Johns Hopkins Univ)
 
TuKA2P Keynote Session, Nave Add to My Program 
Jörg Stelling  
 
 
14:30-15:00, Paper TuKA2P.1 Add to My Program
Identification of Predictive Dynamic Models for Systems Biology
Stelling, Joerg (ETH Zurich)
 
TuCAP Coffee, Nave Add to My Program 
Coffee Break TA  
 
 
TuA1 Regular Session, Nave Add to My Program 
Special Session in Memoriam of Peter Wellstead  
 
 
15:20-15:40, Paper TuA1.1 Add to My Program
Peter Wellstead and the Me-We Principle of Life
Wolkenhauer, Olaf (Univ. Rostock)
 
15:40-16:00, Paper TuA1.2 Add to My Program
A Reaction-Diffusion Model for the Progression of Parkinsons Disease
García, Míriam R. (IIM-CSIC), Cloutier, Mathieu (Ec. Pol. De Montreal), Wellstead, Peter (NUI Maynooth)
 
16:00-16:20, Paper TuA1.3 Add to My Program
Gene Circuits for Self-Tuning Metabolic Pathways
Oyarzún, Diego A. (Imperial Coll. London)
 
16:20-16:40, Paper TuA1.4 Add to My Program
Monotonicity of Kinetic Proofreading
Kallies, Christian (Otto-Von-Guericke Univ. Magdeburg), Schliemann-Bullinger, Monica (Otto-Von-Guericke Univ. Magdeburg), Findeisen, Rolf (Otto-Von-Guericke-Univ. Magdeburg), Lucia, Sergio (Otto-Von-Guericke Univ. Magdeburg), Bullinger, Eric (Otto-Von-Guericke Univ. Magdeburg)
 
16:40-17:00, Paper TuA1.5 Add to My Program
On the Personalised Modelling of Cancer Signalling
Fey, Dirk (Univ. Coll. Dublin), Kuehn, Axel (Univ. De Montpellier), Kholodenko, Boris N. (Univ. Coll. Dublin)
 
TuA2 Regular Session, Gallery Add to My Program 
Biotechnology Methods & Applications  
 
 
15:20-15:40, Paper TuA2.1 Add to My Program
Dynamic Metabolic Flux Analysis of Underdetermined and Overdetermined Metabolic Networks
Fernandes, Sofia (Univ. of Mons), Robitaille, Julien (École Pol. De Montréal), Bastin, Georges (Univ. Catholique De Louvain), Jolicoeur, Mario (École Pol. De Montreal), Vande Wouwer, Alain (Univ. De Mons)
 
15:40-16:00, Paper TuA2.2 Add to My Program
Feasibility of Growth-Coupled Product Synthesis in Microbial Cell Factories
Klamt, Steffen (Max Planck Inst. for Dynamics of Complex Tech. Systems), von Kamp, Axel (Max Planck Inst. for Dynamics of Complex Tech. Systems), Mahadevan, Radhakrishnan (Univ. of Toronto)
 
16:00-16:20, Paper TuA2.3 Add to My Program
Multi-Physics Modeling of Light-Limited Microalgae Growth in Raceway Ponds
Nikolaou, Andreas (Imperial Coll. London), Booth, Peter (Imperial Coll. London), Gordon, Fraser (Imperial Coll. London), Yang, Junfeng (Imperial Coll. London), Matar, Omar (Imperial Coll. London), Chachuat, Benoit (Imperial Coll. London)
 
16:20-16:40, Paper TuA2.4 Add to My Program
Metabolic Modeling of C. Sorokiniana Diauxic Heterotrophic Growth
Baroukh, Caroline (INRA), Bernard, Olivier (INRIA)
 
16:40-17:00, Paper TuA2.5 Add to My Program
Metabolic Fluxes in Recombinant Streptomyces Lividans Analyzed with 13C-Based Metabolic Flux Analysis
Bouvin, Jeroen (KU Leuven), Daniels, Wouter (KU Leuven), Anné, Jozef (KU Leuven), Nicolai, Bart (K.U.Leuven), Bernaerts, Kristel (K.U.Leuven)

 
 

 
 

 

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