Function and Regulation of Cellular Systems

by Deutsch, Andreas; Howard, Jonathong; Falcke, Martin; Zimmermann, Walter

• ISBN13: 9783764369255
• ISBN10: 3764369256
• Format: Hardcover
• Copyright: 2004-03-01
• Publisher: Birkhauser

Summary

Current biological research demands the extensive use of sophisticated mathematical methods and computer-aided analysis of experiments and data. This highly interdisciplinary volume focuses on structural, dynamical and functional aspects of cellular systems and presents corresponding experiments and mathematical models. The book may serve as an introduction for biologists, mathematicians and physicists to key questions in cellular systems which can be studied with mathematical models. Recent model approaches are presented with applications in cellular metabolism, intra- and intercellular signaling, cellular mechanics, network dynamics and pattern formation. In addition, applied issues such as tumor cell growth, dynamics of the immune system and biotechnology are included.

Table of Contents

Preface	ix
Part I Metabolic Networks and Engineering
Reinhart Heinrich, Thomas Höfer
Introduction to Part I	3	(4)
Finn Hynne, Sune Danø and Preben G. Sørensen
A Functional Dynamics Approach to Modelling of Glycolysis	7	(12)
Peter Ruoff
Temperature-Compensation in Biological Clocks: Models and Experiments	19	(12)
Jeroen A.L. Jeneson, Hans V. Westerhoff and Martin J. Kushmerick
Metabolic Control Analysis of the ATPase Network in Contracting Muscle: Regulation of Contractile Function and ATP Free Energy Potential	31	(16)
Jochen Förster, Mats Åkesson and Jens Nielsen
En Route for Systems Biology: In Silico Pathway Analysis and Metabolite Profiling	47	(14)
Part II Intracellular Signal Transduction
Thomas Höfer, Reinhart Heinrich
Introduction to Part II	61	(2)
Michael Meyer-Hermann, Frido Erler and Gerhard Soff
Presynaptic Calcium Dynamics of Neurons in Answer to Various Stimulation Protocols	63	(10)
Birgit Schöberl, Martin Ginkel, Ernst Dieter Gilles, Gertrud Müller
Mathematical Modeling of Signaling Cascades: Principles and Future Prospects	73	(16)
Paramita Ghosh, Debasish Bose, Subhendu Ghosh
Collective Behavior of Membrane Channels: Electro-physiological Studies on Gap Junctions	89	(10)
Antonio Politi, Thomas Höfer
Modelling of Periodic Intercellular Ca²+ Waves	99	(12)
Erik Plahte, Leiv Øyehaug
Travelling Waves as a Mechanism of Pattern Generation in Discrete Cell Lattices	111	(8)
Eberhard D. Voit
Design and Operation: Keys to Understanding Biological Systems	119	(16)
Part III Cellular Materials: Mechanics and Motility
Erwin Frey, Wolfgang Alt
Introduction to Part III	135	(4)
Chris H. Wiggins, Loic Le Goff
Biopolymer Dynamics	139	(12)
Andrea Parmeggiani, Christoph F. Schmidt
Micromechanics of Molecular Motors: Experiments and Theory	151	(26)
Wolfgang Pompe, Katharina Flade, Michael Gelinsky, Birgit Knepper-Nicolai and Antje Reinstorf
The Role of Osteocalcin in the Remodeling of Biomimetic Hydroxyapatite-Collagen Materials for Bone Replacement	177	(8)
Ralf Kemkemer, Hans Gruler, Dieter Kaufmann, Joachim P. Spatz
Cell Shape Normalization of Normal and Haploinsufficient NF1-Melanocytes by Micro-Structured Substrate Interaction	185	(14)
Peter Dieterich, Jochen Seebach, Hans-J. Schnittler
Quantification of Shear Stress-Induced Cell Migration in Endothelial Cultures	199	(12)
Part IV Complex Network Dynamics in Biological Cells
Alexander S. Mikhailov
Introduction to Part IV	211	(2)
Kunihiko Kaneko
Constructive and Dynamical Systems Approach to Life	213	(12)
Hans-Philipp Lerch, Pedro Stange, Benno Hess
Coherent Dynamics in Networks of Single Protein Molecules	225	(8)
Thimo Rohlf, Stefan Bornholdt
Gene Regulatory Networks: A Discrete Model of Dynamics and Topological Evolution	233	(8)
Mads Ipsen
Evolutionary Reconstruction of Networks	241	(10)
Rengaswamy Maithreye, Somdatta Sinha
Modelling Simple Biochemical Networks	251	(8)
Jan T. Kim, Thomas Martinetz, Daniel Polani
On the Evolution of Information in the Constituents of Regulatory Gene Networks	259	(8)
Part V Interacting Cell Systems
Dirk Drasdo, Angela Stevens
Introduction to Part V	267	(2)
Gabor Forgacs, Ramsey A. Foty
Biological Relevance of Tissue Liquidity and Viscoelasticity	269	(10)
Till Bretschneider
Reinforcement of Cytoskeleton-Matrix Bonds and Tensiotaxis: A Cell-Based Model	279	(8)
Ingo Roeder, Markus Loeffler
Simulation of Haematopoietic Stem Cell Organisation Using a Single Cell Based Model Approach	287	(8)
Uwe Börner, Andreas Deutsch, Markus Bär
Pattern Formation in an Interacting Cell System: Rippling in Myxobacterial Aggregates	295	(10)
Part VI How Cells Construct an Organism: Experiments and Modeling
Markus Kirkilionis
Introduction to Part VI	305	(4)
Ulrich Technau, Bert Hobmayer, Fabian Rentzsch, Thomas W. Holstein
Molecular and Cellular Analysis of De Novo Pattern Formation in Hydra	309	(14)
Hans Meinhardt
The Small Freshwater Polyp Hydra as a Model for Axis Formation in Higher Organisms	323	(12)
Lennart Olsson
Cell Migration, Cell Fate and Pattern Formation During Head Development in Lungfishes and Amphibians	335	(12)
Markus Kirkilionis
Cell-Based Modelling of Tissues	347	(16)
Part VII Tumors, Diseases and the Immune System
Michal Or-Gail, Angela Stevens, Dirk: Drasdo
Introduction to Part VII	363	(4)
Dirk Drasdo, Saltine Dormann, Stefan Hoehme, Andreas Deutsch
Cell-Based Models of Avascular Tumor Growth	367	(12)
Alexander R.A. Anderson
Solid Tumor Invasion: The Importance of Cell Adhesion	379	(12)
Peter Walden
Interrelationship of Tumor and Immune System	391	(8)
Ulrich Behn, Markus Brede, Jan Richter
Nonlinear Dynamics and Statistical Physics of Models for the Immune System	399	(12)
Susanne Schreiber, Kai Ludwig, Hermann-Georg Holzhzütter, Andreas Herrmann
Stochastic Model of Influenza Virus Fusion	411	(10)
Markus A. Dahlem, Thomas Mair, Stefan C. Müller
Spatio-Temporal Aspects of a Dynamical Disease: Waves of Spreading Depression	421	(14)
List of contributors	435	(8)
Index	443