Elements of computational systems biology
Groundbreaking, long-ranging research in this emergent field that enables solutions to complex biological problems Computational systems biology is an emerging discipline that is evolving quickly due to recent advances in biology such as genome sequencing, high-throughput technologies, and the rec...
| Otros Autores: | , |
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| Formato: | Libro electrónico |
| Idioma: | Inglés |
| Publicado: |
Oxford :
Wiley
c2010.
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| Edición: | 1st edition |
| Colección: | Wiley series on bioinformatics.
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| Materias: | |
| Ver en Biblioteca Universitat Ramon Llull: | https://discovery.url.edu/permalink/34CSUC_URL/1im36ta/alma991009627965806719 |
Tabla de Contenidos:
- ELEMENTS OF COMPUTATIONAL SYSTEMS BIOLOGY; CONTENTS; PREFACE; CONTRIBUTORS; PART I OVERVIEW; 1 Advances in Computational Systems Biology; 1.1 Introduction; 1.2 Multiscale Computational Modeling; 1.3 Proteomics; 1.4 Computational Systems Biology and Aging; 1.5 Computational Systems Biology in Drug Design; 1.6 Software Tools for Systems Biology; 1.7 Conclusion; References; PART II BIOLOGICAL NETWORK MODELING; 2 Models in Systems Biology: The Parameter Problem and the Meanings of Robustness; 2.1 Introduction; 2.2 Models as Dynamical Systems; 2.2.1 Continuous Models; 2.2.2 Discrete Models
- 2.3 The Parameter Problem2.3.1 Parameterphobia; 2.3.2 Measuring and Calculating; 2.3.3 Counter Fitting; 2.3.4 Beyond Fitting; 2.4 The Landscapes of Dynamics; 2.4.1 Qualitative Dynamics; 2.4.2 Steady State Attractors of ODE Models; 2.5 The Meanings of Robustness; 2.5.1 Parameter Biology; 2.5.2 Robustness to Initial Conditions; 2.5.3 Robustness in Reality; 2.5.4 Structural Stability; 2.5.5 Classifying Robustness; 2.6 Conclusion; References; 3 In Silico Analysis of Combined Therapeutics Strategy for Heart Failure; 3.1 Introduction; 3.2 Materials and Methods
- 3.2.1 Model Construction and Validation3.2.2 Classification of Different Heart Failure Cases; 3.2.3 Simulation Protocol; 3.3 Results; 3.3.1 β-Adrenergic Receptor Antagonists; 3.3.2 β-Adrenergic Receptor Kinase Inhibitor; 3.3.3 Phosphodiesterase Inhibitor; 3.3.4 Combined Therapies; 3.4 Discussion; Acknowledgment; 3A.1 Appendix; 3A.1.1 Model Validation; 3A.1.2 The Mathematical Model Used for Simulations; References; 4 Rule-Based Modeling and Model Refinement; 4.1 Kappa, Briefly; 4.2 Refinement, Practically; 4.2.1 A Simple Cascade; 4.2.2 Another Cascade; 4.2.3 The SSA Convention
- 4.2.4 A Less Obvious Refinement4.3 Rule-Based Modeling; 4.3.1 Notation; 4.3.2 Objects and Arrows; 4.3.3 Extensions; 4.3.4 Actions and Rules; 4.3.5 Events and Probabilities; 4.4 Refinement, Theoretically; 4.4.1 Growth Policies; 4.4.2 Simple Growth Policies; 4.4.3 Neutral Refinements; 4.4.4 Example Concluded; 4.4.5 Growth Policies, Concretely; 4.4.6 A Weakly Homogeneous Refinement; 4.4.7 Nonhomogeneous Growth Policies; 4.5 Conclusion; References; 5 A (Natural) Computing Perspective on Cellular Processes; 5.1 Natural Computing and Computational Biology; 5.2 Membrane Computing
- 5.3 Formal Languages Preliminaries5.4 Membrane Operations with Peripheral Proteins; 5.5 Membrane Systems with Peripheral Proteins; 5.5.1 Dynamics of the System; 5.5.2 Reachability in Membrane Systems; 5.6 Cell Cycle and Breast Tumor Growth Control; 5.6.1 Cell Cycle Progression Inhibition in G1/S; 5.6.2 Cell-Cycle Progression Inhibition in G2/M; References; 6 Simulating Filament Dynamics in Cellular Systems; 6.1 Introduction; 6.2 Background: The Roles of Filaments within Cells; 6.2.1 The Actin Network; 6.2.2 Intermediate Filaments; 6.2.3 Microtubules; 6.3 Examples of Filament Simulations
- 6.3.1 Actin-Based Motility in Listeria
