| Description |
xiii, 278 pages : illustrations |
| Contents |
Machine generated contents note: 1.Introduction -- 1.1.Introduction -- 1.2.Systems Biology -- 1.3.Initiatives for Modelling Human Physiology -- 1.4.Book Synopsis -- References -- 2.Molecular Foundations of Computational Bioscience -- 2.1.Introduction -- 2.2.DNA and its Data Formats -- 2.3.RNA and its Data Formats -- 2.4.Proteins and their Data Formats -- 2.5.Metabolism, Metabolites, and their Databases -- 2.6.Integrating Different Data Types and Sources -- 2.7.Management of Omics Data Types -- Box 2.1 Example of the Use of Multiple Databases to Answer a Specific Research Question -- 2.8.Software Systems: Security and Interoperability -- 2.9.Conclusions -- Recommended Reading -- References -- 3.From Genotype to Phenotype -- 3.1.Introduction -- 3.2.Quantitative Genetics: A Brief Introduction -- 3.3.Systems Genetics -- Box 3.1 AcGP Model of the Action Potential of a Heart Muscle Cell -- |
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Contents note continued: Box 3.2 Refining the Genotype-to-Parameter Map: From Nucleotide Mutation to Protein Conformation to State Switching in Ion Channels -- 3.4.Implementing cGP Models -- Box 3.3 Monte Carlo Methods -- Box 3.4 Models of Gene Regulation -- 3.5.Some cGP Applications -- 3.6.Linking cGP Models to Data -- 3.7.Conclusions -- Recommended Reading -- References -- 4.Image-Based Modelling -- 4.1.Introduction -- 4.2.Image-Based Modelling -- 4.3.Simulating the Physics of Image Formation -- 4.4.Statistical Atlases, Population Imaging, and Modelling -- 4.5.Open-Source Tools for Image-Based Modelling -- 4.6.Conclusions -- Recommended Reading -- References -- 5.Modelling Cell Function -- 5.1.Introduction -- 5.2.General Functions of Cells -- 5.3.Fundamentals of Reactions in Cells -- Box 5.1 The Cell as a Complex System -- 5.4.Formalisms and Abstractions in Cell Modelling -- 5.5.Modelling Approaches -- Box 5.2 Compartmental Models of the Cell Using ODEs -- |
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Contents note continued: 5.6.Simulation Tools -- 5.7.Reproducible Cell Modelling -- Box 5.3 Case Study: A Reproducible ̀Validated' Model of Hepatic Clearance Using ODEs -- 5.8.Conclusions -- Recommended Reading -- References -- 6.Modelling Tissues and Organs -- 6.1.Introduction -- 6.2.Modelling Epithelia -- 6.3.Cardiac Modelling -- Box 6.1 The Navier-Stokes Equations for Fluid flow -- 6.4.Gl Tract Modelling -- 6.5.Modelling Kidney Function and Homeostasis -- 6.6.General Homeostasis and Blood-Pressure Regulation -- 6.7.Conclusions -- Recommended Reading -- References -- 7.Multi-Scale Modelling and Simulation -- 7.1.Introduction: Multi-Scale Modelling in Computational Physiology -- 7.2.Why Multi-Scale Modelling? -- 7.3.A Framework for Multi-Scale Modelling and Computing -- 7.4.Scale Bridging -- 7.5.Multi-Scale Computing -- 7.6.Case Study of a Multi-Scale Model: In-Stent Restenosis in Coronary Arteries -- 7.7.Conclusions -- Recommended Reading -- References -- |
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Contents note continued: 8.Workflows: Principles, Tools, and Clinical Applications -- 8.1.Introduction -- 8.2.Computational Workflows -- 8.3.Implementing Workflows -- 8.4.Provenance -- 8.5.Examples of Scientific Workflows -- 8.6.Some Key Considerations in Workflow Design -- 8.7.Conclusions -- List of Projects Referenced -- Recommended Reading -- References -- 9.Distributed Biomedical Computing -- 9.1.Introduction -- 9.2.Parallel Applications -- 9.3.The Computational Ecosystem -- 9.4.Computing Beyond the Desktop -- 9.5.Executing Simulations in a High-Performance Environment -- 9.6.Case Study: Calculating Drug Binding Affinities -- 9.7.Computational Infrastructures -- 9.8.Distributed Applications -- 9.9.Orchestrating Workflows from Distributed Applications -- 9.10.Case Study: Computational Investigations of Cranial Haemodynamics -- 9.11.Conclusions -- Recommended Reading -- References -- 10.Security and Privacy in Sharing Patient Data -- 10.1.Introduction -- |
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Contents note continued: 10.2.The Legal Background -- Box 10.1 Regulations and Directives -- 10.3.A Brief Overview of Information Security Concepts -- Box 10.2 Information Security Overview -- 10.4.The Data-Sharing Life Cycle -- 10.5.Data-Sharing Platform Architectures -- 10.6.Conclusions -- Recommended Reading -- References -- 11.Toward Clinical Deployment: Verification and Validation of Models -- 11.1.Introduction: Health Technology Assessment -- Box 11.1 EU Definition of a Medical Device -- 11.2.Code and Model Verification -- 11.3.Sensitivity Analysis -- 11.4.Model Validation -- 11.5.Validation of Integrative Models -- 11.6.Clinical Accuracy -- 11.7.Efficacy, Risk, and Cost-Benefit Analysis -- 11.8.Impact -- 11.9.Sustainability -- 11.10.Conclusions -- Recommended Reading -- References -- Appendix: Markup Languages, Standards, and Model Repositories -- A.1.Introduction -- A.2.Infrastructure for Computational Biomedicine -- A.3.Syntax, Semantics, and Annotation of Models -- |
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Contents note continued: A.4.Markup Languages -- A.5.Model Repositories -- A.6.Conclusions -- References |
| Bibliography |
Includes bibliographical references and index |
| Subject |
Medical technology.
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Biomedical engineering.
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Medical sciences -- Computer simulation.
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Biological models -- Computer simulation.
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Biomedical Technology.
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Computational Biology.
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Biomedical Engineering.
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Computer Simulation.
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Models, Anatomic.
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Models, Biological.
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| Author |
Coveney, Peter (Peter V.), editor
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Díaz-Zuccarini, Vanessa, 1975- editor
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Hunter, Peter, 1948- editor
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Viceconti, Marco, editor
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| LC no. |
2013956438 |
| ISBN |
9780199658183 (paperback) |
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0199658188 (paperback) |
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