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Computational Immunology
Models and Tools
This book provides an applied approach to generating and refining hypotheses using computational modeling and simulation studies, and is an ideal resource for immunologists, computational biologists, bioinformaticians, biotechnologists, and computer scientists, as well as all those who wish to broaden their knowledge in systems modeling.
Josep Bassaganya-Riera (Author)
9780128036976, Elsevier Science
Paperback, published 27 October 2015
210 pages
22.9 x 15.1 x 1.5 cm, 0.39 kg
Computational Immunology: Models and Tools encompasses the methodological framework and application of cutting-edge tools and techniques to study immunological processes at a systems level, along with the concept of multi-scale modeling. The book's emphasis is on selected cases studies and application of the most updated technologies in computational modeling, discussing topics such as computational modeling and its usage in immunological research, bioinformatics infrastructure, ODE based modeling, agent based modeling, and high performance computing, data analytics, and multiscale modeling. There are also modeling exercises using recent tools and models which lead the readers to a thorough comprehension and applicability. The book is a valuable resource for immunologists, computational biologists, bioinformaticians, biotechnologists, and computer scientists, as well as all those who wish to broaden their knowledge in systems modeling.
1. Introduction to Computational Immunology Overview Modeling tools and techniques Use Cases Illustrating the Application of Computational Immunology Technologies 2. Computational Modeling Overview on Computational Modeling Translational Research Iterative Modeling Cycle Concluding Remarks 3. Use of Computational Modeling in Immunological Research Introduction Computational and mathematical modeling of the immune response to Helicobacter pylori Concluding remarks 4. Immunoinformatics cybernfrastructure for modeling and analytics Introduction Web Portal LabKey-based Laboratory Information Management System Public Repositories: ImmPort Global gene expression analysis High Performance Computing Environment HPC infrastructure for ENISI MSM modeling CyberInfrastructure for NETwork science (CINET) Pathosystems Resource Integration Center (Patric) Clinical Data Integration Concluding Remarks 5. Ordinary Differential Equations (ODE) based Modeling Introduction ODE based modeling pipeline Case studies: CD4+ T cell differentiation model Concluding Remarks 6. Agent-Based Modeling and High Performance Computing Introduction and basic definitions Related work Technical implementation of ENISI Formal Representation of ENISI Agent Based Modeling using ENISI Calibration and validation of the preliminary model Sensitivity Analysis for ABM Scaling the sensitivity analysis calculations Scalability and Performance Modeling Study investigating immune responses to H. pylori Concluding remarks 7. From Big Data Analytics and Network Inference to Systems Modeling Introduction Big Bata drives Big Models Tools, techniques and pipelines 8. Multiscale Modeling: Concepts, Technologies, and Use Cases in Immunology Introduction Multiscale modeling concepts and techniques Sensitivity analysis Multiscale Modeling of Mucosal Immune Responses Case Study Concluding remarks 9. Modeling exercises Modeling tools Models Model complexity and model-driven hypothesis generation Concluding remarks
Subject Areas: Immunology [MJCM], Medical bioinformatics [MBF]
