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"In Silico" Simulation of Biological Processes

✍ Scribed by Novartis Foundation


Publisher
Wiley
Year
2003
Tongue
English
Leaves
273
Series
Novartis Foundation Symposia 247
Edition
1st
Category
Library

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✦ Synopsis


Over recent decades vast amounts of biological data have been accumulated. However, it is becoming increasingly difficult to apply traditional theoretical methods to the formulation of coherent pictures of cell and organ function because it is no longer possible for a human theorist to integrate all of the available information. Instead, computer technologies must now be used to perform this integration. This book brings together contributions from many different fields to summarize the current status of computer-assisted modelling of biological processes.The initial chapters deal with fundamental developments in hardware, software and mathematics that underlie current approaches to biological modelling. Next, different approaches to collating data on gene structure and function are presented. These databases form a vital resource for any investigator trying to construct an integrated picture of particular biological systems.Cell signalling systems form a particularly complicated aspect of all cellular function and are important both in the understanding of basic cellular processes and in selecting targets for drugs. Recent approaches to integrating data on cell signalling into computer models are covered. Further chapters build on these approaches to show how computerized models of intact cells can be developed. Finally, approaches to the computer modelling of whole organs such as the heart are presented. The role of computer modelling in drug design is the subject of the final chapter and is also touched on throughout the discussions.

✦ Table of Contents


β€˜IN SILICO’ SIMULATION OF BIOLOGICAL PROCESSES......Page 4
Contents......Page 8
Participants......Page 10
Chair’s introduction......Page 12
Integrative biological modelling in silico......Page 15
Discussion......Page 31
Advances in computing, and their impact on scientific computing......Page 37
Discussion......Page 45
From physics to phenomenology. Levels of description and levels of selection......Page 53
Making sense of complex phenomena in biology......Page 64
Discussion......Page 71
On ontologies for biologists: the Gene Ontologyβ€”untangling the web......Page 77
Discussion......Page 91
Model validation......Page 95
The KEGG database......Page 102
Discussion......Page 112
Bioinformatics of cellular signalling......Page 115
Discussion......Page 127
Standards of communication......Page 130
Semantics and intercommunicability......Page 132
Imaging-based integrative models of the heart: closing the loop between experiment and simulation......Page 140
Discussion......Page 152
Modelling Ca(2+) signalling......Page 155
The Virtual Cell project......Page 162
Discussion......Page 171
Modelling the bacterial chemotaxis receptor complex......Page 173
Discussion......Page 205
The heart cell in silico: successes, failures and prospects......Page 193
General discussion IV......Page 209
The IUPS Physiome Project......Page 218
Discussion......Page 228
Using in silico biology to facilitate drug development......Page 233
Discussion......Page 249
Is there a theoretical biology?......Page 255
Index of contributors......Page 264
Subject index......Page 266


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