Networks of Networks in Biology: Concepts, Tools and Applications

doi:10.1017/9781108553711

Biological systems are extremely complex and have emergent properties that cannot be explained or even predicted by studying their individual parts in isolation. The reductionist approach, although successful in the early days of molecular biology, underestimates this complexity. As the amount of available data grows, so it will become increasingly important to be able to analyse and integrate these large data sets. This book introduces novel approaches and solutions to the Big Data problem in biomedicine, and presents new techniques in the field of graph theory for handling and processing multi-type large data sets. By discussing cutting-edge problems and techniques, researchers from a wide range of fields will be able to gain insights for exploiting big heterogonous data in the life sciences through the concept of 'network of networks'.

‘… Networks of Networks in Biology should be of interest and a good introductory resource for molecular biologists, cell biologists, and biochemists, as well as bioinformaticians not yet acquainted with multilayer networks.’

Ingo Brigandt Source: Quarterly Review of Biology

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Contents

Frontmatter
pp i-iv
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Contents
pp v-vi
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List of Contributors
pp vii-viii
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Preface
pp ix-x
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Part I - Networks in Biology
pp 1-2
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1 - An Introduction to Biological Networks
pp 3-17
- By Planell Nuria, Martinez de Morentin Xabier, Gomez-Cabrero David
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2 - Graph Theory
pp 18-32
- By Dehnokhalaji Akram, Nasrabadi Nasim
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Part II - Network Analysis
pp 33-34
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3 - Structural Analysis of Biological Networks
pp 35-55
- By A. Kiani Narsis, Kivelä Mikko
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4 - Networks from an Information-Theoretic and Algorithmic Complexity Perspective
pp 56-70
- By Zenil Hector, A. Kiani Narsis
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5 - Integration and Feature Identification inMulti-layer Networks using a Heat Diffusion Approach
pp 71-82
- By Ball Gordon, Tegnér Jesper
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Part III - Multi-layer Networks
pp 83-84
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6 - Multiplex Networks
pp 85-104
- By Bianconi Ginestra
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7 - Existing Tools for Analysis of Multi-layer Networks
pp 105-120
- By Stella Massimo, De Domenico Manlio
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8 - Dynamics on Multi-layer Networks
pp 121-144
- By De Domenico Manlio, Stella Massimo
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Part IV - Applications
pp 145-146
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9 - The Network of Networks Involved in Human Disease
pp 147-171
- By Sin Celine, Menche Jörg
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10 - Towards a Multi-layer Network Analysis of Disease: Challenges and Opportunities Through the Lens of Multiple Sclerosis
pp 172-182
- By Tegnér Jesper, Kockum Ingrid, Gustafsson Mika, Gomez-Cabrero David
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11 - Microbiome: A Multi-layer Network View is Required
pp 183-194
- By Bacigalupe Rodrigo, Shoaie Saeed, Gomez-Cabrero David
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Part V - Conclusion
pp 195-196
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12 - Concluding Remarks: Open Questions and Challenges
pp 197-200
- By Bianconi Ginestra, Gomez-Cabrero David, Tegnér Jesper, A. Kiani Narsis
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Index
pp 201-204
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Networks of Networks in Biology

Concepts, Tools and Applications

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Contents

Frontmatter
pp i-iv

Contents
pp v-vi

List of Contributors
pp vii-viii

Preface
pp ix-x

Part I - Networks in Biology
pp 1-2

1 - An Introduction to Biological Networks
pp 3-17

2 - Graph Theory
pp 18-32

Part II - Network Analysis
pp 33-34

3 - Structural Analysis of Biological Networks
pp 35-55

4 - Networks from an Information-Theoretic and Algorithmic Complexity Perspective
pp 56-70

5 - Integration and Feature Identification inMulti-layer Networks using a Heat Diffusion Approach
pp 71-82

Part III - Multi-layer Networks
pp 83-84

6 - Multiplex Networks
pp 85-104

7 - Existing Tools for Analysis of Multi-layer Networks
pp 105-120

8 - Dynamics on Multi-layer Networks
pp 121-144

Part IV - Applications
pp 145-146

9 - The Network of Networks Involved in Human Disease
pp 147-171

10 - Towards a Multi-layer Network Analysis of Disease: Challenges and Opportunities Through the Lens of Multiple Sclerosis
pp 172-182

11 - Microbiome: A Multi-layer Network View is Required
pp 183-194

Part V - Conclusion
pp 195-196

12 - Concluding Remarks: Open Questions and Challenges
pp 197-200

Index
pp 201-204

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Networks of Networks in Biology

Concepts, Tools and Applications

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