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Networks in Cell Biology

ISBN-10: 0521882737

ISBN-13: 9780521882736

Edition: 2010

Authors: Mark Buchanan, Guido Caldarelli, Paolo De Los Rios, Francesco Rao, Michele Vendruscolo

List price: $108.95
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Book details

List price: $108.95
Copyright year: 2010
Publisher: Cambridge University Press
Publication date: 5/13/2010
Binding: Hardcover
Pages: 280
Size: 6.75" wide x 9.50" long x 0.50" tall
Weight: 1.584
Language: English

He holds a Ph.D. in theoretical physics from the University of Virginia. He has been an editor and writer for Nature and New Scientist.

Paolo De Los Rios is a Professor in the Laboratory of Statistical Biophysics, Institute of Theoretical Physics, #201;cole Polytechnique F_d_rale de Lausanne (EPFL).

Francesco Rao researches in the Laboratoire de Chimie Biophysique, University of Strasbourg.

Michele Vendruscolo is a Reader in Theoretical Chemical Biology at the Department of Chemistry, University of Cambridge.

List of contributors
Introduction
Network views of the cell
The network hypothesis
The central dogma and gene regulatory networks
Protein-protein interaction networks
Metabolic networks
Signaling networks
Networked networks and cell functionality
Concluding remarks
Transcriptional regulatory networks
Introduction
Transcriptional regulation in prokaryotes and eukaryotes
Structure of transcriptional regulatory networks
Evolution of transcriptional regulatory networks
Dynamics of transcriptional regulatory networks
Conclusions
Transcription factors and gene regulatory networks
Introduction
Promoters' complexity/eukaryotic gene promoters
Transcription factors
Bioinformatics of regulatory networks
Experimental methods for protein interaction identification
Introduction
Protein complementation techniques
Affinity purification methods
Protein complex purification and mass spectrometry
Protein and peptide chips
Other methods for interaction detection and functional analysis
Quality of large-scale interaction data
Comparison of methods
Conclusions
Modeling protein interaction networks
Introduction
Scaling laws and network topology
Predicting protein interactions
Towards models at an atomic level of resolution
Concluding remarks
Dynamics and evolution of metabolic networks
Introduction
Cellular metabolism and its regulation
Metabolism across disciplines
Dynamics of a metabolic system
Stoichiometric analysis
Constraint-based modeling: feasible states and optimality
Predicting genetic perturbations
Double perturbations and epistatic interactions
The ancient history of metabolism: from cell-scale to biosphere-scale
Conclusions
Hierarchical modularity in biological networks: the case of metabolic networks
Introduction
Modularity and hubs in biological networks
Scaling of the clustering coefficient: a signature of hierarchy
Method for finding network modules
A case study: the E. coli metabolic network
Hierarchy, fractality and the small world of networks
Conclusions
Signalling networks
Introduction
Chemical signalling: many pathways following a few general themes
Cross-talks among signal transduction pathways
Signalling networks, system organization and modelling
Conclusions and outlook
Complex networks: from local to global properties
Modelling the local structure of networks
Higher-order topological properties
Elementary mathematical concepts
References
Index