List of contributors ......................................... viii
Introduction .................................................... 1
M. Buchanan, G. Caldarelli, P. De Los Rios, F. Rao
and M. Vendruscolo
1 Network views of the cell .................................... 4
Paolo De Los Rios and Michele Vendruscolo
2 Transcriptional regulatory networks ......................... 14
Sarath Chandra Janga and M. Madan Babu
3 Transcription factors and gene regulatory networks .......... 36
Matteo Brilli, Elisa Calistri and Pietro Lió
4 Experimental methods for protein interaction
identification .............................................. 53
Peter Uetz, Björn Titz, Seesandra V. Rajagopala and Gerard
Cagney
5 Modeling protein interaction networks ....................... 83
Francesco Rao
6 Dynamics and evolution of metabolic networks ................ 93
Daniel Segrè
7 Hierarchical modularity in biological networks: the case
of metabolic networks ...................................... 117
Erzsébet Ravasz Regan
8 Signalling networks ........................................ 135
Gian Paolo Rossini
Appendix A Complex networks: from local to global
properties ........................................ 170
D. Garlaschelli and G. Caldarelli
Appendix В Modelling the local structure of networks ......... 188
D. Garlaschelli and G. Caldarelli
Appendix С Higher-order topological properties ............... 210
S. Ahnert, T. Fink and G. Caldarelli
Appendix D Elementary mathematical concepts .................. 219
A. Gabrielli and G. Caldarelli
References .................................................... 235
Index ......................................................... 269
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