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(under construction)
Peter Bentley's MOBIUS project.
Peter Bentley's publications: (interesting things include fractal protein and developmental work as well as novel robotics, and a few books).
Jaroslav Stark suggests the following papers, dealing with the complexity of reconstructing complicated networks etc:
http://bioinformatics.oupjournals.org/cgi/content/abstract/17/12/1183
http://dx.doi.org/10.1006/jtbi.2002.3119
Also, http://www.pnas.org/cgi/content/abstract/100/14/8092 which may provide an important new paradigm for modelling such networks.
Another reference is: http://dx.doi.org/10.1006/bulm.2001.0263. This is the only reference I know of that applies matroids to biological networks. This is potentially a very powerful generalization of a graph, for which a great deal of theory exists. I don't know how much it has been taken up by computer scientists, but Knuth wrote a monograph called Axioms and Hulls which is related.
Jim Austin thought the following conference may be useful:
Biologically Inspired Cognitive Systems / Scotland 2004
The science of neural computation focuses on mathematical aspects for solving complex practical problems. It also seeks to help neurology, brain theory and cognitive psychology in the understanding of the functioning of the nervous system by means of computational models of neurons, neural nets and sub-cellular processes. BICS2004 aims to become a major point of contact for research scientists, engineers and practitioners throughout the world in the fields of cognitive and computational systems inspired by the brain and biology.
Participants will share the latest research, developments and ideas in the wide arena of disciplines encompassed under the heading of BICS2004:
First International ICSC Symposium on Cognitive Neuro Science (CNS 2004) (from computationally inspired models to brain-inspired computation) Chair: Prof. Igor Aleksander, Imperial College London, U.K
Second International ICSC Symposium on Biologically Inspired Systems (BIS 2004) Chair: Prof. Leslie Smith, University of Stirling, U.K.
Third International ICSC Symposium on Neural Computation (NC'2004) Chair: Dr. Amir Hussain, University of Stirling, U.K.
http://www.icsc-naiso.org/conferences/bics2004/bics-cfp.html