Computational Systems Biology

Foreword, Nicolas Le Novère.- 1 Functional genomics and molecular networks Gene expression regulations in complex diseases: Down syndrome as a case study, Marie-Claude Potier, Isabelle Rivals.- 2 Reconstructing Models from Proteomics Data, Lysimachos Zografos, Andrew J Pocklington, J Douglas Armstrong.- 3 Using chemical kinetics to model neuronal signalling pathways, Lukas Endler, Melanie I Stefan, Stuart J Edelstein, Nicolas Le Novère.- 4 Breakdown of mass-action laws in biochemical computation, Fidel Santamaria, Gabriela Antunes, Erik De Schutter.- 5 Spatial Organization and Diffusion in Neuronal Signaling, Sherry-Ann Brown, Raquell M. Holmes, and Leslie M. Loew.- 6 The Performance (and Limits) of Simple Neuron Models: Generalizations of the Leaky Integrate-and-Fire Model, Richard Naud, Wulfram Gerstner.- 7 Multi-compartmental models of neurons, Upinder S. Bhalla.- 8 Noise in neurons and other constraints, A. Aldo Faisal.- 9 Methodological issues in modelling at multiple levels of description, Kevin Gurney, Mark Humphries.- 10 Virtues, pitfalls, and methodology of neuronal network modeling and simulations on supercomputers, Anders Lansner, Markus Diesmann.- 11 Co-operative populations of neurons: Mean field models of mesoscopic brain activity, David T.J. Liley, Brett L. Foster, Ingo Bojak.- 12 Cellular spacing: analysis and modelling of retinal mosaics, Stephen J. Eglen.- 13Measuring and Modeling Morphology: How Dendrites Take Shape, Todd A. Gillette, Giorgio A. Ascoli.- 14 Axonal growth and targeting, Duncan Mortimer, Hugh D. Simpson, Geoffrey J. Goodhill.- 15 Encoding neuronal models in SBML, Sarah M. Keating, Nicolas Le Novère.- 16 NeuroML, Padraig Gleeson, Volker Steuber, R. Angus Silver, Sharon Crook.- 17 XPPAUT, Bard Ermentrout.- 18: NEST by example: an introduction to the neural simulation tool NEST, Marc-Oliver Gewaltig and Abigail Morrison, Hans Ekkehard Plesser.- Index