Modeling Calcium Concentration and Biochemical Reactions

Almost all regions of the brain receive one or more neuromodulatory inputs, and disrupting these inputs produces deficits in neuronal function. Neuromodulators act through intracellular second messenger pathways to influence the electrical properties of neurons, integration of synaptic inputs, spatio-temporal firing dynamics of neuronal networks, and, ultimately, systems behavior. Second messengers pathways consist of series of bimolecular reactions, enzymatic reactions, and diffusion. Calcium is the second messenger molecule with the most effectors, and thus is highly regulated by buffers, pumps and intracellular stores. Computational modeling provides an innovative, yet practical method to evaluate the spatial extent, time course and interaction among second messenger pathways, and the interaction of second messengers with neuron electrical properties. These processes occur both in compartments where the number of molecules are large enough to describe reactions deterministically (e.g. cell body), and in compartments where the number of molecules is small enough that reactions occur stochastically (e.g. spines). – In this tutorial, I explain how to develop models of second messenger pathways and calcium dynamics. The first part of the tutorial explains the equations used to model bimolecular reactions, enzyme reactions, calcium release channels, calcium pumps and diffusion. The second part explains some of the GENESIS, Kinetikit and Chemesis objects that implement the appropriate equations. In depth explanation of calcium and second messenger models is provided by reviewing code, both in XPP, Chemesis and Kinetikit, that implements simple models of calcium dynamics and second messenger cascades.

De-Territorialization and Re-Territorialization of “the social”. A debate

Deterritorialization has been used as an anthropological concept to designate the weakened ties between culture and place: Certain cultural/social processes and relations seem to increasingly transcend their previously given territorial boundaries in flexible capitalist societies. At the same time, policy studies, especially Studies on Governmentality, have emphasized the re-territorialization of the social, in which the former national welfare arrangements (welfare and nation state) as the scale of bio-political integration patterns are more and more substituted by small scaled inclusion areas (e.g. neighbourhoods, districts and communities). Drawing on Deleuze and Guattari, de-territorialization processes have therefore always to be understood as combined with processes of a re-territorialization, producing new spatial formations. In this view, spatial arrangements and connections are not given and static structures, but controversial and unstable – nevertheless they are influential.