The complexity of the data obtained from all the above mentioned advanced measurement schemes necessitates the application of systems biology techniques for analysis (Ghosh et al., 2011). Computational methods such as multi-scale modeling can combine recordings from different modalities at different time and/or spatial scales into a topological model of a system, e.g., cortical circuit. Through multi-scale modeling, the overall neuronal network activity can be understood, while also having the ability to zoom in to single neurons and even in a specific part of a neuron to study the details of the biochemical and electrical reactions involved. Some works have already started in this direction (Mattioni and Le Novère, 2013). There are already available platforms and packages to develop full compartment models of neurons and neuronal networks based on electrical activity, e.g., NEURON (Hines and Carnevale, 1997) and GENESIS (Bower and Beeman, 1998). There are also tools for modeling biochemical processes, e.g., E-CELL3 (Takahashi et al., 2004), STEPS (Wils and De Schutter, 2009; Hepburn et al., 2012), COPASI (Hoops et al., 2006), SBMLOdeSolver (Machné et al., 2006). The main challenge
