In recent years there have been extensive efforts to calculate the proteins found in synaptic preparations. It is found that synapses contain over 1000 different types of proteins (1). Despite the wealth in numbers, the fundamental question of what is the interaction amongst these proteins remains unanswered. The application of proteomic techniques to neuroscientific research provides an opportunity for a greater understanding of nervous system structure and function. As increasing amounts of neuroproteomic data become available, it is necessary to formulate methods to integrate these data in a meaningful way to obtain a more comprehensive picture of neuronal sub-compartments. Furthermore, computational methods can be used to make biologically relevant predictions from large proteomic datasets.
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