A micro-sequenced CMOS model for cell signalling pathway using G-protein and phosphorylation cascade
International Journal of Computer Applications in Technology
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Genetic expression and control pathways can be successfullymodeled as electrical circuits. Given the vast quantityof genomic data, very large and complex genetic circuitscan be constructed. To tackle such problems, themassively-parallel, electronic circuit simulator, XyceTM, isbeing adapted to address biological problems. Unique tothis biocircuit simulator is the ability to simulate not justone or a set of genetic circuits in a cell, but many cells andtheir internal circuits interacting through a common environment.Currently, electric circuit analogs for common biologicaland chemical machinery have been created. Using suchanalogs, one can construct expression, regulation and reactionnetworks. Individual species can be connected toother networks or cells via non-diffusive or diffusive channels(i.e. regions where species diffusion limits mass transport).Within any cell, a hierarchy of networks may existoperating at different time-scales to represent different aspectsof cellular processes.Though under development, this simulator can modelinteresting biological and chemical systems. Prokaryoticgenetic and metabolic regulatory circuits have been constructedand their interactions simulated for Escherichiacoli's tryptophan biosynthesis pathway. Additionally,groups of cells each containing an internal reaction networkand communicating via a diffusion limited environment canproduce periodic concentration waves. Thus, this biologicalcircuit simulator has the potential to explore large, complexsystems and environmentally coupled problems.