Biochemical filter with sigmoidal response: increasing the complexity of biomolecular logic.

Vladimir Privman, Jan Halámek, Mary A Arugula, Dmitriy Melnikov, Vera Bocharova, Evgeny Katz

Department of Chemistry and Biomolecular Science, Clarkson University, Potsdam, New York 13699, USA.

The journal of physical chemistry. B 2010 Nov 11

filter terms:

The first realization of a designed, rather than natural, biochemical filter process is reported and analyzed as a promising network component for increasing the complexity of biomolecular logic systems. Key challenge in biochemical logic research has been achieving scalability for complex network designs. Various logic gates have been realized, but a "toolbox" of analog elements for interconnectivity and signal processing has remained elusive. Filters are important as network elements that allow control of noise in signal transmission and conversion. We report a versatile biochemical filtering mechanism designed to have sigmoidal response in combination with signal-conversion process. Horseradish peroxidase-catalyzed oxidation of chromogenic electron donor by H(2)O(2) was altered by adding ascorbate, allowing to selectively suppress the output signal, modifying the response from convex to sigmoidal. A kinetic model was developed for evaluation of the quality of filtering. The results offer improved capabilities for design of scalable biomolecular information processing systems.

Citation

Vladimir Privman, Jan Halámek, Mary A Arugula, Dmitriy Melnikov, Vera Bocharova, Evgeny Katz. Biochemical filter with sigmoidal response: increasing the complexity of biomolecular logic. The journal of physical chemistry. B. 2010 Nov 11;114(44):14103-9