TY - GEN
T1 - Binary counting with chemical reactions
AU - Kharam, Aleksandra
AU - Jiang, Hua
AU - Riedel, Marc
AU - Parhi, Keshab
PY - 2011
Y1 - 2011
N2 - This paper describes a scheme for implementing a binary counter with chemical reactions. The value of the counter is encoded by logical values of 0 and 1 that correspond to the absence and presence of specific molecular types, respectively. It is incremented when molecules of a trigger type are injected. Synchronization is achieved with reactions that produce a sustained three-phase oscillation. This oscillation plays a role analogous to a clock signal in digital electronics. Quantities are transferred between molecular types in different phases of the oscillation. Unlike all previous schemes for chemical computation, this scheme is dependent only on coarse rate categories for the reactions (fast and slow). Given such categories, the computation is exact and independent of the specific reaction rates. Although conceptual for the time being, the methodology has potential applications in domains of synthetic biology such as biochemical sensing and drug delivery. We are exploring DNA-based computation via strand displacement as a possible experimental chassis.
AB - This paper describes a scheme for implementing a binary counter with chemical reactions. The value of the counter is encoded by logical values of 0 and 1 that correspond to the absence and presence of specific molecular types, respectively. It is incremented when molecules of a trigger type are injected. Synchronization is achieved with reactions that produce a sustained three-phase oscillation. This oscillation plays a role analogous to a clock signal in digital electronics. Quantities are transferred between molecular types in different phases of the oscillation. Unlike all previous schemes for chemical computation, this scheme is dependent only on coarse rate categories for the reactions (fast and slow). Given such categories, the computation is exact and independent of the specific reaction rates. Although conceptual for the time being, the methodology has potential applications in domains of synthetic biology such as biochemical sensing and drug delivery. We are exploring DNA-based computation via strand displacement as a possible experimental chassis.
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M3 - Conference contribution
C2 - 21121058
AN - SCOPUS:84872951624
SN - 9814335053
SN - 9789814335058
T3 - Pacific Symposium on Biocomputing 2011, PSB 2011
SP - 302
EP - 313
BT - Pacific Symposium on Biocomputing 2011, PSB 2011
T2 - 16th Pacific Symposium on Biocomputing, PSB 2011
Y2 - 3 January 2011 through 7 January 2011
ER -