Experimentally Constructing Semantic Models Based on DNA Computing

Abstract

We propose a new DNA-based semantic model, constructed of DNA molecules, called a semantic model based on molecular computing (SMC). It is structured as a graph formed by the set of all (attribute, attribute value) pairs contained in the set of represented objects, plus a tag node for each object. Each path in the network, from an initial object-representing tag node to the terminal node, represents the object named on the tag. Inputting a set of input strands the forms object-representing dsDNAs via parallel self-assembly from encoded ssDNAs representing both attributes and attribute values (nodes), as directed by ssDNA splitting strands representing relations (edges) in the network. The success of experiments in constructing a small test model demonstrates that our proposed model suitably represents knowledge to storing vast amounts of information at high density.