Simulating self-replicating patterns of DNA tiles

Vinay K. Gautam, Rajendra Prasath

Research output: Chapter in Book/Report/Conference proceedingConference contributionScientificpeer-review

Abstract

This paper presents a simulation framework in which a pre-assembled rectangular pattern of DNA tiles can be put together with sets of other DNA tiles to autonomously assemble replicas of itself in a discrete two-dimensional grid. The simulator implements both abstract and chemical kinetics based modelling to simulate the tile pattern self-replication. While the abstract model uses only logical matching between the edges of tiles to guide the assembly process, the chemical kinetics model calculates stochastic preference for attachment and/or detachment of each tile during the self-replication. A comparison is made between pattern self-replication timing in the abstract model and cellular automata based models. Simulation of chemical kinetics behaviour shows that the physico-chemical parameters of tile self-assembly govern the tractability of self-replication process and reliability of replicating patterns. Observations are made about the limitations of the simulator, and a few suggestions for improvement and further studies are discussed.

Original languageEnglish
Title of host publicationEAI International Conference on Bio-inspired Information and Communications Technologies (BICT)
Pages130-137
Number of pages8
ISBN (Electronic)978-1-63190-148-5
DOIs
Publication statusPublished - 1 Jan 2017
MoE publication typeA4 Article in a conference publication

Keywords

  • Algorithmically programmable pattern self-replication
  • DNA self-assembly
  • DNA tile
  • Simulation of self-replication

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    Gautam, V. K., & Prasath, R. (2017). Simulating self-replicating patterns of DNA tiles. In EAI International Conference on Bio-inspired Information and Communications Technologies (BICT) (pp. 130-137) https://doi.org/10.4108/eai.22-3-2017.152414