GUBS, a Behaviour-Based Language for Design in Synthetic Biology

Published in Volume XXIII, Issue 1, 2013, pages 1-38, doi: 10.7561/SACS.2013.1.1

Authors: A. Basso-Blandin, F. Delaplace

Abstract

In this article, we propose a domain specific language, GUBS (Genomic Unified Behaviour Specification), dedicated to the behavioural specification of synthetic biological devices, viewed as discrete open dynamical systems. GUBS is a rule-based declarative language. In contrast to a closed system, a program is always a partial description of the behaviour of the system. The semantics of the language accounts the existence of some hidden non-specified actions that possibly alter the behaviour of the programmed devices. The compilation framework follows a scheme similar to automated theorem proving, aiming at improving synthetic biological design safety.

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Bibtex

@article{sacscuza:basso-blandin2013gablfdisb,
  title={GUBS, a Behaviour-Based Language for Design in Synthetic Biology},
  author={A. Basso-Blandin and F. Delaplace},
  journal={Scientific Annals of Computer Science},
  volume={23},
  number={1},
  organization={``A.I. Cuza'' University, Iasi, Romania},
  year={2013},
  pages={1--38},
  doi={10.7561/SACS.2013.1.1},
  publisher={``A.I. Cuza'' University Press}
}