e-space
Manchester Metropolitan University's Research Repository

A Genetic Circuit Compiler: Generating Combinatorial Genetic Circuits with Web Semantics and Inference

Waites, William and Misirli, Goksel and Cavaliere, Matteo and Danos, Vincent and Wipat, Anil (2018) A Genetic Circuit Compiler: Generating Combinatorial Genetic Circuits with Web Semantics and Inference. ACS Synthetic Biology, 7 (12). ISSN 2161-5063

[img]
Preview

Download (380kB) | Preview

Abstract

A central strategy of synthetic biology is to understand the basic processes of living creatures through engineering organisms using the same building blocks. Biological machines described in terms of parts can be studied by computer simulation in any of several languages or robotically assembled in vitro. In this paper we present a language, the Genetic Circuit Description Language (GCDL) and a compiler, the Genetic Circuit Compiler (GCC). This language describes genetic circuits at a level of granularity appropriate both for automated assembly in the laboratory and deriving simulation code. The GCDL follows Semantic Web practice and the compiler makes novel use of the logical inference facilities that are therefore available. We present the GCDL and compiler structure as a study of a tool for generating κ-language simulations from semantic descriptions of genetic circuits.

Impact and Reach

Statistics

Downloads
Activity Overview
110Downloads
188Hits

Additional statistics for this dataset are available via IRStats2.

Altmetric

Actions (login required)

View Item View Item