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Automatic Compilation from High-Level Biologically-Oriented Programming Language to Genetic Regulatory Networks

Figure 1

Proto biocompiler architecture and example.

(a) This paper extends the Proto spatial computing language with mechanisms for genetic regulatory network design (pink). (b) An example showing how a simple high level behavioral specification is converted first into a dataflow network, then into a genetic regulatory network, and finally optimized. In this example, green fluorescence is turned ON only when both small molecule inputs aTc and IPTG are not present (aTc, anhydrotetracycline. IPTG, Isopropyl -D-1-thiogalactopyranoside). A–F represent transcriptional repressors to be chosen later from a parts library.

Figure 1