20.500.12556/RUL-140526 A computational design of a programmable biological processor Basic synthetic information processing structures, such as logic gates, oscillators and flip-flops, have already been implemented in living organisms. Current implementations of these structures have yet to be extended to more complex processing structures that would constitute a biological computer. We make a step forward towards the construction of a biological computer. We describe a model-based computational design of a biological processor that uses transcription and translation resources of the host cell to perform its operations. The proposed processor is composed of an instruction memory containing a biological program, a program counter that is used to address this memory, and a biological oscillator that triggers the execution of the next instruction in the memory. We additionally describe the implementation of a biological compiler that compiles a sequence of human-readable instructions into ordinary differential equation-based models, which can be used to simulate and analyse the dynamics of the processor. The proposed implementation presents the first programmable biological processor that exploits cellular resources to execute the specified instructions. We demonstrate the application of the described processor on a set of simple yet scalable biological programs. Biological descriptions of these programs can be produced manually or automatically using the provided compiler. biological processor master–slave D flip-flop computational design biological program instruction memory biological compiler biološki procesor pomnilna celica D s predpomnjenjem računalniško načrtovanje biološki program naslovni pomnilnik biološki prevajalnik true false true Angleški jezik Slovenski jezik Članek v reviji 2022-09-15 11:35:25 2022-09-15 11:35:26 2023-01-20 03:40:01 0000-00-00 00:00:00 2022 0 0 12 str. art. 104778 Vol. 221 2022 0000-00-00 Zaloznikova Objavljeno NiDoloceno 0000-00-00 0000-00-00 0000-00-00 004:575.112 0303-2647 10.1016/j.biosystems.2022.104778 120944131 1-s2.0-S0303264722001599-main.pdf 1-s2.0-S0303264722001599-main.pdf 1 1CE3264B6047C315F18E4AFDE9759EAF 21c4f649ae3cbbf9949780df8a04a9cb8b3838ee07ae44296f6b0457458e4a57 38b32702-97d3-11ed-9c94-00155dcfd717 https://repozitorij.uni-lj.si/Dokument.php?lang=slv&id=165969 https://www.sciencedirect.com/science/article/pii/S0303264722001599 0 a90a3251-34d9-11ed-92af-00155dcfd717 https://repozitorij.uni-lj.si/Dokument.php?lang=slv&id=161275 Fakulteta za računalništvo in informatiko 0 0 0