Hardware,Software,and Wetware Codesign Environment for Synthetic Biology  

作　　者：Samuel M.D.Oliveira Douglas Densmore 

机构地区：[1]Department of Electrical and Computer Engineering,Boston University,MA 02215,USA [2]Biological Design Center,Boston University,MA 02215,USA

出　　处：《BioDesign Research》2022年第1期136-150,共15页生物设计研究（英文）

基　　金：the National Natural Science Foundation of China Grant No.2211040“Collaborative Research:Model-guided design of bacterial interspecies interactions and trans-organismic communication in living intercellular circuits”(S.M.D.O.and D.D.);NSF Grant No.2027045“SemiSynBio-II:Hybrid Bio-Electronic Microfluidic Memory Arrays for Large Scale Testing and Remote Deployment”(S.M.D.O and D.D).

摘　　要：Synthetic biology is the process of forward engineering living systems.These systems can be used to produce biobased materials,agriculture,medicine,and energy.One approach to designing these systems is to employ techniques from the design of embedded electronics.These techniques include abstraction,standards,modularity,automated design,and formal semantic models of computation.Together,these elements form the foundation of“biodesign automation,”where software,robotics,and microfluidic devices combine to create exciting biological systems of the future.This paper describes a“hardware,software,wetware”codesign vision where software tools can be made to act as“genetic compilers”that transform high-level specifications into engineered“genetic circuits”(wetware).This is followed by a process where automation equipment,welldefined experimental workflows,and microfluidic devices are explicitly designed to house,execute,and test these circuits(hardware).These systems can be used as either massively parallel experimental platforms or distributed bioremediation and biosensing devices.Next,scheduling and control algorithms(software)manage these systems’actual execution and data analysis tasks.A distinguishing feature of this approach is how all three of these aspects(hardware,software,and wetware)may be derived from the same basic specification in parallel and generated to fulfill specific cost,performance,and structural requirements.

关 键 词：HARDWARE TOGETHER EXECUTION 

分 类 号：TP311.5[自动化与计算机技术—计算机软件与理论]