Abstract
Synthetic biology seeks to create new biological parts, devices, and systems, and to reconfigure existing natural biological systems for custom-designed purposes. The standardized BioBrick parts are the foundation of synthetic biology. The incomplete and flawed metadata of BioBrick parts, however, are a major obstacle for designing genetic circuit easily, quickly, and accurately. Here, a database termed BioMaster http://www.biomaster-uestc.cn was developed to extensively complement information about BioBrick parts, which includes 47,934 items of BioBrick parts from the international Genetically Engineered Machine (iGEM) Registry with more comprehensive information integrated from 10 databases, providing corresponding information about functions, activities, interactions, and related literature. Moreover, BioMaster is also a user-friendly platform for retrieval and analyses of relevant information on BioBrick parts.
Highlights
As a branch of the emerging biological sciences in the 21st century, synthetic biology is dedicated to design and construct novel biological parts, devices, and systems for specific purposes, and to make the process of engineering biology easier (Heinemann and Panke, 2006; Bartley et al, 2017)
To complete the BioBrick metadata of the iGEM Registry, we developed a database called BioMaster
It is hoped that BioMaster could provide a platform to connect and standardize scattered biological part data, and to make designing of new biological systems easier both automatically and manually
Summary
As a branch of the emerging biological sciences in the 21st century, synthetic biology is dedicated to design and construct novel biological parts, devices, and systems for specific purposes, and to make the process of engineering biology easier (Heinemann and Panke, 2006; Bartley et al, 2017). BioBrick parts are biological parts that conform to a restriction-enzyme-based assembly standard, containing defined prefix and suffix sequences which can be recognized by specific restriction endonucleases (Canton et al, 2008; Shetty et al, 2008). The standardization of BioBrick parts makes the compatibility and assembly of different biological parts more efficient, and the development of tools for biological computer-aided design (CAD) possible. Since the first successfully synthetic toggle switch and repressilator (Gardner et al, 2000), several related CAD tools, aiming at making the design easier and high throughput, have been developed, such as GenoCAD (Cai et al, 2010), TinkerCell
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