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<p>Lack of standardization in biofoundries limits the scalability and efficiency of synthetic biology research. Here, we propose an abstraction hierarchy that organizes biofoundry activities into four interoperable levels: Project, Service/Capability, Workflow, and Unit Operation, effectively streamlining the Design‑Build‑Test‑Learn (DBTL) cycle. This framework enables more modular, flexible, and automated experimental workflows. It improves communication between researchers and systems, supports reproducibility, and facilitates better integration of software tools and artificial intelligence. Our approach lays the foundation for a globally interoperable biofoundry network, advancing collaborative synthetic biology and accelerating innovation in response to scientific and societal challenges.</p>

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Abstraction hierarchy to define biofoundry workflows and operations for interoperable synthetic biology research and applications

  • 期刊论文

  • 出版模式：

    开放获取

  • 发表日期：

    2025年7月1日

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  • Haseong Kim,
  • Nathan J. Hillson,
  • Byung-Kwan Cho,
  • Bong Hyun Sung,
  • Dae-Hee Lee,
  • Dong-Myung Kim,
  • Min-Kyu Oh,
  • Matthew Wook Chang,
  • Yong-Su Jin,
  • Susan J. Rosser,
  • Peter Vegh,
  • Rennos Fragkoudis,
  • Rosalind Le Feuvre,
  • Nigel S. Scrutton,
  • Marko Storch,
  • Wonjae Seong,
  • Paul S. Freemont,
  • Seung-Goo Lee

摘要

Lack of standardization in biofoundries limits the scalability and efficiency of synthetic biology research. Here, we propose an abstraction hierarchy that organizes biofoundry activities into four interoperable levels: Project, Service/Capability, Workflow, and Unit Operation, effectively streamlining the Design‑Build‑Test‑Learn (DBTL) cycle. This framework enables more modular, flexible, and automated experimental workflows. It improves communication between researchers and systems, supports reproducibility, and facilitates better integration of software tools and artificial intelligence. Our approach lays the foundation for a globally interoperable biofoundry network, advancing collaborative synthetic biology and accelerating innovation in response to scientific and societal challenges.