Building an Open Representation for Biological Protocols
ACM Journal on Emerging Technologies in Computing Systems, 2023. [All Versions]. Laboratory protocols are critical to biological research and development, yet difficult to communicate and reproduce across projects, investigators, and organizations. While many attempts have been…
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BioPlanner: Automatic Evaluation of LLMs on Protocol Planning in Biology aclanthology.org
EMNLP'23, 2023. [All Versions]. [Project]. This paper presents an automatic evaluation framework for the task of planning experimental protocols, and introduces BioProt: a dataset of biology protocols with corresponding pseudocode representations.
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Hierarchically Encapsulated Representation for Protocol Design in Self-Driving Labs openreview.net
ICLR'25, 2025. [All Versions]. [Project]. Self-driving laboratories have begun to replace human experimenters in performing single experimental skills or predetermined experimental protocols. However, as the pace of idea iteration in scientific research has been intensified by…
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Five keys to writing a reproducible lab protocol nature.com
Nature, 2021. [All Versions]. This interviewing paper introduces five ways to increase the reproducibility of experimental protocols: (i) documenting protocols as the experiment goes; (ii) providing video illustrations in addition to written protocols; (iii) using electronic…
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Universal chemical programming language for robotic synthesis repeatability nature.com
Nature Synthesis, 2024. [All Versions]. [Preprint]. The amount of chemical synthesis literature is growing quickly; however, it takes a long time to share and evaluate new processes among laboratories. This paper presents an approach that uses a universal chemical programming…
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Organic synthesis in a modular robotic system driven by a chemical programming language science.org
Science, 2019. [All Versions]. [Preprint]. [Perspective: Democratizing synthesis by automation]. This paper develops an autonomous compiler and robotic laboratory platform to synthesize organic compounds on the basis of standardized methods descriptions. The platform comprises…
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A Logic Programming Language for Computational Nucleic Acid Devices pubs.acs.org
ACS Synthetic Biology, 2018. [All Versions]. This paper presents a logic programming language that allows a broad range of computational nucleic acid systems to be designed and analyzed. The language extends standard logic programming with a novel equational theory to express…
AGI & CoCoSci › Papers > Domain Specific Language > Imperative DSL Applications: “ACM Journal on Emerging Technologies in Computing Systems, 2023. [All Versions]. Laboratory protocols are critical to biological research and development, yet difficult to communicate and reproduce across projects, investigators, and organizations. While many attempts have been…”