دورية أكاديمية
Genesis-DB: a database for autonomous laboratory systems.
| العنوان: | Genesis-DB: a database for autonomous laboratory systems. |
|---|---|
| المؤلفون: | Reder GK; The Department of Computer Science and Engineering, Chalmers University of Technology, Gothenburg, 412 58, Sweden., Gower AH; The Department of Computer Science and Engineering, Chalmers University of Technology, Gothenburg, 412 58, Sweden., Kronström F; The Department of Computer Science and Engineering, Chalmers University of Technology, Gothenburg, 412 58, Sweden., Halle R; Engineering for Research (e4r™), Thoughtworks Technologies (India) Pvt Ltd, Pune, 411006, India., Mahamuni V; Engineering for Research (e4r™), Thoughtworks Technologies (India) Pvt Ltd, Pune, 411006, India., Patel A; Engineering for Research (e4r™), Thoughtworks Technologies (India) Pvt Ltd, Pune, 411006, India., Hayatnagarkar H; Engineering for Research (e4r™), Thoughtworks Technologies (India) Pvt Ltd, Pune, 411006, India., Soldatova LN; Department of Computing, Goldsmiths, University of London, London, SE14 6AD, United Kingdom., King RD; The Department of Computer Science and Engineering, Chalmers University of Technology, Gothenburg, 412 58, Sweden.; Department of Chemical Engineering and Biotechnology, University of Cambridge, Cambridge, CB3 0AS, United Kingdom.; Alan Turing Institute, London, NW1 2DB, United Kingdom. |
| المصدر: | Bioinformatics advances [Bioinform Adv] 2023 Aug 02; Vol. 3 (1), pp. vbad102. Date of Electronic Publication: 2023 Aug 02 (Print Publication: 2023). |
| نوع المنشور: | Journal Article |
| اللغة: | English |
| بيانات الدورية: | Publisher: Oxford University Press Country of Publication: England NLM ID: 9918282081306676 Publication Model: eCollection Cited Medium: Internet ISSN: 2635-0041 (Electronic) Linking ISSN: 26350041 NLM ISO Abbreviation: Bioinform Adv Subsets: PubMed not MEDLINE |
| أسماء مطبوعة: | Original Publication: [Oxford] : Oxford University Press : International Society for Computational Biology, [2021]- |
| مستخلص: | Summary: Artificial intelligence (AI)-driven laboratory automation-combining robotic labware and autonomous software agents-is a powerful trend in modern biology. We developed Genesis-DB, a database system designed to support AI-driven autonomous laboratories by providing software agents access to large quantities of structured domain information. In addition, we present a new ontology for modeling data and metadata from autonomously performed yeast microchemostat cultivations in the framework of the Genesis robot scientist system. We show an example of how Genesis-DB enables the research life cycle by modeling yeast gene regulation, guiding future hypotheses generation and design of experiments. Genesis-DB supports AI-driven discovery through automated reasoning and its design is portable, generic, and easily extensible to other AI-driven molecular biology laboratory data and beyond. Availability and Implementation: Genesis-DB code and installation instructions are available at the GitHub repository https://github.com/TW-Genesis/genesis-database-system.git. The database use case demo code and data are also available through GitHub (https://github.com/TW-Genesis/genesis-database-demo.git). The ontology can be downloaded here: https://github.com/TW-Genesis/genesis-ontology/releases/download/v0.0.23/genesis.owl. The ontology term descriptions (including mappings to existing ontologies) and maintenance standard operating procedures can be found at: https://github.com/TW-Genesis/genesis-ontology. Competing Interests: None declared. (© The Author(s) 2023. Published by Oxford University Press.) |
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| تواريخ الأحداث: | Date Created: 20230821 Latest Revision: 20230823 |
| رمز التحديث: | 20231215 |
| مُعرف محوري في PubMed: | PMC10432352 |
| DOI: | 10.1093/bioadv/vbad102 |
| PMID: | 37600845 |
| قاعدة البيانات: | MEDLINE |
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