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[2602.16755] PREFER: An Ontology for the PREcision FERmentation Community
Summary
The PREFER ontology aims to standardize data in precision fermentation, enhancing interoperability and data accessibility across bioprocess platforms.
Why It Matters
With the rise of precision fermentation for sustainable production, the PREFER ontology addresses critical gaps in data standardization, enabling better integration of datasets across various platforms. This is essential for advancing research and applications in synthetic biology, ultimately supporting more efficient bioproduction processes.
Key Takeaways
- PREFER establishes a unified standard for bioprocess data in precision fermentation.
- It enhances data accessibility and interoperability across different platforms.
- The ontology supports automated workflows and high-fidelity data capture.
- PREFER can bridge data silos, facilitating machine learning applications in synthetic biology.
- Standardization through PREFER is crucial for scalable and data-driven bioproduction.
Quantitative Biology > Other Quantitative Biology arXiv:2602.16755 (q-bio) [Submitted on 18 Feb 2026] Title:PREFER: An Ontology for the PREcision FERmentation Community Authors:Txell Amigó (1), Shawn Zheng Kai Tan (2), Angel Luu Phanthanourak (1), Sebastian Schulz (1), Pasquale D. Colaianni (1), Dominik M. Maszczyk (1), Ester Milesi (1), Ivan Schlembach (1), Mykhaylo Semenov Petrov (1), Marta Reventós Montané (1), Lars K. Nielsen (1,3), Jochen Förster (1), Bernhard Ø. Palsson (1,4), Suresh Sudarsan (1, 5), Alberto Santos (1) ((1) The Novo Nordisk Foundation Center for Biosustainability, Technical University of Denmark, Kgs. Lyngby, Denmark, (2) SignaMind, Singapore, (3) Australian Institute for Bioengineering and Nanotechnology, The University of Queensland, Brisbane, Queensland, Australia, (4) The Department of Bioengineering, University of California, San Diego, USA, (5) Nexxar ApS, Lynge, Denmark) View a PDF of the paper titled PREFER: An Ontology for the PREcision FERmentation Community, by Txell Amig\'o (1) and 34 other authors View PDF Abstract:Precision fermentation relies on microbial cell factories to produce sustainable food, pharmaceuticals, chemicals, and biofuels. Specialized laboratories such as biofoundries are advancing these processes using high-throughput bioreactor platforms, which generate vast datasets. However, the lack of community standards limits data accessibility and interoperability, preventing integration across platforms. In order to address t...
