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Towards an engineering theory of evolution
Biological technologies are fundamentally unlike any other because biology evolves.
Bioengineering therefore requires novel design methodologies with evolution at their core …
Bioengineering therefore requires novel design methodologies with evolution at their core …
A new era of synthetic biology—microbial community design
Synthetic biology conceptualizes biological complexity as a network of biological parts,
devices, and systems with predetermined functionalities and has had a revolutionary impact …
devices, and systems with predetermined functionalities and has had a revolutionary impact …
Biological standards for the Knowledge-Based BioEconomy: What is at stake
The contribution of life sciences to the Knowledge-Based Bioeconomy (KBBE) asks for the
transition of contemporary, gene-based biotechnology from being a trial-and-error …
transition of contemporary, gene-based biotechnology from being a trial-and-error …
The first 10 years of the international coordination network for standards in systems and synthetic biology (COMBINE)
This paper presents a report on outcomes of the 10th Computational Modeling in Biology
Network (COMBINE) meeting that was held in Heidelberg, Germany, in July of 2019. The …
Network (COMBINE) meeting that was held in Heidelberg, Germany, in July of 2019. The …
Adapting modeling and simulation credibility standards to computational systems biology
Computational models are increasingly used in high-impact decision making in science,
engineering, and medicine. The National Aeronautics and Space Administration (NASA) …
engineering, and medicine. The National Aeronautics and Space Administration (NASA) …
Automatic reuse, adaption, and execution of simulation experiments via provenance patterns
Simulation experiments are typically conducted repeatedly during the model development
process, for example, to revalidate if a behavioral property still holds after several model …
process, for example, to revalidate if a behavioral property still holds after several model …
Specifications of standards in systems and synthetic biology: status, developments, and tools in 2024
The “COmputational Modeling in BIology NEtwork”(COMBINE) initiative aims to harmonise
the development of diverse community standards for computational models in biology [1, 2] …
the development of diverse community standards for computational models in biology [1, 2] …
standard-GEM: standardization of open-source genome-scale metabolic models
The field of metabolic modelling at the genomescale continues to grow with more models
being created and curated. This comes with an increasing demand for adopting common …
being created and curated. This comes with an increasing demand for adopting common …
Advancing reproducibility can ease the 'hard truths' of synthetic biology
Reproducibility has been identified as an outstanding challenge in science, and the field of
synthetic biology is no exception. Meeting this challenge is critical to allow the transformative …
synthetic biology is no exception. Meeting this challenge is critical to allow the transformative …
Specifications of standards in systems and synthetic biology: status and developments in 2022 and the COMBINE meeting 2022
This special issue of the Journal of Integrative Bioinformatics contains updated
specifications of COMBINE standards in systems and synthetic biology. The 2022 special …
specifications of COMBINE standards in systems and synthetic biology. The 2022 special …