AIMC Topic: Synthetic Biology

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Lessons from Two Design-Build-Test-Learn Cycles of Dodecanol Production in Escherichia coli Aided by Machine Learning.

ACS synthetic biology May 24, 2019
The Design-Build-Test-Learn (DBTL) cycle, facilitated by exponentially improving capabilities in synthetic biology, is an increasingly adopted metabolic engineering framework that represents a more systematic and efficient approach to strain developm...
Machine Learning Algorithms Synthetic Biology Metabolic Engineering Escherichia coli Dodecanol Metabolic Networks and Pathways
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Standardizing Automated DNA Assembly: Best Practices, Metrics, and Protocols Using Robots.

SLAS technology Feb 15, 2019
The advancement of synthetic biology requires the ability to create new DNA sequences to produce unique behaviors in biological systems. Automation is increasingly employed to carry out well-established assembly methods of DNA fragments in a multiple...
Cloning, Molecular Genetic Engineering Automation, Laboratory Synthetic Biology Robotics Practice Guidelines as Topic DNA
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Tuning the Performance of Synthetic Riboswitches using Machine Learning.

ACS synthetic biology Jan 8, 2019
Riboswitch development for clinical, technological, and synthetic biology applications constantly seeks to optimize regulatory behavior. Here, we present a machine learning approach to improve the regulation of a tetracycline (tc)-dependent riboswitc...
Aptamers, Nucleotide Computational Biology Synthetic Biology Machine Learning Riboswitch Nucleic Acid Conformation Tetracycline
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Machine Learning of Designed Translational Control Allows Predictive Pathway Optimization in Escherichia coli.

ACS synthetic biology Jan 7, 2019
The field of synthetic biology aims to make the design of biological systems predictable, shrinking the huge design space to practical numbers for testing. When designing microbial cell factories, most optimization efforts have focused on enzyme and ...
Escherichia coli Synthetic Biology Machine Learning Ribosomes
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Deep learning to predict the lab-of-origin of engineered DNA.

Nature communications Aug 7, 2018
Genetic engineering projects are rapidly growing in scale and complexity, driven by new tools to design and construct DNA. There is increasing concern that widened access to these technologies could lead to attempts to construct cells for malicious i...
Genetic Engineering Bayes Theorem Mutation Synthetic Biology Plasmids Image Processing, Computer-Assisted DNA Software Deep Learning Neural Networks, Computer
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Machine metaphors and ethics in synthetic biology.

Life sciences, society and policy Jun 4, 2018
The extent to which machine metaphors are used in synthetic biology is striking. These metaphors contain a specific perspective on organisms as well as on scientific and technological progress. Expressions such as "genetically engineered machine", "g...
Robotics Ethics, Research Terminology as Topic Synthetic Biology Humans
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Leveraging knowledge engineering and machine learning for microbial bio-manufacturing.

Biotechnology advances May 3, 2018
Genome scale modeling (GSM) predicts the performance of microbial workhorses and helps identify beneficial gene targets. GSM integrated with intracellular flux dynamics, omics, and thermodynamics have shown remarkable progress in both elucidating com...
Machine Learning Bioreactors Metabolic Engineering Models, Biological Synthetic Biology
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Digital-to-biological converter for on-demand production of biologics.

Nature biotechnology May 29, 2017
Manufacturing processes for biological molecules in the research laboratory have failed to keep pace with the rapid advances in automization and parellelization. We report the development of a digital-to-biological converter for fully automated, vers...
Robotics Equipment Design Biological Products Equipment Failure Analysis Genetic Engineering High-Throughput Nucleotide Sequencing Biopolymers Synthetic Biology
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Biological standards for the Knowledge-Based BioEconomy: What is at stake.

New biotechnology May 4, 2017
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 endeavour to becoming an authentic branch of engineering. One requisite to this ...
Economic Development Genetic Engineering Synthetic Biology Biotechnology Knowledge Bases
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Anticipation: Beyond synthetic biology and cognitive robotics.

Bio Systems Aug 2, 2016
The aim of this paper is to propose that current robotic technologies cannot have intentional states any more than is feasible within the sensorimotor variant of embodied cognition. It argues that anticipation is an emerging concept that can provide ...
Psychophysiology Humans Robotics Computational Biology Brain-Computer Interfaces Animals Synthetic Biology Cognition Cybernetics
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