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Synthetic Biology

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[Opportunities and challenges for fermentation optimization and scale-up technology in the artificial intelligence era].

Sheng wu gong cheng xue bao = Chinese journal of biotechnology
Artificial intelligence (AI) technology is booming up a new industrial revolution, and its successful application is rapidly spreading from the information industry to many other fields. The traditional fermentation industry also faces more opportuni...

Enabling AI in synthetic biology through Construction File specification.

PloS one
The Construction File (CF) specification establishes a standardized interface for molecular biology operations, laying a foundation for automation and enhanced efficiency in experiment design. It is implemented across three distinct software projects...

Generative Artificial Intelligence GPT-4 Accelerates Knowledge Mining and Machine Learning for Synthetic Biology.

ACS synthetic biology
Knowledge mining from synthetic biology journal articles for machine learning (ML) applications is a labor-intensive process. The development of natural language processing (NLP) tools, such as GPT-4, can accelerate the extraction of published inform...

Cell-type-directed design of synthetic enhancers.

Nature
Transcriptional enhancers act as docking stations for combinations of transcription factors and thereby regulate spatiotemporal activation of their target genes. It has been a long-standing goal in the field to decode the regulatory logic of an enhan...

Targeted design of synthetic enhancers for selected tissues in the Drosophila embryo.

Nature
Enhancers control gene expression and have crucial roles in development and homeostasis. However, the targeted de novo design of enhancers with tissue-specific activities has remained challenging. Here we combine deep learning and transfer learning t...

Mechanistic Model-Driven Biodesign in Mammalian Synthetic Biology.

Methods in molecular biology (Clifton, N.J.)
Mathematical modeling plays a vital role in mammalian synthetic biology by providing a framework to design and optimize design circuits and engineered bioprocesses, predict their behavior, and guide experimental design. Here, we review recent models ...

Synthetic biological neural networks: From current implementations to future perspectives.

Bio Systems
Artificial neural networks, inspired by the biological networks of the human brain, have become game-changing computing models in modern computer science. Inspired by their wide scope of applications, synthetic biology strives to create their biologi...

Transforming drug development with synthetic biology and AI.

Trends in biotechnology
The COVID-19 pandemic has thrust RNA as a platform for drug development into the spotlight. However, identifying promising drug candidates is challenging. With advances in synthetic biology and artificial intelligence (AI) models, we can overcome thi...

Rational construction of synthetic consortia: Key considerations and model-based methods for guiding the development of a novel biosynthesis platform.

Biotechnology advances
The rapid development of synthetic biology has significantly improved the capabilities of mono-culture systems in converting different substrates into various value-added bio-chemicals through metabolic engineering. However, overexpression of biosynt...