Common principles and best practices for engineering microbiomes

CE Lawson, WR Harcombe, R Hatzenpichler… - Nature Reviews …, 2019 - nature.com
Despite broad scientific interest in harnessing the power of Earth's microbiomes, knowledge
gaps hinder their efficient use for addressing urgent societal and environmental challenges …

Machine learning for metabolic engineering: A review

CE Lawson, JM Martí, T Radivojevic… - Metabolic …, 2021 - Elsevier
Abstract Machine learning provides researchers a unique opportunity to make metabolic
engineering more predictable. In this review, we offer an introduction to this discipline in …

A machine learning Automated Recommendation Tool for synthetic biology

T Radivojević, Z Costello, K Workman… - Nature …, 2020 - nature.com
Synthetic biology allows us to bioengineer cells to synthesize novel valuable molecules
such as renewable biofuels or anticancer drugs. However, traditional synthetic biology …

Recent advances in machine learning applications in metabolic engineering

P Patra, BR Disha, P Kundu, M Das, A Ghosh - Biotechnology Advances, 2023 - Elsevier
Metabolic engineering encompasses several widely-used strategies, which currently hold a
high seat in the field of biotechnology when its potential is manifesting through a plethora of …

[HTML][HTML] A machine learning approach to predict metabolic pathway dynamics from time-series multiomics data

Z Costello, HG Martin - NPJ systems biology and applications, 2018 - nature.com
New synthetic biology capabilities hold the promise of dramatically improving our ability to
engineer biological systems. However, a fundamental hurdle in realizing this potential is our …

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

P Opgenorth, Z Costello, T Okada, G Goyal… - ACS synthetic …, 2019 - ACS Publications
The Design–Build–Test–Learn (DBTL) cycle, facilitated by exponentially improving
capabilities in synthetic biology, is an increasingly adopted metabolic engineering …

Microbioreactor systems for accelerated bioprocess development

J Hemmerich, S Noack, W Wiechert… - Biotechnology …, 2018 - Wiley Online Library
In recent years, microbioreactor (MBR) systems have evolved towards versatile bioprocess
engineering tools. They provide a unique solution to combine higher experimental …

Artificial intelligence: a solution to involution of design–build–test–learn cycle

X Liao, H Ma, YJ Tang - Current opinion in biotechnology, 2022 - Elsevier
Highlights•DBTL for cell factory development faces involution without breakthrough.•
Machine learning can assist DBTL from genetic optimizations to fermentation controls.•The …

Machine learning for the advancement of genome-scale metabolic modeling

P Kundu, S Beura, S Mondal, AK Das, A Ghosh - Biotechnology Advances, 2024 - Elsevier
Constraint-based modeling (CBM) has evolved as the core systems biology tool to map the
interrelations between genotype, phenotype, and external environment. The recent …

合成生物研究重大科技基础设施概述

张亭, 冷梦甜, 金帆, 袁海 - 合成生物学, 2022 - synbioj.cip.com.cn
合成生物学研究中, 海量的工程化试错实验远远超出传统的劳动密集型研究范式的能力范畴,
故建立一个可以实现生命体工程化大批量合成的合成生物学研究平台迫在眉睫 …