Engineering biological systems using automated biofoundries
Engineered biological systems such as genetic circuits and microbial cell factories have
promised to solve many challenges in the modern society. However, the artisanal processes …
promised to solve many challenges in the modern society. However, the artisanal processes …
Statistical design of experiments for synthetic biology
J Gilman, L Walls, L Bandiera… - ACS synthetic …, 2021 - ACS Publications
The design and optimization of biological systems is an inherently complex undertaking that
requires careful balancing of myriad synergistic and antagonistic variables. However …
requires careful balancing of myriad synergistic and antagonistic variables. However …
Evaluation of 244,000 synthetic sequences reveals design principles to optimize translation in Escherichia coli
Comparative analyses of natural and mutated sequences have been used to probe
mechanisms of gene expression, but small sample sizes may produce biased outcomes. We …
mechanisms of gene expression, but small sample sizes may produce biased outcomes. We …
An automated Design-Build-Test-Learn pipeline for enhanced microbial production of fine chemicals
The microbial production of fine chemicals provides a promising biosustainable
manufacturing solution that has led to the successful production of a growing catalog of …
manufacturing solution that has led to the successful production of a growing catalog of …
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 …
capabilities in synthetic biology, is an increasingly adopted metabolic engineering …
A pressure test to make 10 molecules in 90 days: external evaluation of methods to engineer biology
Centralized facilities for genetic engineering, or “biofoundries”, offer the potential to design
organisms to address emerging needs in medicine, agriculture, industry, and defense. The …
organisms to address emerging needs in medicine, agriculture, industry, and defense. The …
Towards next-generation cell factories by rational genome-scale engineering
Metabolic engineering holds the promise to transform the chemical industry and to support
the transition into a circular bioeconomy, by engineering cellular biocatalysts that efficiently …
the transition into a circular bioeconomy, by engineering cellular biocatalysts that efficiently …
Retrosynthetic design of metabolic pathways to chemicals not found in nature
Biology produces a universe of chemicals whose precision and complexity is the envy of
chemists. Over the last 30 years, the expansive field of metabolic engineering has many …
chemists. Over the last 30 years, the expansive field of metabolic engineering has many …
Multidimensional heuristic process for high-yield production of astaxanthin and fragrance molecules in Escherichia coli
Optimization of metabolic pathways consisting of large number of genes is challenging.
Multivariate modular methods (MMMs) are currently available solutions, in which reduced …
Multivariate modular methods (MMMs) are currently available solutions, in which reduced …
Precise quantification of translation inhibition by mRNA structures that overlap with the ribosomal footprint in N-terminal coding sequences
A Espah Borujeni, D Cetnar, I Farasat… - Nucleic acids …, 2017 - academic.oup.com
A mRNA's translation rate is controlled by several sequence determinants, including the
presence of RNA structures within the N-terminal regions of its coding sequences. However …
presence of RNA structures within the N-terminal regions of its coding sequences. However …