Synthetic biology toolbox and chassis development in Bacillus subtilis

Y Liu, L Liu, J Li, G Du, J Chen - Trends in biotechnology, 2019 - cell.com
Based on technical advances in the sequencing and synthesis of genetic components as
well as the genome, significant progress has recently been made in develo** synthetic …

[HTML][HTML] Disease diagnosis in smart healthcare: Innovation, technologies and applications

KT Chui, W Alhalabi, SSH Pang, PO Pablos, RW Liu… - Sustainability, 2017 - mdpi.com
To promote sustainable development, the smart city implies a global vision that merges
artificial intelligence, big data, decision making, information and communication technology …

eQuilibrator 3.0: a database solution for thermodynamic constant estimation

ME Beber, MG Gollub, D Mozaffari… - Nucleic acids …, 2022 - academic.oup.com
Abstract eQuilibrator (equilibrator. weizmann. ac. il) is a database of biochemical equilibrium
constants and Gibbs free energies, originally designed as a web-based interface. While the …

[HTML][HTML] Fundamental behaviors emerge from simulations of a living minimal cell

ZR Thornburg, DM Bianchi, TA Brier, BR Gilbert… - Cell, 2022 - cell.com
We present a whole-cell fully dynamical kinetic model (WCM) of JCVI-syn3A, a minimal cell
with a reduced genome of 493 genes that has retained few regulatory proteins or small …

[HTML][HTML] Improving the phenotype predictions of a yeast genome‐scale metabolic model by incorporating enzymatic constraints

BJ Sánchez, C Zhang, A Nilsson… - Molecular systems …, 2017 - embopress.org
Genome‐scale metabolic models (GEM s) are widely used to calculate metabolic
phenotypes. They rely on defining a set of constraints, the most common of which is that the …

Machine learning applied to enzyme turnover numbers reveals protein structural correlates and improves metabolic models

D Heckmann, CJ Lloyd, N Mih, Y Ha… - Nature …, 2018 - nature.com
Knowing the catalytic turnover numbers of enzymes is essential for understanding the
growth rate, proteome composition, and physiology of organisms, but experimental data on …

Thermal proteome profiling in bacteria: probing protein state in vivo

A Mateus, J Bobonis, N Kurzawa, F Stein… - Molecular systems …, 2018 - embopress.org
Increasing antibiotic resistance urges for new technologies for studying microbes and
antimicrobial mechanism of action. We adapted thermal proteome profiling (TPP) to probe …

Creating new-to-nature carbon fixation: A guide

H Schulz-Mirbach, B Dronsella, H He, TJ Erb - Metabolic Engineering, 2024 - Elsevier
Synthetic biology aims at designing new biological functions from first principles. These new
designs allow to expand the natural solution space and overcome the limitations of naturally …

A review of computational tools for design and reconstruction of metabolic pathways

L Wang, S Dash, CY Ng, CD Maranas - Synthetic and systems …, 2017 - Elsevier
Metabolic pathways reflect an organism's chemical repertoire and hence their elucidation
and design have been a primary goal in metabolic engineering. Various computational …

A bird's-eye view of enzyme evolution: chemical, physicochemical, and physiological considerations

D Davidi, LM Longo, J Jabłońska, R Milo… - Chemical …, 2018 - ACS Publications
Enzymes catalyze a vast range of reactions. Their catalytic performances, mechanisms,
global folds, and active-site architectures are also highly diverse, suggesting that enzymes …