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 …

Mixed quantum mechanical/molecular mechanical molecular dynamics simulations of biological systems in ground and electronically excited states

E Brunk, U Rothlisberger - Chemical reviews, 2015 - ACS Publications
The quantum nature of electrons and nuclei is manifested in countless biological events
including the rearrangements of electrons in biochemical reactions, electron and proton …

Extracting knowledge from data through catalysis informatics

AJ Medford, MR Kunz, SM Ewing, T Borders… - Acs …, 2018 - ACS Publications
Catalysis informatics is a distinct subfield that lies at the intersection of cheminformatics and
materials informatics but with distinctive challenges arising from the dynamic, surface …

Machine learning and deep learning in synthetic biology: Key architectures, applications, and challenges

MK Goshisht - ACS omega, 2024 - ACS Publications
Machine learning (ML), particularly deep learning (DL), has made rapid and substantial
progress in synthetic biology in recent years. Biotechnological applications of biosystems …

General theory for multiple input-output perturbations in complex molecular systems. 1. Linear QSPR electronegativity models in physical, organic, and medicinal …

H Gonzalez-Diaz, S Arrasate… - Current topics in …, 2013 - ingentaconnect.com
In general perturbation methods starts with a known exact solution of a problem and add
“small” variation terms in order to approach to a solution for a related problem without known …

Enzymatic degradation of cellulose in soil: A review

R Datta - Heliyon, 2024 - cell.com
Cellulose degradation is a critical process in soil ecosystems, playing a vital role in nutrient
cycling and organic matter decomposition. Enzymatic degradation of cellulosic biomass is …

New light on bacterial carbonic anhydrases phylogeny based on the analysis of signal peptide sequences

CT Supuran, C Capasso - Journal of Enzyme Inhibition and …, 2016 - Taylor & Francis
Among protein families, carbonic anhydrases (CAs, EC 4.2. 1.1) are metalloenzymes
characterized by a common reaction mechanism in all life domains: the carbon dioxide …

Semisupervised Gaussian process for automated enzyme search

J Mellor, I Grigoras, P Carbonell… - ACS synthetic biology, 2016 - ACS Publications
Synthetic biology is today harnessing the design of novel and greener biosynthesis routes
for the production of added-value chemicals and natural products. The design of novel …

[HTML][HTML] Partitioning dynamic electron correlation energy: Viewing Møller-Plesset correlation energies through Interacting Quantum Atom (IQA) energy partitioning

JL McDonagh, MA Vincent, PLA Popelier - Chemical Physics Letters, 2016 - Elsevier
Abstract Here MP2, MP3 and MP4 (SDQ) are energy-partitioned for the first time within the
Interacting Quantum Atoms (IQA) context, as proof-of-concept for H 2, He 2 and HF. Energies …

Are the sublimation thermodynamics of organic molecules predictable?

JL McDonagh, DS Palmer, T Mourik… - Journal of chemical …, 2016 - ACS Publications
We compare a range of computational methods for the prediction of sublimation
thermodynamics (enthalpy, entropy, and free energy of sublimation). These include a model …