The Exploration of Chemical Reaction Networks
arXiv:1906.10223 · doi:10.1146/annurev-physchem-071119-040123
Abstract
Modern computational chemistry has reached a stage at which massive exploration into chemical reaction space with unprecedented resolution with respect to the number of potentially relevant molecular structures has become possible. Various algorithmic advances have shown that such structural screenings must and can be automated and routinely carried out. This will replace the standard approach of manually studying a selected and restricted number of molecular structures for a chemical mechanism. The complexity of the task has led to many different approaches. However, all of them address the same general target, namely to produce a complete atomistic picture of the kinetics of a chemical process. It is the purpose of this overview to categorize the problems that are to be targeted and to identify the principle components and challenges of automated exploration machines so that the various existing approaches and future developments can be compared based on well-defined conceptual principles.
arXiv comment23 pages, 3 figures
References in corpus (31)
- Escaping free-energy minima
- Learning to Plan Chemical Syntheses
- Molecular Transformer - A Model for Uncertainty-Calibrated Chemical Reaction Prediction
- Automated Selection of Active Orbital Spaces
- A Practical Guide to Surface Kinetic Monte Carlo Simulations
- Exploration of Reaction Pathways and Chemical Transformation Networks
- New Benchmark Set of Transition-Metal Coordination Reactions for the Assessment of Density Functionals
- Heuristics-Guided Exploration of Reaction Mechanisms
- Modelling Chemical Reasoning to Predict Reactions
- Sampling molecular conformations and dynamics in a multi-user virtual reality framework
- Context-Driven Exploration of Complex Chemical Reaction Networks
- The Delicate Balance of Static and Dynamic Electron Correlation
- Training neural nets to learn reactive potential energy surfaces using interactive quantum chemistry in virtual reality
- autoCAS: a program for fully automated multi-configurational calculations
- Error-Controlled Exploration of Chemical Reaction Networks with Gaussian Processes
- Systematic Error Estimation for Chemical Reaction Energies
- Calculation of Ligand Dissociation Energies in Large Transition-Metal Complexes
- Semiempirical Molecular Orbital Models based on the Neglect of Diatomic Differential Overlap Approximation
- Gaussian Process-Based Refinement of Dispersion Corrections
- Interactive Chemical Reactivity Exploration
- Reliable estimation of prediction uncertainty for physico-chemical property models
- Variational Selection of Features for Molecular Kinetics
- Mechanism Deduction from Noisy Chemical Reaction Networks
- Inverse Quantum Chemistry: Concepts and Strategies for Rational Compound Design
- Error Assessment of Computational Models in Chemistry
- The parameters uncertainty inflation fallacy
- Steering Orbital Optimization out of Local Minima and Saddle Points Toward Lower Energy
- Blind search for complex chemical pathways using Harmonic Linear Discriminant Analysis
- Enhanced sampling of transition states
- Molecular propensity as a driver for explorative reactivity studies
- Quantum System Partitioning at the Single-Particle Level
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- Autonomous discovery in the chemical sciences part I: Progress
- Chemoton 2.0: Autonomous Exploration of Chemical Reaction Networks
- Autonomous Reaction Network Exploration in Homogeneous and Heterogeneous Catalysis
- Molassembler: Molecular graph construction, modification and conformer generation for inorganic and organic molecules
- Universal QM/MM Approaches for General Nanoscale Applications
- Expansive Quantum Mechanical Exploration of Chemical Reaction Paths
- Automated construction of quantum-classical hybrid models
- Pathfinder -- Navigating and Analyzing Chemical Reaction Networks with an Efficient Graph-based Approach
- Molecule-specific Uncertainty Quantification in Quantum Chemical Studies
- Solvation Free Energies in Subsystem Density Functional Theory
- High-throughput ab initio reaction mechanism exploration in the cloud with automated multi-reference validation
- Navigating chemical reaction space with a steering wheel
- Automated Exploration of Reaction Network and Mechanism via Meta-dynamics Nanoreactor
- On the Predictive Power of Chemical Concepts
- Concentration-Flux-Steered Mechanism Exploration with an Organocatalysis Application
- SCINE -- Software for Chemical Interaction Networks
- Automated Microsolvation for Minimum Energy Path Construction in Solution
- Uncertainty-aware First-principles Exploration of Chemical Reaction Networks
- Characterizing Reaction Route Map of Realistic Molecular Reactions based on Weight Rank Clique Filtration of Persistent Homology
- Unveiling the hidden reaction kinetic network of carbon dioxide in supercritical aqueous solutions
- The chemistry of AlF and CaF production in buffer gas sources
- Interoperable Workflows by Exchanging Grid-Based Data between Quantum-Chemical Program Packages
- Molecular relaxation by reverse diffusion with time step prediction
- Density Functional Theory Calculations on the Interstellar Formation of Biomolecules
- Heron: Visualizing and Controlling Chemical Reaction Explorations and Networks
- Lifelong Machine Learning Potentials for Chemical Reaction Network Explorations
- Ultra-fast Spectroscopy for High-Throughput and Interactive Quantum Chemistry
- Heuristics and Uncertainty Quantification in Rational and Inverse Compound and Catalyst Design
- Network topology mapping of Chemical Compounds Space
- Effective one-dimension reduction of multi-compartment complex systems dynamics
- The Transferability Limits of Static Benchmarks
- Automated Exploration of Radical-Molecule Chemistry: The Case of Oxirane + CH in the ISM