Combining machine learning and computational chemistry for predictive insights into chemical systems

JA Keith, V Vassilev-Galindo, B Cheng… - Chemical …, 2021 - ACS Publications
Machine learning models are poised to make a transformative impact on chemical sciences
by dramatically accelerating computational algorithms and amplifying insights available from …

Manifold learning: What, how, and why

M Meilă, H Zhang - Annual Review of Statistics and Its …, 2024 - annualreviews.org
Manifold learning (ML), also known as nonlinear dimension reduction, is a set of methods to
find the low-dimensional structure of data. Dimension reduction for large, high-dimensional …

Explainable machine learning for scientific insights and discoveries

R Roscher, B Bohn, MF Duarte, J Garcke - Ieee Access, 2020 - ieeexplore.ieee.org
Machine learning methods have been remarkably successful for a wide range of application
areas in the extraction of essential information from data. An exciting and relatively recent …

[HTML][HTML] sGDML: Constructing accurate and data efficient molecular force fields using machine learning

S Chmiela, HE Sauceda, I Poltavsky, KR Müller… - Computer Physics …, 2019 - Elsevier
We present an optimized implementation of the recently proposed symmetric gradient
domain machine learning (sGDML) model. The sGDML model is able to faithfully reproduce …

Molecular force fields with gradient-domain machine learning: Construction and application to dynamics of small molecules with coupled cluster forces

HE Sauceda, S Chmiela, I Poltavsky… - The Journal of …, 2019 - pubs.aip.org
We present the construction of molecular force fields for small molecules (less than 25
atoms) using the recently developed symmetrized gradient-domain machine learning …

Coarse-scale PDEs from fine-scale observations via machine learning

S Lee, M Kooshkbaghi, K Spiliotis, CI Siettos… - … Journal of Nonlinear …, 2020 - pubs.aip.org
Complex spatiotemporal dynamics of physicochemical processes are often modeled at a
microscopic level (through, eg, atomistic, agentbased, or lattice models) based on first …

Molecular force fields with gradient-domain machine learning (GDML): Comparison and synergies with classical force fields

HE Sauceda, M Gastegger, S Chmiela… - The Journal of …, 2020 - pubs.aip.org
Modern machine learning force fields (ML-FF) are able to yield energy and force predictions
at the accuracy of high-level ab initio methods, but at a much lower computational cost. On …

Double diffusion maps and their latent harmonics for scientific computations in latent space

N Evangelou, F Dietrich, E Chiavazzo… - Journal of …, 2023 - Elsevier
We introduce a data-driven approach to building reduced dynamical models through
manifold learning; the reduced latent space is discovered using Diffusion Maps (a manifold …

On the parameter combinations that matter and on those that do not: data-driven studies of parameter (non) identifiability

N Evangelou, NJ Wichrowski, GA Kevrekidis… - PNAS …, 2022 - academic.oup.com
We present a data-driven approach to characterizing nonidentifiability of a model's
parameters and illustrate it through dynamic as well as steady kinetic models. By employing …

Emergent spaces for coupled oscillators

TN Thiem, M Kooshkbaghi, T Bertalan… - Frontiers in …, 2020 - frontiersin.org
Systems of coupled dynamical units (eg, oscillators or neurons) are known to exhibit
complex, emergent behaviors that may be simplified through coarse-graining: a process in …