arXiv subjects

Christine M. Isborn

Publications and source records attributed to Christine M. Isborn.

14 recordsLinked to original sources

arXiv2026

Learning Memory-Dependent Neural Network Correlation Potentials for Accurate Electron Dynamics

Time-dependent density functional theory, though exact in theory, is in practice applied in an adiabatic approximation using exchange-correlation functionals with only local temporal dependence. Simultaneously, the exact correlation potential formally depends on, among other quantities, the time-history of electron densities. Here we develop a framework to learn neural network models of correlation functionals that feature explicit memory-dependence. Our framework includes two different approaches, both linked through their use of adjoint-based optimization. One approach decouples the learning of the functional from inversion to find ground truth values of the correlation potential. The other approach learns the functional directly without requiring inversion. We apply these methods to modeling the electron dynamics of two-electron systems in two spatial dimensions. In both cases, our methods yield correlation functionals with low test set propagation error, outperforming standard local density and generalized gradient approximation functionals by one to two orders of magnitude. Overall, our framework points at one strategy to move beyond the adiabatic approximation and develop memory-dependent correlation functionals that yield accurate propagation for excited state and/or non-equilibrium dynamics.

physics.chem-ph↗

arXiv2025

Two-dimensional electronic spectroscopy in the condensed phase using equivariant transformer accelerated molecular dynamics simulations

Two-dimensional electronic spectroscopy (2DES) provides rich information about how the electronic states of molecules, proteins, and solid-state materials interact with each other and their surrounding environment. Atomistic molecular dynamics simulations offer an appealing route to uncover how nuclear motions mediate electronic energy relaxation and their manifestation in electronic spectroscopies, but are computationally expensive. Here we show that, by using an equivariant transformer-based machine learning architecture trained with only ~2500 ground state and ~100 excited state electronic structure calculations, one can construct accurate machine-learned potential energy surfaces for both the ground-state electronic surface and excited-state energy gap. We demonstrate the utility of this approach for simulating the dynamics of Nile blue in ethanol, where we experimentally validate and decompose the simulated 2DES to establish the nuclear motions of the chromophore and the solvent that couple to the excited state, connecting the spectroscopic signals to their molecular origin.

physics.chem-ph↗

arXiv2024

Incorporating Memory into Propagation of 1-Electron Reduced Density Matrices

For any linear system with unreduced dynamics governed by invertible propagators, we derive a closed, time-delayed, linear system for a reduced-dimensional quantity of interest. This method does not target dimensionality reduction: rather, this method helps shed light on the memory-dependence of $1$-electron reduced density matrices in time-dependent configuration interaction (TDCI), a scheme to solve for the correlated dynamics of electrons in molecules. Though time-dependent density functional theory has established that the $1$-electron reduced density possesses memory-dependence, the precise nature of this memory-dependence has not been understood. We derive a symmetry/constraint-preserving method to propagate reduced TDCI electron density matrices. In numerical tests on two model systems ($\text{H}_2$ and $\text{HeH}^+$), we show that with sufficiently large time-delay (or memory-dependence), our method propagates reduced TDCI density matrices with high quantitative accuracy. We study the dependence of our results on time step and basis set. To implement our method, we derive the $4$-index tensor that relates reduced and full TDCI density matrices. Our derivation applies to any TDCI system, regardless of basis set, number of electrons, or choice of Slater determinants in the wave function.

math.DS↗

arXiv2024

Scalable learning of potentials to predict time-dependent Hartree-Fock dynamics

We propose a framework to learn the time-dependent Hartree-Fock (TDHF) inter-electronic potential of a molecule from its electron density dynamics. Though the entire TDHF Hamiltonian, including the inter-electronic potential, can be computed from first principles, we use this problem as a testbed to develop strategies that can be applied to learn a priori unknown terms that arise in other methods/approaches to quantum dynamics, e.g., emerging problems such as learning exchange-correlation potentials for time-dependent density functional theory. We develop, train, and test three models of the TDHF inter-electronic potential, each parameterized by a four-index tensor of size up to $60 \times 60 \times 60 \times 60$. Two of the models preserve Hermitian symmetry, while one model preserves an eight-fold permutation symmetry that implies Hermitian symmetry. Across seven different molecular systems, we find that accounting for the deeper eight-fold symmetry leads to the best-performing model across three metrics: training efficiency, test set predictive power, and direct comparison of true and learned inter-electronic potentials. All three models, when trained on ensembles of field-free trajectories, generate accurate electron dynamics predictions even in a field-on regime that lies outside the training set. To enable our models to scale to large molecular systems, we derive expressions for Jacobian-vector products that enable iterative, matrix-free training.

physics.chem-ph↗

arXiv2024

Nonlinear Optimal Control of Electron Dynamics within Hartree-Fock Theory

Consider the problem of determining the optimal applied electric field to drive a molecule from an initial state to a desired target state. For even moderately sized molecules, solving this problem directly using the exact equations of motion -- the time-dependent Schrödinger equation (TDSE) -- is numerically intractable. We present a solution of this problem within time-dependent Hartree-Fock (TDHF) theory, a mean field approximation of the TDSE. Optimality is defined in terms of minimizing the total control effort while maximizing the overlap between desired and achieved target states. We frame this problem as an optimization problem constrained by the nonlinear TDHF equations; we solve it using trust region optimization with gradients computed via a custom-built adjoint state method. For three molecular systems, we show that with very small neural network parametrizations of the control, our method yields solutions that achieve desired targets within acceptable constraints and tolerances.

math.OC↗

arXiv2023

Elucidating the role of hydrogen bonding in the optical spectroscopy of the solvated green fluorescent protein chromophore: using machine learning to establish the importance of high-level electronic structure

Hydrogen bonding interactions with chromophores in chemical and biological environments play a key role in determining their electronic absorption and relaxation processes, which are manifested in their linear and multidimensional optical spectra. For chromophores in the condensed phase, the large number of atoms needed to simulate the environment has traditionally prohibited the use of high-level excited-state electronic structure methods. By leveraging transfer learning, we show how to construct machine-learned models to accurately predict high-level excitation energies of a chromophore in solution from only 400 high-level calculations. We show that when the electronic excitations of the green fluorescent protein chromophore in water are treated using EOM-CCSD embedded in a DFT description of the solvent, the optical spectrum is correctly captured and that this improvement arises from correctly treating the coupling of the electronic transition to electric fields, which leads to a larger response upon hydrogen bonding between the chromophore and water.

physics.chem-ph↗

arXiv2022

Dynamic Learning of Correlation Potentials for a Time-Dependent Kohn-Sham System

We develop methods to learn the correlation potential for a time-dependent Kohn-Sham (TDKS) system in one spatial dimension. We start from a low-dimensional two-electron system for which we can numerically solve the time-dependent Schrödinger equation; this yields electron densities suitable for training models of the correlation potential. We frame the learning problem as one of optimizing a least-squares objective subject to the constraint that the dynamics obey the TDKS equation. Applying adjoints, we develop efficient methods to compute gradients and thereby learn models of the correlation potential. Our results show that it is possible to learn values of the correlation potential such that the resulting electron densities match ground truth densities. We also show how to learn correlation potential functionals with memory, demonstrating one such model that yields reasonable results for trajectories outside the training set.

stat.ML↗

arXiv2022

Simulating nuclear and electronic quantum effects in enzymes

An accurate treatment of the structures and dynamics that lead to enhanced chemical reactivity in enzymes requires explicit treatment of both electronic and nuclear quantum effects. The former can be captured in ab initio molecular dynamics (AIMD) simulations while the latter can be included by performing ab initio path integral molecular dynamics (AI-PIMD) simulations. Both AIMD and AI-PIMD simulations have traditionally been computationally prohibitive for large enzymatic systems. Recent developments in streaming computer architectures and new algorithms to accelerate path integral simulations now make these simulations practical for biological systems, allowing elucidation of enzymatic reactions in unprecedented detail. In this chapter, we summarize these recent developments and discuss practical considerations for applying AIMD and AI-PIMD simulations to enzymes.

physics.chem-ph↗

arXiv2021

Statistical learning method for predicting density-matrix based electron dynamics

We develop a statistical method to learn a molecular Hamiltonian matrix from a time-series of electron density matrices. We extend our previous method to larger molecular systems by incorporating physical properties to reduce dimensionality, while also exploiting regularization techniques like ridge regression for addressing multicollinearity. With the learned Hamiltonian we can solve the Time-Dependent Hartree-Fock (TDHF) equation to propagate the electron density in time, and predict its dynamics for field-free and field-on scenarios. We observe close quantitative agreement between the predicted dynamics and ground truth for both field-off trajectories similar to the training data, and field-on trajectories outside of the training data.

physics.chem-ph↗

arXiv2021

Influence of non-adiabatic effects on linear absorption spectra in the condensed phase: Methylene blue

Modeling linear absorption spectra of solvated chromophores is highly challenging as contributions are present both from coupling of the electronic states to nuclear vibrations and solute-solvent interactions. In systems where excited states intersect in the Condon region, significant non-adiabatic contributions to absorption lineshapes can also be observed. Here, we introduce a robust approach to model linear absorption spectra accounting for both environmental and non-adiabatic effects from first principles. This model parameterizes a linear vibronic coupling (LVC) Hamiltonian directly from energy gap fluctuations calculated along molecular dynamics (MD) trajectories of the chromophore in solution, accounting for both anharmonicity in the potential and direct solute-solvent interactions. The resulting system dynamics described by the LVC Hamiltonian are solved exactly using the thermalized time-evolving density operator with orthogonal polynomials algorithm (T-TEDOPA). The approach is applied to the linear absorption spectrum of methylene blue (MB) in water. We show that the strong shoulder in the experimental spectrum is caused by vibrationally driven population transfer between the bright S1 and the dark S2 state. The treatment of the solvent environment is one of many factors which strongly influences the population transfer and lineshape; accurate modeling can only be achieved through the use of explicit quantum mechanical solvation. The efficiency of T-TEDOPA, combined with LVC Hamiltonian parameterizations from MD, leads to an attractive method for describing a large variety of systems in complex environments from first principles.

physics.chem-ph↗

arXiv2020

Machine Learning a Molecular Hamiltonian for Predicting Electron Dynamics

We develop a computational method to learn a molecular Hamiltonian matrix from matrix-valued time series of the electron density. As we demonstrate for three small molecules, the resulting Hamiltonians can be used for electron density evolution, producing highly accurate results even when propagating 1000 time steps beyond the training data. As a more rigorous test, we use the learned Hamiltonians to simulate electron dynamics in the presence of an applied electric field, extrapolating to a problem that is beyond the field-free training data. We find that the resulting electron dynamics predicted by our learned Hamiltonian are in close quantitative agreement with the ground truth. Our method relies on combining a reduced-dimensional, linear statistical model of the Hamiltonian with a time-discretization of the quantum Liouville equation within time-dependent Hartree Fock theory. We train the model using a least-squares solver, avoiding numerous, CPU-intensive optimization steps. For both field-free and field-on problems, we quantify training and propagation errors, highlighting areas for future development.

physics.comp-ph↗

arXiv2020

Exploiting machine learning to efficiently predict multidimensional optical spectra in complex environments

The excited state dynamics of chromophores in complex environments determine a range of vital biological and energy capture processes. Time-resolved, multidimensional optical spectroscopies provide a key tool to investigate these processes. Although theory has the potential to decode these spectra in terms of the electronic and atomistic dynamics, the need for large numbers of excited state electronic structure calculations severely limits first principles predictions of multidimensional optical spectra for chromophores in the condensed phase. Here, we leverage the locality of chromophore excitations to develop machine learning models to predict the excited state energy gap of chromophores in complex environments for efficiently constructing linear and multidimensional optical spectra. By analyzing the performance of these models, which span a hierarchy of physical approximations, across a range of chromophore-environment interaction strengths, we provide strategies for the construction of ML models that greatly accelerate the calculation of multidimensional optical spectra from first principles.

physics.chem-ph↗

arXiv2018

Modeling Electronic Excited States of Molecules in Solution

The presence of solvent tunes many properties of a molecule, such as its ground and excited state geometry, dipole moment, excitation energy, and absorption spectrum. Because the energy of the system will vary depending on the solvent configuration, explicit solute-solvent interactions are key to understanding solution-phase reactivity and spectroscopy, simulating accurate inhomogeneous broadening, and predicting absorption spectra. In this tutorial review, we give an overview of factors to consider when modeling excited states of molecules interacting with explicit solvent. We provide practical guidelines for sampling solute-solvent configurations, choosing a solvent model, performing the excited state electronic structure calculations, and computing spectral lineshapes. We also present our recent results combining the vertical excitation energies computed from an ensemble of solute-solvent configurations with the vibronic spectra obtained from a small number of frozen solvent configurations, resulting in improved simulation of absorption spectra for molecules in solution.

physics.chem-ph↗

arXiv2017

Combining the Ensemble and Franck-Condon Approaches for Spectral Shapes of Molecules in Solution

The correct treatment of vibronic effects is vital for the modeling of absorption spectra of solvated dyes, as many prominent spectral features can often be ascribed to vibronic transitions. Vibronic spectra can be computed within the Franck-Condon approximation for small dyes in solution using an implicit solvent model. However, implicit solvent models neglect specific solute-solvent interactions and provide only an approximate treatment of solvent polarization effects. Furthermore, temperature-dependent solvent broadening effects are often only accounted for using a broadening parameter chosen to match experimental spectra. On the other hand, ensemble approaches provide a straightforward way of accounting for solute-solvent interactions and temperature-dependent broadening effects by computing vertical excitation energies obtained from an ensemble of solute-solvent conformations. However, ensemble approaches do not explicitly account for vibronic effects and often produce spectral shapes in poor agreement with experiment. We address these shortcomings by combining the vibronic fine structure of an excitation obtained in the Franck-Condon picture at zero temperature with vertical excitations computed for a room-temperature ensemble of solute-solvent configurations. In this combined approach, all temperature-dependent broadening is therefore treated classically through the sampling of configurations, with vibronic contributions included as a zero-temperature correction to each vertical transition. We test the proposed method on Nile Red and the green fluorescent protein chromophore in polar and non-polar solvents. For systems with strong solute-solvent interaction, the approach yields a significant improvement over the ensemble approach, whereas for systems with weaker interactions, both the shape and the width of the spectra are in excellent agreement with experiment.

physics.chem-ph↗