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In silico environmental chemical science: properties and processes from statistical and computational modelling

Quantitative structure–activity relationships (QSARs) have long been used in the environmental sciences. More recently, molecular modeling and chemoinformatic methods have become widespread. These methods have the potential to expand and accelerate advances in environmental chemistry because they complement observational and experimental data with “in silico” results and analysis. The opportunities and challenges that arise at the intersection between statistical and theoretical in silico methods are most apparent in the context of properties that determine the environmental fate and effects of chemical contaminants (degradation rate constants, partition coefficients, toxicities, etc.). The main example of this is the calibration of QSARs using descriptor variable data calculated from molecular modeling, which can make QSARs more useful for predicting property data that are unavailable, but also can make them more powerful tools for diagnosis of fate determining pathways and mechanisms. Emerging opportunities for “in silico environmental chemical science” are to move beyond the calculation of specific chemical properties using statistical models and toward more fully in silico models, prediction of transformation pathways and products, incorporation of environmental factors into model predictions, integration of databases and predictive models into more comprehensive and efficient tools for exposure assessment, and extending the applicability of all the above from chemicals to biologicals and materials.

54 ENVIRONMENTAL SCIENCES↗

Nucleosynthesis for Science and Security: Preparing for a Nuclear and Chemical Sciences Program at FRIB

Nuclear reactions are vital to nuclear science and its many applications: they are the mechanism for forging elements in the cosmos, the source of energy for both stars and nuclear weapons, the principal probes used to study nuclear properties, and the primary diagnostic signatures for stockpile stewardship and nuclear forensics. Yet, most reaction experiments have been confined to the small fraction of all nuclei that are stable, and a theoretical foundation for reactions with a true predictive capability is lacking. The Facility for Rare Isotope Beams (FRIB), the flagship U.S. facility in low-energy nuclear science, will offer the opportunity to rectify the long-standing gap in understanding reactions on radioactive nuclei. The work performed in this LDRD project brought together the experimental nuclear physics, radiochemistry, nuclear theory, and high-performance computing expertise of the Nuclear and Chemical Sciences Division to develop new techniques that will be needed to exploit FRIB beams to better understand nuclear reactions. Novel isotope-harvesting techniques were developed to demonstrate that samples could be collected at the National Superconducting Cyclotron Laboratory (NSCL) at Michigan State University (the facility which FRIB builds upon) for direct measurements of long-lived radioisotopes. For isotopes too short lived for direct measurements, indirect approaches were developed that would ultimately be used with high-intensity FRIB radioactive beams. Finally, to better interpret experimental results and reliably extend predictions beyond the available data, a foundation was established for a fully microscopic and unified description of the structure, interactions, and dynamics of two reacting nuclei that moves beyond empirical models. This work has positioned the team for a leadership role at FRIB, enabling LLNL to maintain a world-class nuclear science program and to compete for future talent and funding, both of which are vital for continuing support of the laboratory’s stockpile stewardship mission.

42 ENGINEERING↗

Nuclear and Chemical Sciences Division: Investment Strategy 2023

The mission of the Nuclear and Chemical Sciences (NACS) Division within the Physical and Life Sciences (PLS) Directorate is to advance scientific understanding, capabilities, and technologies in nuclear and particle physics, radiochemistry, forensic science, and isotope systems to support LLNL’s national security mission. NACS Division personnel conduct a diverse range of research activities in particle physics, nuclear physics, radiation detection, nuclear measurements, chemical and nuclear forensic science, nuclear and radiochemistry, isotope geochemistry, and environmental science. These areas are leveraged to address evolving national security challenges. Scientific research provides the foundation for addressing these challenges, and it is also the principal means of attracting, training, and retaining staff scientists who can deliver solutions across the Laboratory’s mission space. The overarching strategy is to position the NACS Division at the nexus between fundamental nuclear and chemical science research and nuclear security applications. This approach will support efforts to recruit, train, and retain top-flight scientists and engineers who will play a key role in executing the Laboratory’s core nuclear security missions, while also enhancing LLNL’s reputation as a center for innovative scientific research. This document describes the strategic vision that will be used to guide key investments aimed at enabling NACS scientists to lead new efforts and meet future challenges.

07 ISOTOPE AND RADIATION SOURCES↗

Digital Twin for Chemical Science: a case study on water interactions on the Ag(111) surface

Directly visualizing chemical trajectories offers insights into catalysis, gas-phase reactions and photoinduced dynamics. Tracking the transformation of chemical species is best achieved by coupling theory and experiment. Here we developed Digital Twin for Chemical Science (DTCS) v.01, which integrates theory, experiment and their bidirectional feedback loops into a unified platform for chemical characterization. DTCS addresses a core question: given a set of experimental conditions, what is the expected outcome and why? It consists of a forward solver that takes a chemical reaction network and predicts spectra under experimental conditions, and an inverse solver that infers kinetics from measured spectra. We applied DTCS to ambient-pressure X-ray photoelectron spectroscopy measurements of the Ag–H2O interface as an example. This approach enables real-time knowledge extraction and guides experiments until a stopping condition is met based on accuracy and degeneracy. As a step toward autonomous chemical characterization, DTCS provides mechanistic knowledge in a verified, standardized manner.

Chemistry↗

Digital Twin for Chemical Science (DTCS) v0.01

Directly visualizing the trajectories of chemistry can unravel novel insights into the behavior of catalysts, gas phase reactions, photo-induced dynamics, and building blocks for quantum information processing. The ability of explicitly identifying, tracking, and tagging the exchange of matter, hence the annihilation and creation of new chemical species, can be best realized through a close coupling of theory and experiment. While the synchrotron-based characterization facilities propelled rapidly in its hardware, providing higher brightness, better resolution, and more precision, the software infrastructure is lagging. We developed DTCS (Digital Twin for Chemical Science) v.01, a central platform that faithfully mimics advanced instrumentations in Scientific User Facilities, by solving a variety of technical challenges in data acquisition, analysis, and model-driven interpretation. Rooted in physics and accelerated by AI, we validated this concept by direct comparison with precise experimental X-ray Photoelectron Spectroscopy (XPS) observations using a ubiquitous metal-water interfacial scenario, i.e., Ag/H2O as our main narrative. The DTCS v.01 input mirrors how the bench chemists work, with the output directly linked to the end station computer, thereby providing a user-friendly, knowledge-driven, and accessible user experience with mechanistic insights standardized in a way that are ready to be published, versioned, and transferred flexibly.

Qian, Jin↗

NEXTorch: A Design and Bayesian Optimization Toolkit for Chemical Sciences and Engineering

Automation and optimization of chemical systems require well-informed decisions on what experiments to run to reduce time, materials, and/or computations. Data-driven active learning algorithms have emerged as valuable tools to solve such tasks. Bayesian optimization, a sequential global optimization approach, is a popular active-learning framework. Past studies have demonstrated its efficiency in solving chemistry and engineering problems. Here we introduce NEXTorch, a library in Python/PyTorch, to facilitate laboratory or computational design using Bayesian optimization. NEXTorch offers fast predictive modeling, flexible optimization loops, visualization capabilities, easy interfacing with legacy software, and multiple types of parameters and data type conversions. It provides GPU acceleration, parallelization, and state-of-the-art Bayesian optimization algorithms and supports both automated an d human-in-the-loop optimization. The comprehensive online documentation introduces Bayesian optimization theory and several examples from catalyst synthesis, reaction condition optimization, parameter estimation, and reactor geometry optimization. NEXTorch is open-source and available on GitHub

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Multimodal Instrument Concepts for Chemical Sciences at Second Target Station

The development of advanced chemical and energy systems is inherently complex, relying heavily on their unique pathways. Because no two catalysts or batteries follow exactly the same kinetic trajectories, conventional sequential measurements often obscure crucial relationships between structure and dynamics through statistical averaging. This report introduces two neutron scattering instrument concepts for the Second Target Station (STS) specifically designed to overcome this barrier: the Extended Q-range Diffractometer (EQD) and the Multimodal Chemical Spectrometer (MCS).

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Explainable and trustworthy artificial intelligence for correctable modeling in chemical sciences

Data science has primarily focused on big data, but for many physics, chemistry, and engineering applications, data are often small, correlated and, thus, low dimensional, and sourced from both computations and experiments with various levels of noise. Typical statistics and machine learning methods do not work for these cases. Expert knowledge is essential, but a systematic framework for incorporating it into physics-based models under uncertainty is lacking. Here, we develop a mathematical and computational framework for probabilistic artificial intelligence (AI)–based predictive modeling combining data, expert knowledge, multiscale models, and information theory through uncertainty quantification and probabilistic graphical models (PGMs). We apply PGMs to chemistry specifically and develop predictive guarantees for PGMs generally. Our proposed framework, combining AI and uncertainty quantification, provides explainable results leading to correctable and, eventually, trustworthy models. The proposed framework is demonstrated on a microkinetic model of the oxygen reduction reaction.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Scientific Computation Application Partnerships in Materials and Chemical Sciences, Charge Transfer and Charge Transport in Photoactivated Systems, Developing Electron-Correlated Methods for Excited State Structure and Dynamics in the NWChem Software Suite

Charge transfer and charge transport in photoactivated systems are fundamental processes that underlie solar energy capture, solar energy conversion, and photoactivated catalysis, both organometallic and enzymatic. We developed methods, algorithms, and software tools needed for reliable treatment of the underlying physics for charge transfer and charge transport, an undertaking with broad applicability to the goals of the fundamental-interaction component of the Department of Energy Office of Basic Energy Sciences and the exascale initiative of the Office of Advanced Scientific Computing Research.

14 SOLAR ENERGY↗

How Can the Chemical Sciences Contribute to Future Human Exploration

This presentation will discuss NASA needs in advanced technology to support future human exploration of space and how developments in chemistry can be applied to meet those needs. The presentation will provide some examples of chemistry-related research currently supported by the NASA and discuss opportunities for students, faculty, and industry researchers to get involved in NASA R&D efforts to support space exploration.

Meador, Michael A.↗

Data Science in Chemical Engineering: Applications to Molecular Science

Chemical engineering is being rapidly transformed by the tools of data science. On the horizon, artificial intelligence (AI) applications will impact a huge swath of our work, ranging from the discovery and design of new molecules to operations and manufacturing and many areas in between. Early adoption of data science, machine learning, and early examples of AI in chemical engineering has been rich with examples of molecular data science—the application tools for molecular discovery and property optimization at the atomic scale. Here, we summarize key advances in this nascent subfield while introducing molecular data science for a broad chemical engineering readership. We introduce the field through the concept of a molecular data science life cycle and discuss relevant aspects of five distinct phases of this process: creation of curated data sets, molecular representations, data-driven property prediction, generation of new molecules, and feasibility and synthesizability considerations.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Fe 3 O 4 Nanoparticles Anchored on Carbon Serve the Dual Role of Catalyst and Magnetically Recoverable Entity in the Aerobic Oxidation of Alcohols

Carbon supported γ-Fe2O3 nanoparticle (γ-Fe2O3/C) possessing both superparamagnetism and activating molecular oxygen properties were prepared by an ammonia-assisted precipitation method. It could catalyze the selective oxidation of various benzyl alcohols with air as oxidant source, and could be easily recycled with an external magnet separation. The correlation between the intrinsic properties of γ-Fe2O3 nanoparticles and the catalytic performance was investigated with a series of characterizations. It shows that the oxidation state of γ-Fe2O3 nanoparticles were facile to be changed, which should be related to its inverse spinel type crystal structure with vacant cation sites. These γ-Fe2O3 nanoparticles should be the active sites and responsible for the high activity of γ-Fe2O3/C in the air oxidation of alcohols. The formation of γ-Fe2O3 nanoparticle was controlled by precipitation agent and carbon support. Using ammonia ethanol solution as precipitation agent, the hydrolysis rate of iron species could be decreased. The surface functional groups of carbon support could act as chelating sites for iron species, controlling the nucleation and growth of the γ-Fe2O3 nanoparticles in the preparation process. Dr. Xiang Wang gratefully acknowledges the US Department of Energy (DOE), Office of Science, Office of Basic Energy Sciences, Chemical Sciences, Geosciences, and Biosciences Division for the support of this work.

alcohol oxidation↗

iSPECTRON: a simulation interface for linear and nonlinear spectra with ab-initio quantum chemistry software

We introduce iSPECTRON, an open source (under the Educational Community License version 2.0) program that parses data from common quantum chemistry software (NWChem, OpenMolcas, Gaussian, Cobramm, etc.), produces the input files for the simulation of linear and nonlinear spectroscopy of molecules with the Spectron code, and analyzes the spectra with a broad range of tools. Vibronic spectra are expressed in term of the electronic eigenstates, obtained through quantum chemistry computations, and vibrational/bath effects are incorporated in the framework of the displaced harmonic oscillator model, where all required quantities are computed at the Franck-Condon point. The code capabilities are illustrated by simulating linear absorption, transient absorption and two dimensional electronic spectra of the pyrene molecule. Two levels of electronic structure theory, TDDFT (with NWChem) and RASSCF/RASPT2 (with OpenMolcas), are compared where possible. Acknowledgements: F.S., A.N., D.R.N., N.G., S.M, M.G. acknowledge support from the U.S. Department of Energy, Office of Science, Office of Basic Energy Sciences, Chemical Sciences, Geosciences, and Biosciences Division under Award Nos. DE-SC0019484, KC-030103172684. The Spectron code was developed with support from the National Science Foundation (Grant CHE- 1953045). This research benefited from computational resources provided by EMSL, a DOE Office of Science User Facility sponsored by the Office of Biological and Environmental Research and located at PNNL. PNNL is operated by Battelle Memorial Institute for the United States Department of Energy under DOE Contract No. DE-AC05-76RL1830.

Segatta, Francesco↗

The effect of CO on CO2 methanation over Ru/Al2O3 catalysts: a combined steady-state reactivity and transient DRIFT spectroscopy study

The reactivity of Ru/Al2O3 catalysts in the hydrogenation of CO/CO2 gas mixtures is investigated in this work. Accordingly kinetic measurements are carried out at process conditions of industrial interest (i.e., at high COx per-pass conversion and with concentrated COx/H2 streams), and the surface species on the catalyst are investigated through transient DRIFTS-MS analysis. The catalyst shows gradual deactivation when the methanation is carried out in the presence of CO in the gas feed at low temperatures (200-300 °C). However, stable performance is observed at higher temperatures, showing CH4 yields even higher than those observed during methanation of a pure CO2 feed. The catalyst deactivation at low temperature is reversible as thermal treatments at temperatures above 350 °C are able to restore the catalytic activity. DRIFTS-MS experiments revealed that CO2 methanation involves a reaction pathway where CO2 is adsorbed as bicarbonate on Al2O3 and successively hydrogenated to methane on Ru, passing through formate and carbonyl intermediates. In the presence of CO at low temperatures, the catalyst shows a higher CO coverage of the Ru sites, a larger formate coverage of alumina sites and the presence of adsorbed carbonaceous species, identified as hydrocarbon and carboxylate species. Carboxylates remain on the surface, effectively blocking adsorption sites thus leading to catalyst deactivation. However, working above the carboxylate decomposition temperature ensures a clean catalyst surface, resulting in stable and high performance in CO/CO2 methanation. Catalyst preparation, characterization and testing activity were carried out with a joint project between the Politecnico di Milano and the Italian National Agency for New Technologies, Energy and Sustainable Economic Development (ENEA), which is gratefully acknowledged. The authors gratefully acknowledge the financial support of the DRIFTS experiments by the US Department of Energy (DOE), Office of Science, Office of Basic Energy Sciences, Chemical Sciences, Geosciences, and Biosciences Division. L.F. also acknowledges the Pacific Northwest National Laboratory (PNNL) for the financial support during his permanence as visiting student.

Methanation, Power-to-gas, Ru/Al2O3 catalyst, cata↗