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At least 415 records · Page 23

The ezSpectra suite: An easy‐to‐use toolkit for spectroscopy modeling

Abstract A molecule's spectrum encodes information about its structure and electronic properties. It is a unique fingerprint that can serve as a molecular ID. Quantum chemistry calculations provide key ingredients for interpreting spectra, but modeling the spectra rarely ends there; it requires additional steps that entail combined treatments of electronic and nuclear degrees of freedom and account for specifics of the experimental setup (light energy, polarization, averaging over molecular orientations, temperature, etc.). This Software Focus article describes the ezSpectra suite, which currently comprises two stand‐alone open‐source codes: ezFCF and ezDyson . ezFCF calculates Franck–Condon factors, which yield vibrational progressions for polyatomic molecules, within the double‐harmonic approximation. ezDyson calculates absolute cross‐sections for photodetachment/photoionization processes and photoelectron angular distributions using Dyson orbitals computed by a quantum chemistry program. This article is categorized under: Electronic Structure Theory > Ab Initio Electronic Structure Methods Theoretical and Physical Chemistry > Spectroscopy Software > Simulation Methods

Gozem, Samer↗

Machine Learning in the Context of Laser-Induced Breakdown Spectroscopy

The integration of machine learning (ML) with Laser-Induced Breakdown Spectroscopy (LIBS) has revolutionized the analytical capabilities of LIBS. The combi-nation of both methods enables more accurate and efficient data analysis. While LIBS itself is a powerful technique for elemental analysis, the vast amount of spectral data it generates can be hard to interpret. Machine learning addresses these challenges by leveraging algorithms that can learn from data, identify patterns, and make predictions without explicit programming for the interpretation of each specific task. In LIBS application, ML techniques are used to enhance various analytical processes. For example, ML algorithms can classify materials based on their spectral fingerprints, predict the concentration of elements in a sample, and identify underlying patterns within complex datasets. Here, this application improves the precision of LIBS analyses while significantly reducing the time required for data processing and interpretation. In this chapter, the fundamental concepts of ML will be discussed first. Following this, the process of data splitting and the importance of feature selection will be examined. Several machine learning methods will then be closely examined, exploring how each can benefit LIBS analysis and highlighting their respective advantages and shortcomings. This structured approach will provide a comprehensive understanding of the integration of ML in the context of LIBS analysis.

47 OTHER INSTRUMENTATION↗

Calibration curves for commercial copper and aluminum alloys using handheld laser-induced breakdown spectroscopy

Handheld laser-induced breakdown spectroscopy (HH LIBS) was used to study the elemental composition of four copper alloys and four aluminum alloys to produce calibration curves. The HH LIBS instrument used is a SciAps Z-500, commercially available, that contains a class-1 solid-state laser with an output wavelength of 1532 nm, a laser energy of 5 mJ/pulse, and a pulse duration of 5 ns. Test samples were solid specimens comprising of copper and aluminum alloys and data were collected from the samples’ surface at three different locations, employing a 12-point-grid pattern for each data set. All three data sets of the spectra were averaged, and the intensity, corrected by subtraction of background, was used to produce the elemental calibration curves. Calibration curves are presented for the matrix elements, copper and aluminum, as well as several minor elements. The surface damage produced by the laser was examined by microscopy. The alloys were tested in air and in a glovebox to evaluate the instrument’s ability to identify the constituents within materials under different environmental conditions. The main objective of using this HH LIBS technology is to determine its capability to fingerprint the presence of certain elements related to subpercent level within materials in real time and in-situ, as a starting point for undertaking future complex material characterization work.

36 MATERIALS SCIENCE↗

Salinization of porewater in a multiple aquitard-aquifer system in Jiangsu coastal plain, China

Chemical and isotopic compositions were analyzed in porewater squeezed from a clayey aquitard in Jiangsu coastal plain, eastern China, to interpret the salinity origin, chemical evolution and water-mass mixing process. A strong geochemical fingerprint was obtained with an aligned Cl/Br ratio of 154 in the salinized aquitard porewater over a wide Cl{sup −} concentration range (396–9,720 mg/L), indicating that porewater salinity is likely derived from a mixing with old brine with a proportion of less than 20%. Very small contributions of brine exerted limited effects on water stable isotopes. The relationships between porewater δ{sup 18}O and δD indicate that shallow and intermediate porewaters could be original seawater and were subsequently diluted with modern meteoric water, whereas deep porewaters with depleted stable isotopic values were probably recharged during a cooler period and modified by evaporation and seawater infiltration. The cation–Cl relationship and mineralogy of associated strata indicate that porewater has been chemically modified by silicate weathering and ion-exchange reactions. {sup 87}Sr/{sup 86}Sr ratios of 0.7094–0.7112 further confirm the input source of silicate minerals. Numerical simulations were used to evaluate the long-term salinity evolution of the deep porewater. The alternations of boundary conditions (i.e., the third aquifer mixed with brine at approximately 70 ka BP, followed by recharge of glacial meltwater at 20–25 ka BP, and then mixing with Holocene seawater at 7–10 ka BP) are responsible for the shift in porewater salinity. These timeframes correspond with the results of previous studies on ancient marine transgression-regression in Jiangsu coastal plain.

58 GEOSCIENCES↗

Measurement of Absorption Coefficient of Paraformaldehyde and Metaldehyde with Terahertz Spectroscopy

The characteristic absorption spectra of paraformaldehyde and metaldehyde in the terahertz frequency region are obtained by terahertz time-domain spectroscopy (THz-TDS). In order to reduce the absorption of terahertz (THz) wave by water vapor in the air and the background noise, the measurement system was filled with dry air and the measurements were conducted at the temperature of 24°C. Meanwhile, the humidity was controlled within 10% RH. The THz frequency domain spectra of samples and their references from 0 to 2.5 THz were analyzed via Fourier transform. The refractive index and absorption coefficients of the two aldehydes were calculated by the model formulas. From 0.1 to 2.5 THz, there appear two weak absorption peaks at 1.20 and 1.66 THz in the absorption spectra of paraformaldehyde. Only one distinct absorption peak emerges at 1.83 THz for metaldehyde. There are significant differences between the terahertz absorption coefficients of paraformaldehyde and metaldehyde, which can be used as 'fingerprints' to identify these substances. Furthermore, the relationship between the average absorption coefficients and mass concentrations was investigated and the average absorption coefficient–mass concentration diagrams of paraformaldehyde and metaldehyde were shown. For paraformaldehyde, there is a linear relationship between the average absorption coefficient and the natural logarithm of mass concentration. For metaldehyde, there exists a simpler linear relationship between the average absorption coefficient and the mass concentration. Because of the characteristics of THz absorption of paraformaldehyde and metaldehyde, the THz-TDS can be applied to the qualitative and quantitative detection of the two aldehydes to reduce the unpredictable hazards due to these substances.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Data-enabled structure–property mappings for lanthanide-activated inorganic scintillators

The use of machine learning (ML) models toward development of validated structure–property relationships for two fundamental properties of activated inorganic scintillators for high energy radiation detection, namely the light yield (LY) and the decay time constant, is explored. The ML models are built on easily accessible proxies of materials—interchangeably referred to as features, descriptors or fingerprints—that are carefully selected on the basis of a physical understanding of the scintillation mechanism. Our study indicates that the developed physics-based ML models employing kernel ridge regression (KRR) and AdaBoost algorithm applied on top of a decision tree-based regression are able to “learn” the underlying design rules in a multi-dimensional feature space and thereby enable reasonably accurate predictions of the two target properties on unseen compounds (i.e., on a held-out test set). For instance, within a set of twenty-five cerium- or europium-doped scintillator materials, our analysis reveals a strong correlation between the average ionic part of the dielectric constant and the LY, irrespective of the specific chemistry of the compounds, indicating that the average ionic part of the dielectric constant is a particularly relevant descriptor toward prediction of the LY. Our results also demonstrate that, despite the use of small training datasets, the developed models are able to quickly distinguish high performing chemistries from those with relatively poor performance and therefore can play a crucial role in screening of new compounds with an attractive combination of targeted properties. Finally, the present study provides necessary motivation for future efforts involving ML models with relatively large training datasets, vast feature space explorations, and experimental design in search of promising novel scintillator chemistries.

36 MATERIALS SCIENCE↗

Synthesis, Crystal Structure, Hirshfeld Surface Analysis, and Physicochemical Study of an Anhydrous Organic Acidic Cyclohexaphosphate

The new organic–inorganic hybrid [5-Cl-2-(CH{sub 3})C{sub 6}H{sub 3}NH{sub 3}]{sub 4}H{sub 2}P{sub 6}O{sub 18} has been synthesized by the slow evaporation method. X-ray diffraction on a single crystal shows that this acidic cyclohexaphosphate crystallized in the monoclinic space group C{sub 2/c} with a = 33.89(11) Å, b = 9.16(16) Å, c = 13.68(3) Å, β = 91.35(2)°, V = 4244.9(19) Å{sup 3} and Z = 4. {sup 31}P MAS-NMR and {sup 13}C CP/MAS-NMR results are in accordance with X-ray findings. Fluorescent study shows the blue photoluminescence. Furthermore, FT-IR analysis was studied and the complete vibrational assignments were done. Intermolecular interactions were analyzed using Hirshfeld surface analysis and the associated 2D fingerprint plots.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Indexing and Querying Character Sets in One- and Two-Dimensional Words

We give a detailed review of results obtained for a relatively new problem of finding, indexing, and querying character sets, which are called fingerprints in fragments of one- and two-dimensional words, and explain basic ideas used for obtaining these results.

97 MATHEMATICS AND COMPUTING↗

Beam steering characteristics of highly directive photoconductive dipole phased array antenna for terahertz imaging application

In this paper, the beam-steering characteristics of photoconductive dipole phased array antenna configuration at 1.95 THz is presented. The proposed array antenna configuration with frequency selective surface favourably improves its gain and directivity which is useful to upsurge the imaging capabilities to address the deliberations such as limited depth-of-field (DoF) and size-weight-and-power of the THz source for imaging applications. These are important considerations for applications like stand-off imaging and surveillance of moving targets where the high angular resolution as well as extended DoF are the important parameters for successful detection of concealed explosives. The projected planar profile and compact highly directive (2×2) small-gap photoconductive dipole phased array antenna can be castoff for the exposure of concealed explosives such as RDX, TNT, and HMX which illustrate their substantial spectral absorption fingerprints in terahertz (1.4–2.2 THz) regime of the spectrum. A simple method of beam-steering has been explored based on phase controlled optical excitation of highly directive small-gap photoconductive dipole array antenna. Further, the effects of uniform progressive phase shift on the beam-steering of uniform linear array (along x-axis) as well as planar array (x-axis and y-axis) is investigated.

71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗

The SuperCam Instrument Suite on the NASA Mars 2020 Rover: Body Unit and Combined System Tests

The SuperCam instrument suite provides the Mars 2020 rover, Perseverance, with a number of versatile remote-sensing techniques that can be used at long distance as well as within the robotic-arm workspace. These include laser-induced breakdown spectroscopy (LIBS), remote time-resolved Raman and luminescence spectroscopies, and visible and infrared (VISIR; separately referred to as VIS and IR) reflectance spectroscopy. A remote micro-imager (RMI) provides high-resolution color context imaging, and a microphone can be used as a stand-alone tool for environmental studies or to determine physical properties of rocks and soils from shock waves of laser-produced plasmas. SuperCam is built in three parts: The mast unit (MU), consisting of the laser, telescope, RMI, IR spectrometer, and associated electronics, is described in a companion paper. The on-board calibration targets are described in another companion paper. Here we describe SuperCam’s body unit (BU) and testing of the integrated instrument. The BU, mounted inside the rover body, receives light from the MU via a 5.8 m optical fiber. The light is split into three wavelength bands by a demultiplexer, and is routed via fiber bundles to three optical spectrometers, two of which (UV and violet; 245–340 and 385–465 nm) are crossed Czerny-Turner reflection spectrometers, nearly identical to their counterparts on ChemCam. The third is a high-efficiency transmission spectrometer containing an optical intensifier capable of gating exposures to 100 ns or longer, with variable delay times relative to the laser pulse. This spectrometer covers 535–853 nm ( $105\text{--}7070~\text{cm}^{-1}$ Raman shift relative to the 532 nm green laser beam) with $12~\text{cm}^{-1}$ full-width at half-maximum peak resolution in the Raman fingerprint region. The BU electronics boards interface with the rover and control the instrument, returning data to the rover. Thermal systems maintain a warm temperature during cruise to Mars to avoid contamination on the optics, and cool the detectors during operations on Mars.Results obtained with the integrated instrument demonstrate its capabilities for LIBS, for which a library of 332 standards was developed. Examples of Raman and VISIR spectroscopy are shown, demonstrating clear mineral identification with both techniques. Luminescence spectra demonstrate the utility of having both spectral and temporal dimensions. Finally, RMI and microphone tests on the rover demonstrate the capabilities of these subsystems as well.

47 OTHER INSTRUMENTATION↗

The Linkage Between Electro-Chemical Mechanical Instabilities in Battery Materials

Battery chemistry must be diversified to achieve a sustainable energy landscape by effectively utilizing renewable energy sources. Alkali metal-ion, all-solid-state, metal–air batteries, and multivalent batteries offer unique cost, safety, raw material abundance, energy, and power density solutions. However, realizing these “beyond Li-ion batteries” must uncover their working principles and performance & property relationships. In this aspect, mitigating chemo-mechanical instabilities in the structure and surface of the electrodes plays a crucial role in their performance. Unfortunately, the coupling between electrochemical and mechanical interactions is often poorly understood due to a lack of operando characterization. Here, this review article explains the working principles of curvature measurement and digital image correlation for measuring stress and strain generations in battery materials. We provided specific examples of how these operando mechanical measurements shed light on instabilities in alkali metal ion electrodes, solid electrolytes, Li-O 2 batteries, and aqueous Zn-ion batteries. Operando mechanical measurements offer an effective way to map changes in the physical fingerprint of the battery materials, therefore providing crucial information to elucidate instabilities in battery materials.

25 ENERGY STORAGE↗

Synthesis, Crystal Structure, Hirshfeld Surface Analysis, DFT, and DNA-Binding Studies of (E)-2-(3-Hydroxy-4-Methoxybenzylidene)Hydrazinecarbothioamide

(E)-2-(3-Hydroxy-4-methoxybenzylidene)hydrazinecarbothioamide 3 was synthesized by reacting thiosemicarbazide with 2-hydorxy-3-methoxybenzaldehyde in dry ethanol. The structure was elucidated by spectroscopic (FT-IR, {sup 1}H NMR, and {sup 13}C NMR) and single crystal X-ray diffraction techniques. A detailed analysis of the intermolecular interactions has been performed based on the Hirshfeld surfaces and their associated two-dimensional fingerprint plots. DFT, spectroscopic, and electrochemical DNA-binding analysis confirmed that the compound is reactive to bind with DNA. Viscometric studies suggested that compound 3 has a mixed mode of interaction and intercalated into the DNA base pairs predominantly along with the possibility of electrostatic interactions. .

60 APPLIED LIFE SCIENCES↗

Spectroscopic signatures of edge states in hexagonal boron nitride

Here, we use Z-contrast imaging and atomically resolved electron energy-loss spectroscopy on an aberration-corrected scanning transmission electron microscope to investigate the local electronic states of boron atoms at different edge structures in monolayer and bilayer h-BN. We find that edges with bonding unsaturated sp2 boron atoms have a unique spectroscopic signature with a prominent pre-peak at ~ 190.2 eV in the B K-edge fine structure. First-principles calculations reveal that the observed pre-peak arises from excitations to the in-plane lowest-energy empty sp 2 boron dangling bonds at the B-terminated edge. This spectroscopic signature can serve as a fingerprint to explore new edge structures in h-BN.

edge structure↗

Native Mass Spectrometry, Ion mobility, and Collision-Induced Unfolding Categorize Malaria Antigen/Antibody Binding

Plasmodium vivax Duffy Binding Protein (PvDBP) is a promising vaccine candidate for P. vivax malaria. Recently, we reported the epitopes on PvDBP region II (PvDBP-II) for three inhibitory monoclonal antibodies (2D10, 2H2, and 2C6). In this communication, we describe the combination of native mass spectrometry and ion mobility (IM) with collision induced unfolding (CIU) to study the conformation and stabilities of three malarial antigen–antibody complexes. These complexes, when collisionally activated, undergo conformational changes that depend on the location of the epitope. CIU patterns for PvDBP-II in complex with antibody 2D10 and 2H2 are highly similar, indicating comparable binding topology and stability. A different CIU fingerprint is observed for PvDBP-II/2C6, indicating that 2C6 binds to PvDBP-II on an epitope different from 2D10 and 2H2. This work supports the use of CIU as a means of classifying antigen-antibody complexes by their epitope maps in a high throughput screening workflow. .

46 INSTRUMENTATION RELATED TO NUCLEAR SCIENCE AND ↗

Atmospheric Solid Analysis Probe Coupled to Ion Mobility Spectrometry-Mass Spectrometry, a Fast and Simple Method for Polyalphaolefin Characterization

Polyalphaolefins (PAOs) are polymers produced from linear alpha olefins through catalytic oligomerization processes. The PAOs are known as synthetic high-performance base stock fluids used to improve the efficiency of many other synthetic products. In this study, we report the direct characterization of PAOs using atmospheric solid analysis probe (ASAP) coupled with ion mobility spectrometry-mass spectrometry (IMS-MS). We studied different PAOs grades exhibiting low- and high-viscosity index. Specific adjustments of the ASAP source parameters permitted the monitoring of ionization processes as three mechanisms could occur for these compounds: hydride abstraction, nitrogen addition, and/or the formation of [M−2H]{sup +•} ions. Several series of fragment ions were obtained, which allowed the identification of the alpha olefin used to synthesize the PAO. The use of the ion mobility separation dimension provides information on isomeric species. In addition, the drift time versus m/z plots permitted rapid comparison between PAO samples and to evidence their complexity. These 2D plots appear as fingerprints of PAO samples. To conclude, the resort to ASAP-IMS-MS provides a rapid characterization of the PAO samples in a direct analysis approach, without any sample preparation. .

46 INSTRUMENTATION RELATED TO NUCLEAR SCIENCE AND ↗

Modified Quadrupole Ion Trap Mass Spectrometer for Infrared Ion Spectroscopy: Application to Protonated Thiated Uridines

Modifications to a Paul-type quadrupole ion trap mass spectrometer providing optical access to the trapped ion cloud as well as hardware and software for coupling to a table-top IR optical parametric oscillator laser (OPO) are detailed. Critical experimental parameters for infrared multiple photon dissociation (IRMPD) on this instrument are characterized. IRMPD action spectra, collected in the hydrogen-stretching region with this instrument, complemented by spectra in the IR fingerprint region acquired at the FELIX facility, are employed to characterize the structures of the protonated forms of 2-thiouridine, [s{sup 2}Urd+H]{sup +}, and 4-thiouridine, [s{sup 4}Urd+H]{sup +}. The measured spectra are compared with predicted linear IR spectra calculated at the B3LYP/6-311+G(d,p) level of theory to determine the conformers populated in the experiments. This comparison indicates that thiation at the 2- or 4-positions shifts the protonation preference between the 2,4-H tautomer and 4-protonation in opposite directions versus canonical uridine, which displays a roughly equal preference for the 2,4-H tautomer and O4 protonation. As found for canonical uridine, protonation leads to a mixture of conformers exhibiting C2′-endo and C3′-endo sugar puckering with an anti nucleobase orientation being populated for both 2- and 4-thiated uridine. .

46 INSTRUMENTATION RELATED TO NUCLEAR SCIENCE AND ↗

Data-Driven Surrogate Modeling with Microstructure-Sensitivity of Viscoplastic Creep in Grade 91 Steel

Abstract To support the development of advanced steel alloys tailored to withstand extreme conditions, it is imperative to account for the mechanical performance of components, while considering the influence of local microstructure on the macroscopic response. To this end, this study focuses on the development of microstructure-sensitive constitutive models for the mechanical response of Grade 91 steel exposed to extreme thermo-mechanical environments. Polynomial chaos expansion (PCE) surrogates are used to emulate high-fidelity polycrystal simulations of the viscoplastic response of Grade 91 steel as a function of the microstructure fingerprint (e.g., dislocations and precipitates). To cover a wide temperature–stress domain, two separate PCE surrogates—one that captures softening and the other that captures hardening behavior—are combined using another (sparse) Gaussian process regression model. The resulting constitutive creep surrogate model is integrated within the MOOSE finite element framework to simulate the intricate effects of microstructure, in particular MX-phase precipitates, on a component with a graded microstructure. Surrogate sensitivity analysis is applied to quantify the relevant impact of spatially varying microstructure on the creep response in a test-case involving a Grade 91 alloy with a prototypical weld.

36 MATERIALS SCIENCE↗

A reduced order model to analytically infer atmospheric CO 2 concentration from stomatal and climate data

To address questions related to the acceleration or deceleration of the global hydrological cycle or links between the carbon and water cycles over land, reliable data for past climatic conditions based on proxies are required. In particular, the reconstruction of palaeoatmospheric CO 2 content (C a ) is needed to assist the separation of natural from anthropogenic C a variability and to explore phase relations between C a and air temperature T a time series. Both T a and C a are needed to fingerprint anthropogenic signatures in vapor pressure deficit, a major driver used to explain acceleration or deceleration phases in the global hydrological cycle. Current approaches to C a reconstruction rely on a robust inverse correlation between measured stomatal density in leaves (ν) of many plant taxa and C a . There are two methods that exploit this correlation: The first uses calibration curves obtained from extant species assumed to represent the fossil taxa, thereby restricting the suitable taxa to those existing today. The second is a hybrid eco-hydrological/physiological approach that determines C a with the aid of systems of equations based on quasi-instantaneous leaf-gas exchange theories and fossil stomatal data collected along with other measured leaf anatomical traits and parameters. In this contribution, a reduced order model (ROM) is proposed that derives C a from a single equation incorporating the aforementioned stomatal data, basic climate (e.g. temperature), estimated biochemical parameters of assimilation and isotope data. The usage of the ROM is then illustrated by applying it to isotopic and anatomical measurements from three extant species. The ROM derivation is based on a balance between the biochemical demand and atmospheric supply of CO 2 that leads to an explicit expression linking stomatal conductance to internal CO 2 concentration (C i ) and C a . The resulting expression of stomatal conductance from the carbon economy of the leaf is then equated to another expression derived from water vapor gas diffusion that includes anatomical traits. When combined with isotopic measurements for long-term C i /C a , C a can be analytically determined and is interpreted as the time-averaged C a that existed over the life-span of the leaf. Key advantages of the proposed ROM are: 1) the usage of isotopic data provides constraints on the reconstructed atmospheric CO 2 concentration from ν, 2) the analytical form of this approach permits direct links between parameter uncertainties and reconstructed C a , and 3) the time-scale mismatch between the application of instantaneous leaf-gas exchange expressions constrained with longer-term isotopic data is reconciled through averaging rules and sensitivity analysis. The latter point was rarely considered in prior reconstruction studies that combined models of leaf-gas exchange and isotopic data to reconstruct C a from ν. The proposed ROM is not without its limitations given the need to a priori assume a parameter related to the control on photosynthetic rate. Our work here further explores immanent constraints for the aforementioned photosynthetic parameter.

54 ENVIRONMENTAL SCIENCES↗