Engineering topics

Liu, Gaoxiang

Publications and source records attributed to Liu, Gaoxiang.

11 records

DOE OSTI2024

Image processing tools for petabyte-scale light sheet microscopy data

Light sheet microscopy is a powerful technique for high-speed three-dimensional imaging of subcellular dynamics and large biological specimens. However, it often generates datasets ranging from hundreds of gigabytes to petabytes in size for a single experiment. Conventional computational tools process such images far slower than the time to acquire them and often fail outright due to memory limitations. To address these challenges, we present PetaKit5D, a scalable software solution for efficient petabyte-scale light sheet image processing. This software incorporates a suite of commonly used processing tools that are optimized for memory and performance. Notable advancements include rapid image readers and writers, fast and memory-efficient geometric transformations, high-performance Richardson–Lucy deconvolution and scalable Zarr-based stitching. These features outperform state-of-the-art methods by over one order of magnitude, enabling the processing of petabyte-scale image data at the full teravoxel rates of modern imaging cameras. The software opens new avenues for biological discoveries through large-scale imaging experiments.

97 MATHEMATICS AND COMPUTING↗

DOE OSTI2023

Characterization, comparison, and optimization of lattice light sheets

Lattice light sheet microscopy excels at the noninvasive imaging of three-dimensional (3D) dynamic processes at high spatiotemporal resolution within cells and developing embryos. Recently, several papers have called into question the performance of lattice light sheets relative to the Gaussian sheets most common in light sheet microscopy. Here, we undertake a theoretical and experimental analysis of various forms of light sheet microscopy, which demonstrates and explains why lattice light sheets provide substantial improvements in resolution and photobleaching reduction. The analysis provides a procedure to select the correct light sheet for a desired experiment and specifies the processing that maximizes the use of all fluorescence generated within the light sheet excitation envelope for optimal resolution while minimizing image artifacts and photodamage. We also introduce a new type of “harmonic balanced” lattice light sheet that improves performance at all spatial frequencies within its 3D resolution limits and maintains this performance over lengthened propagation distances allowing for expanded fields of view.

59 BASIC BIOLOGICAL SCIENCES↗

DOE OSTI2022

Theoretical and Experimental Study of the Spectroscopy and Thermochemistry of UC +/0/–

A combination of high-level ab initio calculations and anion photoelectron detachment (PD) measurements is reported for the UC, UC – , and UC + molecules. To better compare the theoretical values with the experimental photoelectron spectrum (PES), a value of 1.493 eV for the adiabatic electron affinity (AEA) of UC was calculated at the Feller–Peterson–Dixon (FPD) level. The lowest vertical detachment energy (VDE) is predicted to be 1.500 eV compared to the experimental value of 1.487 ± 0.035 eV. A shoulder to lower energy in the experimental PD spectrum with the 355 nm laser can be assigned to a combination of low-lying excited states of UC – and excited vibrational states. The VDEs calculated for the low-lying excited electronic states of UC at the SO-CASPT2 level are consistent with the observed additional electron binding energies at 1.990, 2.112, 2.316, and 3.760 eV. Potential energy curves for the Ω states and the associated spectroscopic properties are also reported. Compared to UN and UN + , the bond dissociation energy (BDE) of UC (411.3 kJ/mol) is predicted to be considerably lower. The natural bond orbitals (NBO) calculations show that the UC 0/+/– molecules have a bond order of 2.5 with their ground-state configuration arising from changes in the oxidation state of the U atom in terms of the 7s orbital occupation: UC (5f 2 7s 1 ), UC – (5f 2 7s 2 ), and UC + (5f 2 7s 0 ). Furthermore, the behavior of the UN and UC sequence of molecules and anions differs from the corresponding sequences for UO and UF.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

DOE OSTI2022

Electronic Properties of UN and UN – from Photoelectron Spectroscopy and Correlated Molecular Orbital Theory

In this work, the results of calculations of the properties of the anion UN – including electron detachment are described, which further expand our knowledge of this diatomic molecule. High-level electronic structure calculations were conducted for the UN and UN – diatomic molecules and compared to photoelectron spectroscopy measurements. The low-lying Ω states were obtained using multireference CASPT2 including spin-orbit effects up to ~20,000 cm –1 . At the Feller–Peterson–Dixon (FPD) level, the adiabatic electron affinity (AEA) of UN is estimated to be 1.402 eV and the vertical detachment energy (VDE) is 1.423 eV. The assignment of the UN excited states shows good agreement with the experimental results with a VDE of 1.424 eV. An Ω = 4 ground state was obtained for UN – which is mainly associated with the 3 H ΛS state. Thermochemical calculations estimate a bond dissociation energy (BDE) for UN – (U – + N) of 665.9 kJ/mol, ~15% larger than that of UN and UN + . The NBO analysis reveals U–N triple bonds for the UN, UN – , and UN + species.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

DOE OSTI2021

Metal–Metal Bonding in Actinide Dimers: U 2 and U 2 –

Understanding direct metal–metal bonding between actinide atoms has been an elusive goal in chemistry for years. Here we report for the first time the anion photoelectron spectrum of U 2 – . The threshold of the lowest electron binding energy (EBE) spectral band occurs at 1.0 eV, which corresponds to the electron affinity (EA) of U 2 , whereas the vertical detachment energy of U 2 – is found at EBE ~ 1.2 eV. Electronic structure calculations on U 2 and U 2 – were carried out with state-of-the-art theoretical methods. The computed values of EA(U 2 ) and EA(U) and the difference between the computed dissociation energies of U 2 and U 2 – are found to be internally consistent and consistent with experiment. Analysis of the bonds in U 2 and U 2 – shows that while U 2 has a formal quintuple bond, U 2 – has a quadruple bond, even if the effective bond orders differ only by 0.5 unit instead of one unit. Furthermore, the resulting experimental-computational synergy elucidates the nature of metal–metal bonding in U 2 and U 2 – .

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

DOE OSTI2021

The electron affinity of the uranium atom

The results of a combined experimental and computational study of the uranium atom are presented with the aim of determining its electron affinity. Experimentally, the electron affinity of uranium was measured via negative ion photoelectron spectroscopy of the uranium atomic anion, U – . Computationally, the electron affinities of both thorium and uranium were calculated by conducting relativistic coupled-cluster and multi-reference configuration interaction calculations. The experimentally determined value of the electron affinity of the uranium atom was determined to be 0.309 ± 0.025 eV. The computationally predicted electron affinity of uranium based on composite coupled cluster calculations and full four-component spin–orbit coupling was found to be 0.232 eV. Predominately due to a better convergence of the coupled cluster sequence for Th and Th – , the final calculated electron affinity of Th, 0.565 eV, was in much better agreement with the accurate experimental value of 0.608 eV. In both scenarios, the ground state of the anion corresponds to electron attachment to the 6d orbital.

38 RADIATION CHEMISTRY, RADIOCHEMISTRY, AND NUCLEA↗

DOE OSTI2020

Mapping the Electronic Structure of the Uranium(VI) Dinitride Molecule, UN 2

A combined anion photoelectron spectroscopic and relativistic electronic-structure computational study of the electronic structure of the UN 2 molecule is reported. Since the photoelectron spectrum of uranium dinitride’s negative ion, UN 2 - , (UN 2 plus an additional electron) directly reflects the electronic structure of neutral UN 2 , we have measured and relied upon the photoelectron spectrum of the UN 2 – anion as a means of mapping the electronic structure of neutral UN 2 . In addition to the electron affinity of the UN 2 ground state (the energy released when attaching an electron to UN 2 molecule), energy levels of the UN 2 excited states (electronic states with higher energies than the ground state) were well characterized by the close interplay between experiment and high-level theory. We found that both electron attachment and electronic excitation significantly bend the UN 2 molecule and elongate its U≡N bond. Implications for the activation of UN 2 are discussed.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

DOE OSTI2020

CO 2 Hydrogenation to Formate and Formic Acid by Bimetallic Palladium–Copper Hydride Clusters

Mass spectrometric analysis of the anionic products of interaction between bimetallic palladium-copper tetrahydride anions, PdCuH 4 – , and carbon dioxide, CO 2 , in a reaction cell shows an efficient generation of the PdCuCO 2 H 4 – intermediate and formate/formic acid complexes. Multiple structures of PdCuH 4 – and PdCuCO 2 H 4 – are identified by a synergy between anion photoelectron spectroscopy and quantum chemical calculations. The higher energy PdCuH 4 – isomer is shown to drive the catalytic hydrogenation of CO 2 , emphasizing the importance of accounting for higher energy isomers for cluster catalytic activity. In conclusion, this study represents the first example of CO 2 hydrogenation by bimetallic hydride clusters.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

DOE OSTI2019

Ligand Effect on the Electronic Structure of Cobalt Sulfide Clusters: A Combined Experimental and Theoretical Study

Recent studies have shown that capping ligands offer a new dimension for fine-tuning the properties of clusters. In this work, we investigate this concept by measuring the anion photoelectron spectra of a series of hexanuclear cobalt sulfide clusters, Co 6 S 8 , passivated by different numbers of triethylphosphine ligands, PEt 3 . We find that the addition of PEt 3 gradually shifts the electronic spectrum of the cluster to higher energy, leading to a decrease in its electron affinity. Density functional theory calculations reveal that adding ligands demagnetizes the Co6S8 core. The decrease in electron affinity results from a monotonic increase in the energy of the cluster lowest unoccupied molecular orbitals (LUMO). This effect is attributed to the electron donation from the ligands to the cluster core, which increases the charge density in the core region.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

DOE OSTI2019

Tuning the electronic properties of hexanuclear cobalt sulfide superatoms via ligand substitution

Molecular clusters are attractive superatomic building blocks for creating materials with tailored properties due to their unique combination of atomic precision, tunability and functionality. The ligands passivating these superatomic clusters offer an exciting opportunity to control their electronic properties while preserving their closed shells and electron counts, which is not achievable in conventional atoms. Here we demonstrate this concept by measuring the anion photoelectron spectra of a series of hexanuclear cobalt sulfide superatomic clusters with different ratios of electron-donating and electron-withdrawing ligands, Co 6 S 8 (PEt 3 ) 6-x (CO) x (x = 0–3). We find that Co 6 S 8 (PEt 3 ) 6 has a low electron affinity (EA) of 1.1 eV, and that the successive replacement of PEt3 ligands with CO gradually shifts its electronic spectrum to lower energy and increases its EA to 1.8 eV. Density functional theory calculations reveal that the increase of EA results from a monotonic lowering of the cluster highest occupied and lowest unoccupied molecular orbitals (HOMO and LUMO). Our work provides unique insights into the electronic structure and tunability of superatomic building blocks.

Chemistry↗

DOE OSTI2018

Communication: Water activation and splitting by single metal-atom anions

We report experimental and computational results pertaining to the activation of single water molecules by single, atomic Group 10 metal anions. The anion photoelectron spectra of [Pt(H 2 O)] - , [Ni(H 2 O)] - , and [Pd(H 2 O)]- exhibit spectral features that are due both to anion-molecule complexes of the form, M-(H 2 O), where M = Pt, Ni, Pd, and to the formation of HMOH- intermediates. Computations at the CCSD(T) level of theory provide structures and vertical detachment energies of both HMOH- and H 2 MO - intermediates. The calculated vertical detachment energies for HMOH- are in good agreement with the photoelectron spectra and thus supports their identification. The formation of HMOH - intermediates requires that one O-H bond in water be broken; the presence of these species shows that water has been activated. The formation of H 2 MO - intermediates, however, requires that two O-H bonds be broken. While the photoelectron spectra do not exhibit features that can unambiguously be assigned to H 2 MO - , the observation of PtO - suggests the presence of H 2 PtO - .

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗