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DOE OSTI2019

Data Mining Scientific Literature Demonstrates Use of Biological and Medical Data Across Scientific Disciplines

The Protein Data Bank (PDB) was established as the 1st open access digital data resource in biology and medicine. Today, the PDB archive contains over 140,000 atomic‐level biomolecular structures determined by crystallography, NMR spectroscopy, and 3D electron microscopy. About 20 new structures are deposited daily. PDB data is used in basic and applied research, patent applications, discovery of lifesaving drugs, product innovation, and education. About 80% of all PDB structures deposited have a “primary citation,” which is the first paper to describe the molecule and its structure and function. In turn, these primary citations have contributed to more than 1 million publications. An initial study by Clarivate Analytics on the Nucleic Acids Research publication demonstrated that PDB data drive high‐impact research in diverse scientific fields. To build on this study, we used Python programming to perform several data mining studies to understand the impact of these structures in fundamental biology, biomedicine, and energy in the scientific literature. The scientific literature database, Web of Science, tracks scientific article metrics such as the number of times cited, subject category, year published, funding source, and keywords. Web of Science data for PDB primary citations was compiled as used as the data set. Two main investigations were performed. In the first, we examined the number of citations per article (data overall and by individual subject categories) to develop “top 10 cited structures” lists and analyzed for trends. In the second investigation, we extended our data mining analysis to consider for each main subject category, the papers with the most citations and the structures they cite, and the most frequently occuring keywords. We have observed different aspects of biological data utility in various subject areas, at times in ways unanticipated from the structures' primary citation. This research demonstrates the value of biological data from the PDB by showing the diverse ways in which the data are being used. Support or Funding Information RCSB PDB is funded by a grant (DBI‐1338415) from the National Science Foundation, the National Institutes of Health, and the US Department of Energy. This abstract is from the Experimental Biology 2019 Meeting. There is no full text article associated with this abstract published in The FASEB Journal .

Verdiguel, Natalie↗

DOE OSTI2017

Oak Ridge Reservation Environmental Protection Rad Neshaps Radionuclide Inventory Web Database and Rad Neshaps Source and Dose Database

The U.S. Environmental Protection Agency promulgated national emission standards for emissions of radionuclides other than radon from US Department of Energy facilities in Chapter 40 of the Code of Federal Regulations (CFR) 61, Subpart H. This regulatory standard limits the annual effective dose that any member of the public can receive from Department of Energy facilities to 0.1 mSv. As defined in the preamble of the final rule, all of the facilities on the Oak Ridge Reservation, i.e., the Y–12 National Security Complex, Oak Ridge National Laboratory, East Tennessee Technology Park, and any other U.S. Department of Energy operations on Oak Ridge Reservation, combined, must meet the annual dose limit of 0.1 mSv. At Oak Ridge National Laboratory, there are monitored sources and numerous unmonitored sources. To maintain radiological source and inventory information for these unmonitored sources, e.g., laboratory hoods, equipment exhausts, and room exhausts not currently venting to monitored stacks on the Oak Ridge National Laboratory campus, the Environmental Protection Rad NESHAPs Inventory Web Database was developed. This database is updated annually and is used to compile emissions data for the annual Radionuclide National Emission Standards for Hazardous Air Pollutants (Rad NESHAPs) report required by 40 CFR 61.94. It also provides supporting documentation for facility compliance audits. In addition, a Rad NESHAPs source and dose database was developed to import the source and dose summary data from Clean Air Act Assessment Package—1988 computer model files. As a result, this database provides Oak Ridge Reservation and facility-specific source inventory; doses associated with each source and facility; and total doses for the Oak Ridge Reservation dose.

96 KNOWLEDGE MANAGEMENT AND PRESERVATION↗

DOE OSTI2023

Methods to Account for CAP-88 PC-Omitted Nuclides in Radioactive Air Emissions From DOE Facilities

Routine research and development activities at US Department of Energy facilities can result in the release of radioactive emissions, potentially exposing the public and the environment. Such emissions are subject to certain Clean Air Act regulations, specifically those outlined in 40 CFR Part 61, Subpart H, which are enforced by the US Environmental Protection Agency. Compliance is determined in part with a dose standard. Doses to members of the public from most US Department of Energy facility airborne emissions are modeled using CAP-88 PC software, the latest version of which contains more than 1,200 radionuclides. Radioactive effluents from US Department of Energy facilities may contain radioisotopes that are not available in CAP-88 PC, and those radioisotopes must still be evaluated to determine whether doses to members of the public are below established limits. CAP-88 PC-omitted radionuclides can be accounted for using alternate methods, including the use of surrogate radionuclides. Here, this paper elucidates the process of accounting for CAP-88 PC-omitted radionuclides by providing criteria and rationale for surrogate selection, a compilation of surrogate radionuclides used in the past by US Department of Energy facilities, a discussion of alternate methods used to account for CAP-88 PC-omitted radionuclides and a comparison of methods and impacts on receptor doses. Ultimately, this paper aims to aid in the process of surrogate selection and consequently to simplify and expedite compliance with Clean Air Act regulations.

61 RADIATION PROTECTION AND DOSIMETRY↗

DOE OSTI2024

Methods to Track Effective Doses from Airborne Radioactive Emissions for Compliance with 40 CFR 61, SUBPART H

US Department of Energy national laboratories can play an integral role in not only the advancement of science but also in the treatment of various medical conditions through research and development activities conducted at radioisotope production facilities. Here, a project has been underway at Oak Ridge National Laboratory since 2016 whose mission is to produce and supply the radioisotope 227 Ac, which is used in a radiopharmaceutical developed to treat certain types of prostate cancer and bone metastases. Production activities result in the environmental release of airborne radioactive emissions, which are governed by Clean Air Act regulations described in 40 CFR Part 61, Subpart H. Stack 3039, the source that emits radioactive effluents from 227 Ac production, is subject to additional requirements outlined in American National Standards Institute (ANSI) N13.1-1969 due to its grandfathered status. Radioactive emissions are limited to levels below those that would cause annual compliance dose standards for members of the public to be exceeded and stack 3039 to lose its grandfathered status. To allow for maximum production of 227 Ac without exceeding relevant dose limits, monthly tracking of project emissions and resulting CAP88-PC modeled effective doses to a maximally exposed individual have been implemented. Four years of tracking data were compiled and analyzed to identify additional methods that could be used to estimate project doses more frequently, potentially further optimizing 227 Ac production while maintaining compliance with applicable regulations.

atmospheric emissions↗

DOE OSTI2012

Emergency Response Health Physics

Health physics is an important discipline with regard to understanding the effects of radiation on human health; however, there are major differences between health physics for research or occupational safety and health physics during a large-scale radiological emergency. The deployment of a U.S. Department of Energy/National Nuclear Security Administration (DOE/NNSA) monitoring and assessment team to Japan in the wake of the March 2011 accident at Fukushima Daiichi Nuclear Power Plant yielded a wealth of lessons on these difference. Critical teams (CMOC (Consequence Management Outside the Continental U.S.) and CMHT (Consequence Management Home Team) ) worked together to collect, compile, review, and analyze radiological data from Japan to support the response needs of and answer questions from the Government of Japan, the U.S. military in Japan, the U.S. Embassy and U.S. citizens in Japan, and U.S. citizens in America. This paper addresses the unique challenges presented to the health physicist or analyst of radiological data in a large-scale emergency. A key lesson learned was that public perception and the availability of technology with social media requires a diligent effort to keep the public informed of the science behind the decisions in a manner that is meaningful to them.

21 SPECIFIC NUCLEAR REACTORS AND ASSOCIATED PLANTS↗

DOE OSTI2026

Fault-tolerant resource comparison of qudit and qubit encodings for diagonal quadratic operators

Finite local Hilbert-space truncations arise naturally in quantum simulations of lattice field theories and motivate qudit encodings, but their fault-tolerant advantage over qubit encodings remains unclear. We compare the non-Clifford cost of implementing quadratic diagonal evolutions, exemplified by 𝑈 = 𝑒$^{−𝑖⁢𝑡⁢𝜙^2_𝑥}$ in a uniform field-amplitude discretization of a real scalar field, using either one logical 𝑑-level qudit or 𝑛 𝑏 = ⌈log 2⁡ 𝑑⌉ logical qubits. We analyze two standard settings: product-formula simulation and linear combination of unitaries (LCU) per block encoding, taking the resource metric to be the number of non-Clifford gates after synthesis into a discrete logical gate set. Because tight synthesis bounds for general single-qudit rotations are not known, we express the qudit constructions in terms of embedded two-level SU⁡(2) rotations and derive explicit finite-𝑑 break-even conditions for their synthesis cost; these serve as compiler targets for when qudit encodings can outperform the qubit baseline. Within the constructive models studied here, product-formula implementations would require an exponentially stronger per-primitive synthesis advantage for qudits to win asymptotically, while in the LCU setting the qubit encoding is asymptotically cheaper in 𝑑. Nevertheless, the finite-𝑑 threshold analysis identifies low-dimensional regions in which qudits can yield meaningful constant-factor savings, particularly for LCU-based implementations. As a secondary analysis of the LCU construction, we use an idealized negligible-overhead qubit-qudit code-switching model to give an absolute 𝑇-count comparison and reinterpret the savings as an allowable per-switch overhead budget.

Godwood, Samuel [Univ. of Liverpool (United Kingdo↗

DOE OSTI2025

Synthesis of single-qutrit circuits from Clifford+𝑅 gates

Here, we present two deterministic compilation algorithms for single-qutrit unitaries with O ( log 1 / ɛ ) gate depth. Each algorithm selects a nearby approximation to the target unitary and then exactly synthesizes the approximation over the Clifford + R basis. The first algorithm exhaustively searches over the group; while the second algorithm searches only for Householder reflections. The exhaustive search algorithm yields an average R count of 2.193 ( 11 ) + 8.621 ( 7 ) log 10 ( 1 / ɛ ) , albeit with a time complexity of O ( ɛ − 4.4 ) . The Householder search algorithm results in a larger average R count of 3.20 ( 13 ) + 10.77 ( 3 ) log 10 ( 1 / ɛ ) at a reduced time complexity of O ( ɛ − 0.42 ) , greatly extending the reach in ɛ . These costs correspond asymptotically to 35% and 69% more non-Clifford gates compared with synthesizing the same unitary with two qubits. Such initial results are encouraging for using the R gate as the nontransversal gate for qutrit-based computation.

71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗

DOE OSTI2025

Logical error rates for the surface code under a mixed coherent and stochastic circuit-level noise model inspired by trapped ions

With fault-tolerant quantum computing (FTQC) on the horizon, it is critical to understand sources of logical errors in plausible hardware implementations of quantum error-correcting codes. Detailed error modeling of computational instructions on particular FTQC architectures will enable the better prediction of error propagation in FT-encoded quantum circuits while revealing where greater attention is needed in hardware design. In this work, we consider logical error rates for the surface code implemented on a hypothetical grid-based trapped-ion quantum charge-coupled device architecture. Specifically, we construct logical channels for the idling surface code and examine its diamond error under a mixed coherent and stochastic circuit-level noise model inspired by trapped ions. We include the coherent dephasing noise that is known to accumulate during physical qubit idling and transport in these systems, determining idling and transport durations using the time-resolved output of an open-source trapped-ion surface code compiler. To estimate expectation values of logical Pauli observables following hardware circuits containing non-Clifford sources of noise, we utilize a Monte Carlo technique to sample from an underlying quasiprobability distribution of Clifford circuits that we independently simulate in a phase-sensitive fashion. We verify error suppression up to code distance 𝑑 = 11 at coherent dephasing rates near and below those of current-generation trapped-ion quantum computers and find that logical error rates align with those of analogous fully stochastic simulations in this regime. Exploring higher dephasing rates at 𝑑 = 3−5, we find evidence for growing coherent rotations about all three logical Pauli axes, increased diagonal logical error process matrix elements relative to those of stochastic simulations, and a reduced dephasing rate threshold. Overall, our work paves a way toward realistic hardware emulation of small fault-tolerant quantum processes, e.g., members of an FTQC instruction set.

Quantum benchmarking↗

DOE OSTI2021

Random circuit block-encoded matrix and a proposal of quantum LINPACK benchmark

The LINPACK benchmark reports the performance of a computer for solving a system of linear equations with dense random matrices. Although this task was not designed with a real application directly in mind, the LINPACK benchmark has been used to define the list of TOP500 supercomputers since the debut of the list in 1993. We propose that a similar benchmark, called the quantum LINPACK benchmark, could be used to measure the whole machine performance of quantum computers. The success of the quantum LINPACK benchmark should be viewed as the minimal requirement for a quantum computer to perform a useful task of solving linear algebra problems, such as linear systems of equations. We propose an input model called the Random Circuit Block-Encoded Matrix (RACBEM), which is a proper generalization of a dense random matrix in the quantum setting. The RACBEM model is efficient to be implemented on a quantum computer and can be designed to optimally adapt to any given quantum architecture, with relying on a black-box quantum compiler. Besides solving linear systems, the RACBEM model can be used to perform a variety of linear algebra tasks relevant to many physical applications, such as computing spectral measures, time series generated by a Hamiltonian simulation, and thermal averages of the energy. We implement these linear algebra operations on IBM Q quantum devices as well as quantum virtual machines, and demonstrate their performance in solving scientific computing problems.

71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗

DOE OSTI2024

Dynamics of qudit gates and effects of spectator modes on optimal control pulses

Qudit gates for high-dimensional quantum computing can be synthesized with high precision using numerical quantum optimal control techniques. Large circuits are broken down into modules and the tailored pulses for each module can be used as primitives for a qudit compiler. Application of the pulses of each module in the presence of extra modes may decrease their effectiveness due to crosstalk. In this paper, we address this problem by simulating qudit dynamics for circuit quantum electrodynamics systems. As a test case, we take pulses for single-qudit swap gates optimized in isolation and then apply them in the presence of spectator modes each of which are in Fock states. We provide an experimentally relevant scaling formula that can be used as a bound on the fidelity decay. Our results show that frequency shift from spectator mode populations has to be ≲ 0.1 % of the qudit's nonlinearity in order for high-fidelity single-qudit gates to be useful in the presence of occupied spectator modes.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗

DOE OSTI2010

Relativistic recoil, electron-correlation, and QED effects on the 2p{sub j}-2s transition energies in Li-like ions

The relativistic nuclear recoil, higher-order interelectronic-interaction, and screened QED corrections to the transition energies in Li-like ions are evaluated. The calculation of the relativistic recoil effect is performed to all orders in 1/Z. The interelectronic-interaction correction to the transition energies beyond the two-photon-exchange level is evaluated to all orders in 1/Z within the Breit approximation. The evaluation is carried out employing the large-scale configuration-interaction Dirac-Fock-Sturm method. The rigorous calculation of the complete gauge invariant sets of the screened self-energy and vacuum-polarization diagrams is performed utilizing a local screening potential as the zeroth-order approximation. The theoretical predictions for the 2p{sub j}-2s transition energies are compiled and compared with available experimental data in the range of the nuclear charge number Z=10-60.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗

DOE OSTI2011

Shor's quantum algorithm using electrons in semiconductor nanostructures

Shor's factoring algorithm illustrates the potential power of quantum computation. Here, we present and numerically investigate a proposal for a compiled version of such an algorithm based on a quantum-wire network by exploiting the potential of fully coherent electron transport assisted by the surface acoustic waves. Specifically, a nonstandard approach is used to implement, in a simple form, the quantum circuits of the modular exponentiation execution for the simplest instance of Shor's algorithm, that is, the factorization of N=15. The numerical procedure is based on a time-dependent solution of the multiparticle Schroedinger equation. The near-ideal algorithm performance and the large estimated fidelity indicate the efficiency of the protocol implemented, which also is almost insensitive to small destabilizing effects during quantum computation.

71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗

DOE OSTI2011

Multiconfiguration Dirac-Fock calculations on multi-valence-electron systems: Benchmarks on Ga-like ions

High-accuracy calculations of term energies and wavelengths of resonance lines in Ga-like ions have been performed as benchmarks in the request for accurate treatments of relativity, electron correction, and QED effects in multi-valence-electron systems. The calculated energy levels are in excellent agreement with the experimental results and the experimentally compiled energy values of the National Institute for Standards and Technology wherever available. The calculated values including core-valence correction are found to be in good agreement with other theoretical and experimental values for low- to medium-Z ions. On the basis of our calculations, some theoretical wavelengths for Ga-like Rb vii to Mo xii are also given. For higher-Z ions, computed wavelengths are compared well with the experimental results [E. Traebert, J. Clementson, P. Beiersdorfer, J. A. Santana, and Y. Ishikawa, Phys. Rev. A 82, 062519 (2010), I. N Draganicet al., J. Phys. B 44, 025001 (2011)].

74 ATOMIC AND MOLECULAR PHYSICS↗

DOE OSTI2019

Controlling error orientation to improve quantum algorithm success rates

The success probability of a quantum algorithm constructed from noisy quantum gates cannot be accurately predicted from single-parameter metrics that compare noisy and ideal gates. We illustrate this concept by examining a system with coherent errors and comparing algorithm success rates for different choices of two-qubit gates that are constructed from composite pulse sequences, where the residual gate errors are related by a unitary transformation. As a result, all of the sequences have the same error relative to the ideal gate under any distance measure that is invariant under unitary transformations. However, the circuit success can vary dramatically by choosing error orientations that do not affect the final outcome and error orientations that cancel between conjugate controlled-nots, as demonstrated here with Clifford circuits, compiled Toffoli gates, and quantum simulation algorithms. Furthermore, the results point to the utility of both minimizing the error and optimizing the error direction and also to the advantages of using multiple control sequences for the same gate type within a single algorithm.

71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗

DOE OSTI2020

Detection of topological materials with machine learning

Databases compiled using ab initio and symmetry-based calculations now contain tens of thousands of topological insulators and topological semimetals. This makes the application of modern machine learning methods to topological materials possible. Using gradient boosted trees, we show how to construct a machine learning model which can predict the topology of a given existent material with an accuracy of 90%. Such predictions are orders of magnitude faster than actual ab initio calculations. In this work, we use machine learning models to probe how different material properties affect topological features. Notably, we observe that topology is mostly determined by the “coarse-grained” chemical composition and crystal symmetry and depends little on the particular positions of atoms in the crystal lattice. We identify the sources of our model's errors and we discuss approaches to overcome them.

75 CONDENSED MATTER PHYSICS, SUPERCONDUCTIVITY AND↗

DOE OSTI2017

Z2Pack: Numerical implementation of hybrid Wannier centers for identifying topological materials

The intense theoretical and experimental interest in topological insulators and semimetals has established band structure topology as a fundamental material property. Consequently, identifying band topologies has become an important, but often challenging, problem, with no exhaustive solution at the present time. Here, we compile a series of techniques, some previously known, that allow for a solution to this problem for a large set of the possible band topologies. The method is based on tracking hybrid Wannier charge centers computed for relevant Bloch states, and it works at all levels of materials modeling: continuous k ∙ p models, tight-binding models, and ab initio calculations. We apply the method to compute and identify Chern, $\mathbb{Z}$ 2 , and crystalline topological insulators, as well as topological semimetal phases, using real material examples. Moreover, we provide a numerical implementation of this technique (the Z2Pack software package) that is ideally suited for high-throughput screening of materials databases for compounds with nontrivial topologies. We expect that our work will allow researchers to (a) identify topological materials optimal for experimental probes, (b) classify existing compounds, and (c) reveal materials that host novel, not yet described, topological states.

75 CONDENSED MATTER PHYSICS, SUPERCONDUCTIVITY AND↗

DOE OSTI2025

Energy dependence of polarized 𝛾⁢𝛾 → 𝑒 + ⁢ 𝑒− in peripheral Au+Au collisions at $\sqrt{s_{NN}}$ = 54.4 and 200 GeV with the STAR experiment at RHIC

We report the differential yields at mid-rapidity of the Breit-Wheeler process (𝛾⁢𝛾 → 𝑒 + ⁢𝑒 − ) in peripheral Au+Aucollisions at $\sqrt{s_{NN}}$ = 54.4 and 200 GeV with the STAR experiment at the Relativistic Heavy Ion Collider (RHIC), as a function of energy $\sqrt{s_{NN}}$, 𝑒 + ⁢𝑒 − transverse momentum 𝑝 T , 𝑝$^{2}_{T}$, invariant mass 𝑀 𝑒⁢𝑒 , and azimuthal angle. In the invariant mass range of 0.4 < 𝑀 𝑒⁢𝑒 < 2.6GeV/𝑐 2 at low transverse momentum (𝑝 T < 0.15GeV/𝑐), the yields increase while the pair √⟨𝑝$^{2}_{T}$⟩ decreases with increasing $\sqrt{s_{NN}}$, a feature that is correctly predicted by the QED calculation. Here, the energy dependencies of the measured quantities are sensitive to the nuclear form factor, infrared divergence and photon polarization. The data are compiled and used to extract the charge radius of the Au nucleus.

73 NUCLEAR PHYSICS AND RADIATION PHYSICS↗

DOE OSTI2010

Energy dependence of p-bar/p ratio in p+p collisions

We compiled the experimentally measured p-bar/p ratio at midrapidity in p+p collisions from {radical}(s)=23 to 7000 GeV and compared it to various mechanisms of baryon production as implemented in the pythia, phojet, and Heavy Ion Jet Interaction Generator (HIJING)/B-B models. For the models studied with default settings, phojet has the best agreement with the measurements, pythia gives a higher value for {radical}(s)<200 GeV, and the ratios from HIJING/B-B are consistently lower for all the {radical}(s) studied. A comparison of the data to different mechanisms of baryon production as implemented in pythia shows that through a suitable tuning of the suppression of diquark-antidiquark pair production in the color field relative to quark-antiquark production and allowing the diquarks to split according to the popcorn scheme, a fairly reasonable description of the measured p-bar/p ratio for {radical}(s)<200 GeV is given. A comparison of the beam energy dependence of the p-bar/p ratio in p+p and nucleus-nucleus (A + A) collisions at midrapidity shows that the baryon production is significantly more for A + A collisions relative to p+p collisions for {radical}(s)<200 GeV. We also carry out a phenomenological fit to the y{sub beam} dependence of the p-bar/p ratio.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗