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At least 775 records · Page 43

Benchmarking universal machine learning interatomic potentials for rapid analysis of inelastic neutron scattering data

The accurate calculation of phonons and vibrational spectra remains a significant challenge, requiring highly precise evaluations of interatomic forces. Traditional methods based on the quantum description of the electronic structure, while widely used, are computationally expensive and demand substantial expertise. Emerging universal machine learning interatomic potentials (uMLIPs) offer a transformative alternative by employing pre-trained neural network surrogates to predict interatomic forces directly from atomic coordinates. This approach dramatically reduces computation time and minimizes the need for technical knowledge. In this paper, we produce a phonon database comprising nearly 5000 inorganic crystals to benchmark the performance of several leading uMLIPs. We further assess these models in real-world applications by using them to analyze experimental inelastic neutron scattering data collected on a variety of materials. Through detailed comparisons, we identify the strengths and limitations of these uMLIPs, providing insights into their accuracy and suitability for fast calculations of phonons and related properties, as well as the potential for real-time interpretation of neutron scattering spectra. Our findings highlight how the rapid advancement of AI in science is revolutionizing experimental research and data analysis.

inelastic neutron scattering↗

Rapidly evolving aerosol emissions are a dangerous omission from near-term climate risk assessments

Abstract Anthropogenic aerosol emissions are expected to change rapidly over the coming decades, driving strong, spatially complex trends in temperature, hydroclimate, and extreme events both near and far from emission sources. Under-resourced, highly populated regions often bear the brunt of aerosols’ climate and air quality effects, amplifying risk through heightened exposure and vulnerability. However, many policy-facing evaluations of near-term climate risk, including those in the latest Intergovernmental Panel on Climate Change assessment report, underrepresent aerosols’ complex and regionally diverse climate effects, reducing them to a globally averaged offset to greenhouse gas warming. We argue that this constitutes a major missing element in society’s ability to prepare for future climate change. We outline a pathway towards progress and call for greater interaction between the aerosol research, impact modeling, scenario development, and risk assessment communities.

54 ENVIRONMENTAL SCIENCES↗

Rapid Shifts in the Temperature Dependence of Locomotor Performance in an Invasive Frog, Xenopus laevis , Implications for Conservation

Abstract Temperature is a critical abiotic factor impacting all aspects of the biology of organisms, especially in ectotherms. As such, it is an important determinant of the potential invasive ability of organisms and may limit population expansion unless organisms can physiologically respond to changes in temperature either through plasticity or by adapting to their novel environment. Here, we studied the African clawed frog, Xenopus laevis, which has become invasive on a global scale. We compared adults from an invasive population of western France with individuals from two populations in the native range in South Africa. We measured the thermal dependence of locomotor performance in adults given its relevance to dispersal, predator escape, and prey capture. Our results show significant differences in the limits of the 80% performance breadth interval for endurance with the French population showing a left shift in its limits congruent with the colder climate experienced in France. The French invasive population was introduced only about 40 years ago suggesting a rapid shift in the thermal physiology. Given that all individuals were acclimated under laboratory conditions at 23°C for 2 months this suggests that the invasive frogs have adapted to their new environment. These data may allow the refinement of physiologically informed species distribution models permitting better estimates of future ranges at risk of invasion.

Araspin, Laurie↗

Post-Transcriptional Mechanisms Respond Rapidly to Ecologically Relevant Thermal Fluctuations During Temperature-Dependent Sex Determination

An organism’s ability to integrate transient environmental cues experienced during development into molecular and physiological responses forms the basis for adaptive shifts in phenotypic trajectories. During temperature-dependent sex determination (TSD), thermal cues during discrete periods in development coordinate molecular changes that ultimately dictate sexual fate and contribute to patterns of inter- and intra-sexual variation. How these mechanisms interface with dynamic thermal environments in nature remain largely unknown. By deploying thermal loggers in wild nests of the American alligator (Alligator mississippiensis) over two consecutive breeding seasons, we observed that 80% of nests exhibit both male- and female-promoting thermal cues during the thermosensitive period, and of these nests, all exhibited both male- and female-promoting temperatures within the span of a single day. These observations raise a critical question—how are opposing environmental cues integrated into sexually dimorphic transcriptional programs across short temporal scales? To address this question, alligator embryos were exposed to fluctuating temperatures based on nest thermal profiles and sampled over the course of a daily thermal fluctuation. We examined the expression dynamics of upstream genes in the temperature-sensing pathway and find that post-transcriptional alternative splicing and transcript abundance of epigenetic modifier genes JARID2 and KDM6B respond rapidly to thermal fluctuations while transcriptional changes of downstream effector genes, SOX9 and DMRT1, occur on a delayed timescale. Our findings reveal how the basic mechanisms of TSD operate in an ecologically relevant context. We present a hypothetical hierarchical model based on our findings as well as previous studies, in which temperature-sensitive alternative splicing incrementally influences the epigenetic landscape to affect the transcriptional activity of key sex-determining genes.

59 BASIC BIOLOGICAL SCIENCES↗

An finite element analysis surrogate model with boundary oriented graph embedding approach for rapid design

Abstract In this work, we present a boundary oriented graph embedding (BOGE) approach for the graph neural network to assist in rapid design and digital prototyping. The cantilever beam problem has been solved as an example to validate its potential of providing physical field results and optimized designs using only 10 ms. Providing shortcuts for both boundary elements and local neighbor elements, the BOGE approach can embed unstructured mesh elements into the graph and performs an efficient regression on large-scale triangular-mesh-based finite element analysis (FEA) results, which cannot be realized by other machine-learning-based surrogate methods. It has the potential to serve as a surrogate model for other boundary value problems. Focusing on the cantilever beam problem, the BOGE approach with 3-layer DeepGCN model achieves the regression with mean square error (MSE) of 0.011 706 (2.41% mean absolute percentage error) for stress field prediction and 0.002 735 MSE (with 1.58% elements having error larger than 0.01) for topological optimization. The overall concept of the BOGE approach paves the way for a general and efficient deep-learning-based FEA simulator that will benefit both industry and Computer Aided Design (CAD) design-related areas.

42 ENGINEERING↗

The rapid transition from star formation to AGN-dominated rest-frame ultraviolet light at z ≃ 4

ABSTRACT With the advent of deep optical-to-near-infrared extragalactic imaging on the degree scale, samples of high-redshift sources are being selected that contain both bright star-forming (SF) galaxies and faint active galactic nuclei (AGN). In this study, we investigate the transition between SF- and AGN-dominated systems at z ≃ 4 in the rest-frame ultraviolet (UV). We find a rapid transition to AGN-dominated sources brightward of MUV ≃ −23.2. The effect is observed in the rest-frame UV morphology and size–luminosity relation, where extended clumpy systems become point-source-dominated, and also in the available spectra for the sample. These results allow us to derive the rest-frame UV luminosity function (LF) for the SF- and AGN-dominated subsamples. We find the SF-dominated LF is best fit with a double power law, with a lensed Schechter function being unable to explain the existence of extremely luminous SF galaxies at MUV ≃ −23.5. If we identify AGN-dominated sources according to a point-source morphology criterion, we recover the relatively flat faint-end slope of the AGN LF determined in previous studies. If we instead separate the LF according to the current spectroscopic AGN fraction, we find a steeper faint-end slope of α = −1.83 ± 0.11. Using a simple model to predict the rest-frame AGN LF from the z = 4 galaxy LF, we find that the increasing impact of host galaxy light on the measured morphology of faint AGN can explain our observations.

Bowler, R. A. A.↗

High-energy neutrino emission from magnetized jets of rapidly rotating protomagnetars

ABSTRACT Relativistic jets originating from protomagnetar central engines can lead to long duration gamma-ray bursts (GRBs) and are considered potential sources of ultra-high-energy cosmic rays and secondary neutrinos. We explore the propagation of such jets through a broad range of progenitors, from stars which have shed their envelopes to supergiants which have not. We use a semi-analytical spin-down model for the strongly magnetized and rapidly rotating protoneutron star (PNS) to investigate the role of central engine properties such as the surface dipole field strength, initial rotation period, and jet opening angle on the interactions and dynamical evolution of the jet-cocoon system. With this model, we determine the properties of the relativistic jet, the mildly relativistic cocoon, and the collimation shock in terms of system parameters such as the time-dependent jet luminosity, injection angle, and density profile of the stellar medium. We also analyse the criteria for a successful jet breakout, the maximum energy that can be deposited into the cocoon by the relativistic jet, and structural stability of the magnetized outflow relative to local instabilities. Lastly, we compute the high-energy neutrino emission as these magnetized outflows burrow through their progenitors. Precursor neutrinos from successful GRB jets are unlikely to be detected by IceCube, which is consistent with the results of previous works. On the other hand, we find that high-energy neutrinos may be produced for extended progenitors like blue and red supergiants, and we estimate the detectability of neutrinos with next generation detectors such as IceCube-Gen2.

Astronomy & Astrophysics↗

Use of nucleic acid amplification testing for rapid detection of Mycobacterium tuberculosis complex among U.S. tuberculosis patients from 2011–2017

Background: Nucleic acid amplification (NAA) tests rapidly detect Mycobacterium tuberculosis complex directly from clinical specimens, providing valuable results for those evaluated for tuberculosis. Methods: We analyzed characteristics of cases with NAA testing performed, compared cases with positive and negative NAA test results, and calculated turnaround time and time to treatment for all verified cases reported to the National Tuberculosis Surveillance System in the United States during 2011–2017. Results: Among 67082 verified tuberculosis cases with NAA testing information, 30820 (45.9%) were reported as not having an NAA test performed; the proportion without NAA testing declined annually, from 60.5% in 2011 to 33.6% in 2017. Of 67082 verified cases, 27912 (41.6%) had positive, 8215 (12.2%) had negative, and 135 (0.2%) had indeterminate NAA test results. Among the 33937 cases with an acid-fast bacilli (AFB) smear-positive result, 24093 (70.9%) had an NAA test performed; 11490 of the 30244 (38.0%) with an AFB smear-negative result had an NAA test performed. Although sputum was the most common specimen type tested, 79.8% (7023/8804) of nonsputum specimen types had a positive NAA test result. Overall, 63.7% of cases with laboratory testing had NAA test results reported <6 days following specimen collection; for 13891 cases not yet on treatment, median time to treatment after the laboratory report date was 2 days. Conclusions: Our analyses demonstrate increased NAA test utilization between 2011 and 2017. However, a large proportion of cases did not have an NAA test performed, reflecting challenges in broader uptake, suggesting an opportunity to expand use of this diagnostic methodology.

59 BASIC BIOLOGICAL SCIENCES↗

Follow-up observations for IceCube-170922A: Detection of rapid near-infrared variability and intensive monitoring of TXS 0506+056

Abstract We present our follow-up observations to search for an electromagnetic counterpart of the IceCube high-energy neutrino IceCube-170922A. Monitoring observations of a likely counterpart, TXS 0506+056, are also described. First, we quickly took optical and near-infrared images of seven flat-spectrum radio sources within the IceCube error region right after the neutrino detection and found a rapid flux decline of TXS 0506+056 in Kanata/HONIR J-band data. Motivated by this discovery, intensive follow-up observations of TXS 0506+056 were continuously performed, including our monitoring imaging observations, spectroscopic observations, and polarimetric observations in optical and near-infrared wavelengths. TXS 0506+056 showed a large-amplitude (∼1.0 mag) variability in a time scale of several days or longer, although no significant variability was detected in a time scale of a day or shorter. TXS 0506+056 also showed a bluer-when-brighter trend in optical and near-infrared wavelengths. Structure functions of the variabilities were examined and indicate that TXS 0506+056 is not a special blazar in terms of optical variability. Polarization measurement results of TXS 0506+056 are also discussed.

(galaxies:) BL Lacertae objects: general↗

VipariNama: RNA viral vectors to rapidly elucidate the relationship between gene expression and phenotype

Synthetic transcription factors have great promise as tools to help elucidate relationships between gene expression and phenotype by allowing tunable alterations of gene expression without genomic alterations of the loci being studied. However, the years-long timescales, high cost, and technical skill associated with plant transformation have limited their use. In this work, we developed a technology called VipariNama (ViN) in which vectors based on the tobacco rattle virus are used to rapidly deploy Cas9-based synthetic transcription factors and reprogram gene expression in planta. We demonstrate that ViN vectors can implement activation or repression of multiple genes systemically and persistently over several weeks in Nicotiana benthamiana, Arabidopsis (Arabidopsis thaliana), and tomato (Solanum lycopersicum). By exploring strategies including RNA scaffolding, viral vector ensembles, and viral engineering, we describe how the flexibility and efficacy of regulation can be improved. We also show how this transcriptional reprogramming can create predictable changes to metabolic phenotypes, such as gibberellin biosynthesis in N. benthamiana and anthocyanin accumulation in Arabidopsis, as well as developmental phenotypes, such as plant size in N. benthamiana, Arabidopsis, and tomato. These results demonstrate how ViN vector-based reprogramming of different aspects of gibberellin signaling can be used to engineer plant size in a range of plant species in a matter of weeks. In summary, ViN accelerates the timeline for generating phenotypes from over a year to just a few weeks, providing an attractive alternative to transgenesis for synthetic transcription factor-enabled hypothesis testing and crop engineering.

59 BASIC BIOLOGICAL SCIENCES↗

Prediction of L⁢i 3 ⁢F⁡e 8 ⁢B 8 compound with rapid one-dimensional ion diffusion channels

Using a computational crystal structure search in the Li-Fe-B ternary system, we predict a stable phase of L⁢i 3 ⁢F⁡e 8 ⁢B 8 , featuring 1D channels that enable rapid Li-ion transport. Ab initio molecular dynamics simulations show that the Li-ion diffusion coefficient in L⁢i 3 ⁢F⁡e 8⁢ B 8 surpasses that of common electrode and conductive additive materials by several orders of magnitude. The high diffusion in L⁢i 3 ⁢F⁡e 8 ⁢B 8 can be explained by the Frenkel–Kontorova model, which describes an incommensurate state between the Li diffusion chain and the periodic potential field caused by the FeB backbone structure. The favorable lithium-ion diffusivity and mechanical properties of L⁢i 3 ⁢F⁡e 8 ⁢B 8 make it a promising conductive additive for battery materials. Furthermore, an external magnetic field can further manipulate the properties of this material due to its predicted itinerant ferromagnetism, which also offers a platform for exploring spin-dependent phenomena.

1-dimensional systems↗

Measurement of elliptic flow of 𝐽/𝜓 in $\sqrt{s_{NN}}$ = 200 GeV ⁢Au + Au collisions at forward rapidity

Here, we report the first measurement of the azimuthal anisotropy of 𝐽/𝜓 at forward rapidity (1.2 < |𝜂| < 2.2) in Au + Au collisions at $\sqrt{s_{NN}}$ = 200 GeV at the BNL Relativistic Heavy Ion Collider. The data were collected by the PHENIX experiment in 2014 and 2016 with integrated luminosity of 14.5 nb −1 . The second Fourier coefficient (𝑣 2 ) of the azimuthal distribution of 𝐽/𝜓 is determined as a function of the transverse momentum (𝑝𝑇) using the event-plane method. The measurements were performed for several selections of collision centrality: 0%–50%, 10%–60%, and 10%–40%. We find that in all cases the values of 𝑣 2 ⁡(𝑝 𝑇 ), which quantify the elliptic flow of 𝐽/𝜓, are consistent with zero. Within uncertainties, the results are consistent with measurements at midrapidity, indicating no significant elliptic flow of the 𝐽/𝜓 within the quark-gluon-plasma medium at collision energies of $\sqrt{s_{NN}}$ = 200 GeV.

73 NUCLEAR PHYSICS AND RADIATION PHYSICS↗

Robust Mølmer-Sørensen gate for neutral atoms using rapid adiabatic Rydberg dressing

The Rydberg blockade mechanism is now routinely considered for entangling qubits encoded in clock states of neutral atoms. Challenges towards implementing entangling gates with high fidelity include errors due to thermal motion of atoms, laser amplitude inhomogeneities, and imperfect Rydberg blockade. Here, we show that adiabatic rapid passage by Rydberg dressing provides a mechanism for implementing two-qubit entangling gates by accumulating phases that are robust to these imperfections. We find that the typical error in implementing a two-qubit gate, such as the controlled phase gate, is dominated by errors in the single-atom light shift, and that this can be easily corrected using adiabatic dressing interleaved with a simple spin echo sequence. This results in a two-qubit Mølmer-Sørensen gate. A gate fidelity ~ 0.995 is achievable with modest experimental parameters and a path to higher fidelities is possible for Rydberg states in atoms with a stronger blockade, longer lifetimes, and larger Rabi frequencies.

71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗

First-order structural phase transition at low temperature in GaPt 5 P and its rapid enhancement with pressure

Single crystals of X Pt 5 ⁢P (X = Al, Ga, and In), belonging to the 1-5-1 family of compounds, were grown from a Pt-P solution at high temperatures, and measurements of the ambient pressure, temperature-dependent magnetization, resistivity, and x-ray diffraction were made. Additionally, the ambient-pressure Hall resistivity and temperature-dependent resistance under pressure were measured on GaPt 5 ⁢P. All three compounds have a tetragonal P4/mmm crystal structure at room temperature with metallic transport and weak diamagnetism over the 2–300 K temperature range. Surprisingly, at ambient pressure, both the transport and magnetization measurements on GaPt 5 ⁢P show a steplike feature in the 70–90 K region, suggesting a possible structural phase transition. Neither AlPt 5 ⁢P nor InPt 5 ⁢P have any signatures of a phase transition in their temperature-dependent electrical resistance and magnetization data. Both the hysteretic nature and sharpness of the features in the GaPt 5 ⁢P data suggest that the transition is first-order. Further, single-crystal x-ray diffraction measurements provided further details of the structural transition with a possibility of a crystal symmetry different from P⁢4/mmm below the transition temperature. The transition is characterized by anisotropic changes in the lattice parameters and a volume collapse with respect to the high-temperature tetragonal crystal structure. Furthermore, satellite peaks are observed at two distinct and nonequivalent wave vectors (0, 0, 0.5) and (0.5, 0.5, 0.5), and density functional theory calculations present phonon softening, especially at (0.5, 0.5, 0.5), as a possible driving mechanism. Additionally, we find that the structural transition temperature increases rapidly with increasing pressure, reaching room temperature by ~2.2 GPa, highlighting the high degree of pressure sensitivity of GaPt 5 ⁢P and fragile nature of its room-temperature structure. Even though the volume collapse and extreme pressure sensitivity suggest chemical pressure should drive a similar structural change in AlPt 5⁢ P, where both unit-cell dimensions and volume are smaller, its structure is found to be the same as that of the room-temperature GaPt 5 ⁢P. Overall, GaPt 5 ⁢P stands out as a sole member of the 1-5-1 family of compounds for which a temperature-driven structural change has been observed.

75 CONDENSED MATTER PHYSICS, SUPERCONDUCTIVITY AND↗

Covariant formulation of spinodal decomposition in rapidly expanding quark gluon plasma

Quantum chromodynamics (QCD) is expected to have a first order phase transition between the confined hadron gas and the deconfined quark gluon plasma at high baryon densities. This will result in phase boundary effects in the metastable and unstable regions. It is important to include these effects in phenomenological models of heavy ion collisions to identify experimental signatures of a phase transition. This requires building intuition on phase separation in rapidly expanding fluids. In this work we present the covariant equations of relativistic hydrodynamics with a phase boundary, provide prescriptions to extend the equation of state to metastable and unstable regions, and show the effects of spinodal separation in a Bjorken flow. Published by the American Physical Society 2024

Kapusta, Joseph I. (ORCID:0000000259429835)↗

Production of b b ¯ at forward rapidity in p + p collisions at s = 510 GeV

The cross section of bottom quark-antiquark ( b b ¯ ) production in p + p collisions at s = 510 GeV is measured with the PHENIX detector at the Relativistic Heavy Ion Collider. The results are based on the yield of high mass, like-sign muon pairs measured within the PHENIX muon arm acceptance ( 1.2 < | y | < 2.2 ). The b b ¯ signal is extracted from like-sign dimuons by utilizing the unique properties of neutral B meson oscillation. We report a differential cross section of d σ b b ¯ → μ ± μ ± / d y = 0.16 ± 0.01 ( stat ) ± 0.02 ( syst ) ± 0.02 ( global ) nb for like-sign muons in the rapidity and p T ranges 1.2 < | y | < 2.2 and p T > 1 GeV / c , and dimuon mass of 5 – 10 GeV / c 2 . The extrapolated total cross section at this energy for b b ¯ production is 13.1 ± 0.6 ( stat ) ± 1.5 ( syst ) ± 2.7 ( global ) μ b . The total cross section is compared to a perturbative quantum chromodynamics calculation and is consistent within uncertainties. The azimuthal opening angle between muon pairs from b b ¯ decays and their p T distributions are compared to distributions generated using ps pythia 6, which includes next-to-leading order processes. The azimuthal correlations and pair p T distribution are not very well described by pythia calculations, but are still consistent within uncertainties. Flavor creation and flavor excitation subprocesses are favored over gluon splitting.

73 NUCLEAR PHYSICS AND RADIATION PHYSICS↗

Gravitational Waves from Rapid Structure Formation on Microscopic Scales before Matter-Radiation Equality

We propose a new scenario for the formation of asteroid-mass primordial black holes (PBHs). Our mechanism is based on the annihilation of the string-wall network associated with thebreaking of a U(1) global symmetry into a discrete ZN symmetry. If the potential hasmultiple local minima (N > 1) the network is stable, and the annihilation is guaranteed by a biasamong the different vacua. The collapse of the string-wall network is accompanied bycatastrogenesis, a large production of pseudo-Goldstone bosons (pGBs) — e.g. axions,ALPs, or majorons — gravitational waves, and PBHs. If pGBs rapidly decay into products thatthermalize, as predicted e.g. in the high-quality QCD axion and heavy majoron models, they do notcontribute to the dark matter population, but we show that PBHs can constitute 100% of the darkmatter. The gravitational wave background produced by catastrogenesis with heavy unstable axions,ALPs, or majorons could be visible in future interferometers.

79 ASTRONOMY AND ASTROPHYSICS↗

CuXASNet: Rapid and accurate prediction of copper L-edge x-ray absorption spectra using machine learning

In this work, we have developed CuXASNet, a dense neural network that predicts simulated Cu -edge x-ray absorption spectra (XAS) from atomic structures. Featurization of the Cu local environment is performed using a component of M3GNet, a graph neural network developed for predicting the potential energy surface. CuXASNet is trained on simulated spectra from FEFF9 at the multiple scattering level of theory, and can predict the and edges for Cu sites to quantitative accuracy. To validate our approach, we compare 14 experimental spectra extracted from the literature with the predictions of CuXASNet. The agreement of CuXASNet with experiments is shown by an average mean absolute error of 0.125 and an average Spearman's correlation coefficient of 0.891, which is comparable to FEFF9's values of 0.131 and 0.898 for the same metrics. As such, CuXASNet can rapidly predict a large number of -edge XAS spectra at the same accuracy as FEFF9 simulations. This can be used as a drop-in replacement for multiple scattering codes for fast screening of candidate atomic structure models of a measured system. This model establishes a general framework for Cu XAS prediction, and can be extended to more computationally expensive levels of theory and to other transition metal edges.

36 MATERIALS SCIENCE↗