Momentum Diagnostic Parameter Inference
Explore the source record for details and available documents.
97 MATHEMATICS AND COMPUTING↗
SEARCH · Engineering Papers
Results for “Inference mechanisms”
Search indexed NASA NTRS and DOE OSTI research on propulsion, heat transfer, battery materials and energy systems. Follow report and document links to the original sources.
Quote a phrase for an exact phrase match. Source license links do not imply unrestricted reuse.
A mechanism for reduced compression in indirectly driven layered capsule implosions
High-yield implosions on the National Ignition Facility rely on maintaining low entropy in the deuterium–tritium fuel, quantified by its adiabat, in order to efficiently couple energy to the hot spot through high compression of the fuel layer. We present very-high-resolution xRAGE simulation results that study the impacts of interfacial mixing and the jetting of materials due to surface defects, defects on internal interfaces, voids, and engineering features on fuel layer compression. Defects and voids are typically neglected in implosion simulations due to their small size and three-dimensional geometry. Our results showed that supersonic jets of material arise through weak spots in the shell at peak implosion velocity that prevent uniform compression of the fuel layer even when they do not introduce contaminant into the hot spot. This occurs despite maintaining low fuel entropy, since the formation of the weak spots involves nonradial displacement of fuel mass. In contrast, simulations show that fuel–ablator mixing due to interfacial instabilities has a much smaller impact on compression. We show that defects on interior interfaces of plastic capsules decrease compression by 15% to 25% and interfacial mixing between the ablator and fuel decreases compression by less than 1% for implosions with plastic or high-density carbon (HDC) ablators. For low adiabat implosions, the impact of jetting seeded by the support tent can also decrease the compression by 25%. We demonstrate that the inclusion of interior defects in simulations can explain the inferred compression in two fielded plastic capsule implosions and that the inclusion of voids, for which available characterization has large uncertainties, in simulations of HDC capsule implosions has a qualitatively consistent impact. This mechanism offers a potential explanation for persistently overestimated fuel compression in design simulations of layered implosions on the National Ignition Facility.
70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗
Data-driven reduced-order models for port-Hamiltonian systems with operator inference
Hamiltonian operator inference has been developed in Sharma et al. (2022) to learn structure-preserving reduced-order models (ROMs) for Hamiltonian systems. The method constructs a low-dimensional model using only data and knowledge of the functional form of the Hamiltonian. The resulting ROMs preserve the intrinsic structure of the system, ensuring that the mechanical and physical properties of the system are maintained. In this work, we extend this approach to port-Hamiltonian systems, which generalize Hamiltonian systems by including energy dissipation, external input, and output. Based on snapshots of the system’s state and output, together with the information about the functional form of the Hamiltonian, reduced operators are inferred through optimization and are then used to construct data-driven ROMs. To further alleviate the complexity of evaluating nonlinear terms in the ROMs, a hyper-reduction method via discrete empirical interpolation is applied. Accordingly, we derive error estimates for the ROM approximations of the state and output. Lastly, we demonstrate the structure preservation, as well as the accuracy of the proposed port-Hamiltonian operator inference framework, through numerical experiments on a linear mass–spring-damper problem and a nonlinear Toda lattice problem.
97 MATHEMATICS AND COMPUTING↗
Seismic tomography of compressional wave velocity and attenuation structure for Makushin Volcano, Alaska
Located in the central portion of the Alaska-Aleutian subduction zone, Makushin Volcano is among the most active volcanoes in the United States and has been classified as a very high threat by the National Volcano Early Warning System based on its eruptive history and proximity to the City of Unalaska and international air routes. In 2015, five standalone seismic stations and three mini seismic arrays of 15 stations each were deployed on Unalaska Island to supplement the Alaska Volcano Observatory permanent seismic network. This temporary array was operational for one year. Taking advantage of the increased azimuthal coverage and the array's increased earthquake detection capability, we developed body-wave Vp and Vp/Vs seismic images of the velocity structure beneath the volcano. Our results show a complex structure with the upper 4 km of the crust. The shallow high-Vp features possibly delineate remnant magma pathways or conduits. Low-Vp regions are found east of the caldera at approximately 4–8 km depth. This is in agreement with previous seismic tomographic work and InSAR-based geodetic models, which had identified this region as a possible long-term source of magma. A three-dimensional compressional wave attenuation model complemented the velocity models. In general, we observe regions of corresponding low P-wave velocity and high attenuation east of the summit caldera between 5 and 7 km depth, supporting the presence of a melt-rich zone. The absolute Vp values (5.5–6.0 km/s) in this region are consistent with the presence of a magma body with a mafic signature. Here, we suggest that a triggering mechanism that involves mafic injections into a more evolved shallow magma chamber is representative of the current magmatic system below the volcano, similarly to what petrological studies have inferred for past eruptions.
58 GEOSCIENCES↗
Cryo-EM Structure of the Mnx Protein Complex Reveals a Tunnel Framework for the Mechanism of Manganese Biomineralization
The global manganese cycle relies on microbes to oxidize soluble Mn(II) to insoluble Mn(IV) oxides. Some microbes require peroxide or superoxide as oxidants, but others can use O 2 directly, via multicopper oxidase (MCO) enzymes. One of these, MnxG from Bacillus sp. strain PL-12, was isolated in tight association with small accessory proteins, MnxE and MnxF. The protein complex, called Mnx, has eluded crystallization efforts, but we now report the 3D structure of a point mutant using cryo-EM single particle analysis, cross-linking mass spectrometry, and AlphaFold Multimer prediction. The ß-sheet–rich complex features MnxG enzyme, capped by a heterohexameric ring of alternating MnxE and MnxF subunits, and a tunnel that runs through MnxG and its MnxE 3 F 3 cap. The tunnel dimensions and charges can accommodate the mechanistically inferred binuclear manganese intermediates. Furthermore, comparison with the Fe(II)-oxidizing MCO, ceruloplasmin, identifies likely coordinating groups for the Mn(II) substrate, at the entrance to the tunnel. Thus, the 3D structure provides a rationale for the established manganese oxidase mechanism, and a platform for further experiments to elucidate mechanistic details of manganese biomineralization.
37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗
Constraining physical models at gigabar pressures
High-energy-density (HED) experiments in convergent geometry are able to test physical models at pressures beyond hundreds of millions of atmospheres. The measurements from these experiments are generally highly integrated and require unique analysis techniques to procure quantitative infor mation. This work describes a methodology to constrain the physics in convergent HED experiments by adapting the methods common to many other fields of physics. As an example, a mechanical model of an imploding shell is constrained by data from a thin-shelled direct-drive exploding-pusher experiment on the OMEGA Laser System using Bayesian inference, resulting in the reconstruction of the shell dynamics and energy transfer during the implosion. The model is tested by analyzing synthetic data from a 1-D hydrodynamics code and is sampled using a Markov chain Monte Carlo to generate the posterior distributions of the model parameters. As a result, the goal of this work is to demonstrate a general methodology that can be used to draw conclusions from a wide variety of HED experiments.
70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗
Constraining Physical Models at Gigabar Pressures
High-energy-density (HED) experiments in convergent geometry are able to test physical models at pressures beyond hundreds of millions of atmospheres. The measurements from these experiments are generally highly integrated and require unique analysis techniques to procure quantitative information. This work describes a methodology to constrain the physics in convergent HED experiments by adapting the methods common to many other fields of physics. As an example, a mechanical model of an imploding shell is constrained by data from a thin-shelled direct-drive exploding-pusher experiment on the OMEGA Laser System using Bayesian inference, resulting in the reconstruction of the shell dynamics and energy transfer during the implosion. The model is tested by analyzing synthetic data from a 1-D hydrodynamics code and is sampled using a Markov chain Monte Carlo to generate the posterior distributions of the model parameters. The goal of this work is to demonstrate a general methodology that can be used to draw conclusions from a wide variety of HED experiments.
70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗
Phage resistance mutations in a marine bacterium impact biogeochemically relevant cellular processes
Phage–bacteria interactions shape ecology and biogeochemistry across biomes. Resistance, arising from their evolutionary arms race, is well documented for receptor mutations, but other resistance mechanisms and their ecological implications remain unexplored. Here we isolated, sequenced and characterized 13 phage-resistant mutants of marine Cellulophaga baltica (Flavobacteriia). Mechanistically, mutations in surface proteins provided broad and complete extracellular resistance against multiple phages through decreased adsorption. Intracellular mutations affecting serine, glycine and threonine metabolism produced narrower resistance against a single phage, permitting viral DNA replication, and, in one mutant, were shown to be lipid mediated. Putative ecosystem impacts inferred from in vitro experiments include: (1) altered carbon utilization for all mutants, but especially by surface ones, (2) increased metabolite secretion for one modelled intracellular mutant (including experimentally verified acetate) and (3) increased ‘stickiness’ for all mutants, with surface mutants also sedimenting faster. Our findings highlight new resistance mechanisms and suggest that the phage–host arms race could result in ecosystem-level biogeochemical impacts in marine microorganisms.
Urvoy, Marion [Ohio State University]↗
Benefits and Limits of Phasing Alleles for Network Inference of Allopolyploid Complexes
Abstract Accurately reconstructing the reticulate histories of polyploids remains a central challenge for understanding plant evolution. Although phylogenetic networks can provide insights into relationships among polyploid lineages, inferring networks may be hindered by the complexities of homology determination in polyploid taxa. We use simulations to show that phasing alleles from allopolyploid individuals can improve phylogenetic network inference under the multispecies coalescent by obtaining the true network with fewer loci compared with haplotype consensus sequences or sequences with heterozygous bases represented as ambiguity codes. Phased allelic data can also improve divergence time estimates for networks, which is helpful for evaluating allopolyploid speciation hypotheses and proposing mechanisms of speciation. To achieve these outcomes in empirical data, we present a novel pipeline that leverages a recently developed phasing algorithm to reliably phase alleles from polyploids. This pipeline is especially appropriate for target enrichment data, where the depth of coverage is typically high enough to phase entire loci. We provide an empirical example in the North American Dryopteris fern complex that demonstrates insights from phased data as well as the challenges of network inference. We establish that our pipeline (PATÉ: Phased Alleles from Target Enrichment data) is capable of recovering a high proportion of phased loci from both diploids and polyploids. These data may improve network estimates compared with using haplotype consensus assemblies by accurately inferring the direction of gene flow, but statistical nonidentifiability of phylogenetic networks poses a barrier to inferring the evolutionary history of reticulate complexes.
Evolutionary Biology↗
Topology-Dependent Polymer Stretching and Scission in Solution at Extreme Shear Rates
There has been significant interest in the engineering of polymer topology to control rheology and mechanical stability in dilute solutions for applications involving extreme shear rate flows. However, methods to experimentally probe properties at relevant shear rates (≈ 10 4 –10 6 s –1 ) have remained ex situ, obscuring access to measures of polymer deformation and rheology that would otherwise provide mechanistic insight into the topology-dependent properties that control their behavior in extreme shear flows. In this study, we used novel in situ small angle neutron scattering measurements in a capillary rheometer (capillary rheo-SANS) to simultaneously measure solution viscosities and polymer deformations in high shear on a series of chemically homologous topology-defined polymers including linear, randomly branched, and star-shaped molecules. We demonstrate that differences in the onset of chain stretching and shear thinning of these polymers in dilute solution are controlled primarily by differences in their molecular relaxation time. These differences correlate with differences in chain scission inferred from ex situ measurements at more extreme shear rates. Together, the results demonstrate a direct coupling between chain deformation and scission, and suggest that the dominant effect of branching as a means to impart resilience against mechanical degradation is through differences in relaxation dynamics due to branching. We anticipate that these results will provide key insights to engineer topology-controlled polymers for rheological modification, mechanical stability, and controlled mechano-chemistry.
32 ENERGY CONSERVATION, CONSUMPTION, AND UTILIZATI↗
The Swan: Data-driven Inference of Stellar Surface Gravities for Cool Stars from Photometric Light Curves
Stellar light curves are well known to encode physical stellar properties. Precise, automated, and computationally inexpensive methods to derive physical parameters from light curves are needed to cope with the large influx of these data from space-based missions such as Kepler and TESS. Here we present a new methodology that we call “The Swan,” a fast, generalizable, and effective approach for deriving stellar surface gravity (logg) for main-sequence, subgiant, and red giant stars from Kepler light curves using local linear regression on the full frequency content of Kepler long-cadence power spectra. With this inexpensive data-driven approach, we recover logg to a precision of ~0.02 dex for 13,822 stars with seismic logg values between 0.2 and 4.4 dex and ~0.11 dex for 4646 stars with Gaia-derived logg values between 2.3 and 4.6 dex. We further develop a signal-to-noise metric and find that granulation is difficult to detect in many cool main-sequence stars (T {sub eff} ≲ 5500 K), in particular K dwarfs. By combining our logg measurements with Gaia radii, we derive empirical masses for 4646 subgiant and main-sequence stars with a median precision of ~7%. Finally, we demonstrate that our method can be used to recover logg to a similar mean absolute deviation precision for a TESS baseline of 27 days. Our methodology can be readily applied to photometric time series observations to infer stellar surface gravities to high precision across evolutionary states.
71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗
Astrophysical Equation-of-State Constraints on the Color-Superconducting Gap
We demonstrate that astrophysical constraints on the dense-matter equation of state place an upper bound on the color-superconducting gap in dense matter above the transition from nuclear matter to quark matter. Pairing effects in the color-flavor locked quark matter phase increase the pressure at high density, and if this effect is sufficiently large then the requirements of causality and mechanical stability make it impossible to reach such a pressure in a way that is consistent with what is known at lower densities. The intermediate-density equation of state is inferred by considering extensions of chiral effective field theory to neutron star densities, and conditioning these using current astrophysical observations of neutron star radius, maximum mass, and tidal deformability (PSR J0348+0432, PSR J1624-2230, PSR J0740+6620, GW170817). At baryon number chemical potential μ = 2.6 GeV we find a 95% upper limit on the color-flavor locked pairing gap Δ of 457 MeV using overly conservative assumptions and 216 MeV with more reasonable assumptions. Furthermore, this constraint may be strengthened by future astrophysical measurements as well as by future advances in high-density QCD calculations.
75 CONDENSED MATTER PHYSICS, SUPERCONDUCTIVITY AND↗
Improving Subsurface Stress Characterization for Carbon Dioxide Storage Projects
Researchers at New Mexico Tech, Los Alamos National Laboratory (LANL), Sandia National Laboratory (SNL), and other collaborators are developing a methodology to improve characterization of stress in the subsurface by means of a model-based inversion of reservoir engineering data, time lapse seismic measurements, and microseismicity. Historically, various geophysical techniques have been used in efforts to understand the state of stress in the subsurface through direct and indirect imaging of stress sensitive features (faults and fractures) and observations of transient stress related observations (time variant elastic moduli and microseismicity). Standard direct and indirect techniques for seismic fault and fracture imaging suffer from detectability limits due to reliance on high data quality and multiplicity. Variations in effective elastic properties from inversion of high quality seismic (Vertical Seismic Profile (VSP)) data may be used to infer stress near the wellbore through integration with independent experimental characterization of the stress-velocity relationship. Given a sufficiently robust observation network, microseismic emissions may be inverted to characterize focal mechanisms which, together with supporting assumptions and constraints, inform estimates of in-situ stress. While each of these techniques contributes in part to the characterization of stress within limited spatial and temporal domains, no one method provides an unambiguous stress measurement or a predictive capability over a site scale spatial extent. Challenges associated with solution non-uniqueness, measurement ambiguity, and irregular sampling may be greatly minimized through combination of one or more of independent measurements within a common framework in which realistic geological, hydrodynamic, geomechanical, and seismological constituent process models may act as constraints.
02 PETROLEUM↗
Strain Gradient Elasticity in SrTiO 3 Membranes: Bending versus Stretching
Young’s modulus determines the mechanical loads required to elastically stretch a material and also the loads required to bend it, given that bending stretches one surface while compressing the opposite one. Flexoelectric materials have the additional property of becoming electrically polarized when bent. The associated energy cost can additionally contribute to elasticity via strain gradients, particularly at small length scales where they are geometrically enhanced. Here, we present nanomechanical measurements of freely suspended SrTiO 3 crystalline membrane drumheads. In this work, we observe an unexpected nonmonotonic thickness dependence of Young’s modulus upon small deflections. Furthermore, the modulus inferred from a predominantly bending deformation is three times larger than that of a predominantly stretching deformation for membranes thinner than 20 nm. In this regime we extract a strain gradient elastic coupling of ~2.2 μN, which could be used in new operational regimes of nanoelectro-mechanics.
36 MATERIALS SCIENCE↗
Detailed characterization of runaway electron driven whistler waves in low-density DIII-D discharges
RE-driven whistler waves during quiescent DIII-D shots have been investigated further. The waves are confirmed to be mostly perpendicularly propagating and are observed for the first time with frequencies up to 700 MHz. Phase-spectral analysis has been used to infer their toroidal mode numbers, n, which are expected to scale with the wavenumber, k, of the mode. Though we derive a theoretical scaling of k ≈ 4n, the measured mode numbers are found to exhibit a very weak dependence on k. In addition, increases in synchrotron emission have been found to consistently lag whistler wave bursts by roughly 3–5 ms, suggesting the waves are causing pitch-angle scattering, since the emitted synchrotron radiation is a strong function of the REs' perpendicular energy. The stronger the wave bursts, the greater the subsequent increase in synchrotron emission. A predator-prey model is used to describe these nonlinear wave-particle interactions, from which the wave damping rates and the loss parameter can be inferred. The damping rates are found to be of the order of (1.6 ± 0.8) × 10 4 /s, and the unitless loss parameter is found to be approximately 2, suggesting that the loss mechanism is diffusive. These observations will serve to validate models of RE-driven waves in tokamak plasmas.
70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗
Integrating Intermediate Traits in Phylogenetic Genotype-to-Phenotype Studies
A major goal of research in evolution and genetics is linking genotype to phenotype. This work could be direct, such as determining the genetic basis of a phenotype by leveraging genetic variation or divergence in a developmental, physiological, or behavioral trait. The work could also involve studying the evolutionary phenomena (e.g., reproductive isolation, adaptation, sexual dimorphism, behavior) that reveal an indirect link between genotype and a trait of interest. When the phenotype diverges across evolutionarily distinct lineages, this genotype-to-phenotype problem can be addressed using phylogenetic genotype-to-phenotype (PhyloG2P) mapping, which uses genetic signatures and convergent phenotypes on a phylogeny to infer the genetic bases of traits. The PhyloG2P approach has proven powerful in revealing key genetic changes associated with diverse traits, including the mammalian transition to marine environments and transitions between major mechanisms of photosynthesis. However, there are several intermediate traits layered in between genotype and the phenotype of interest, including but not limited to transcriptional profiles, chromatin states, protein abundances, structures, modifications, metabolites, and physiological parameters. Each intermediate trait is interesting and informative in its own right, but synthesis across data types has great promise for providing a deep, integrated, and predictive understanding of how genotypes drive phenotypic differences and convergence. We argue that an expanded PhyloG2P framework (the PhyloG2P matrix) that explicitly considers intermediate traits, and imputes those that are prohibitive to obtain, will allow a better mechanistic understanding of any trait of interest. Furthermore, this approach provides a proxy for functional validation and mechanistic understanding in organisms where laboratory manipulation is impractical.
59 BASIC BIOLOGICAL SCIENCES↗
The moderately defficient enzyme: Catalysis-related damage in vivo and its repair
Enzymes have in vivo lifespans. Analysis of lifespans – lifetime totals of catalytic turnovers – suggests that non-survivable collateral chemical damage from the very reactions that enzymes catalyze is a common but underdiagnosed cause of enzyme death. Analysis also implies that many enzymes are moderately deficient in that their active-site regions are not naturally as hardened against such collateral damage as they could be, leaving room for improvement by rational design or directed evolution. Enzyme lifespan might also be improved by engineering systems that repair otherwise fatal active-site damage, of which a handful are known and more are inferred to exist. Unfortunately, the data needed to design and execute such improvements is lacking: there are too few measurements of in vivo lifespan, and existing information on the extent, nature, and mechanisms of active-site damage and repair during normal enzyme operation is too scarce, anecdotal, and speculative to act on. Fortunately, advances in proteomics, metabolomics, cheminformatics, comparative genomics, and structural biochemistry now empower a systematic, data-driven approach to identify, predict, and validate instances of active-site damage and its repair. These capabilities would be practically useful in enzyme redesign and improvement of in-use stability, and could change thinking about which enzymes die young in vivo, and why.
59 BASIC BIOLOGICAL SCIENCES↗