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At least 253 records · Page 14

Joint Bayesian Inference for Near-Surface Explosion Yield and Height-of-Burst

Forensic capabilities to understand chemical and nuclear explosions are greatly aided by an accurate estimate of explosive yield with uncertainty. The relationship between explosive size and geophysical observations of seismic, acoustic, and optical waves can be exploited to provide an estimate of yield. Any near-surface yield estimate is complicated by the surface interaction, so an estimate for the explosion height-of-burst is necessarily included in the relationship. Additionally, the relationship dictates a trade-off between estimates of yield and height-of-burst. Fortunately, the surface interaction for each type of observation is different, which breaks the trade-off, and the inclusion of height-of-burst with multiple data types improves yield estimation. We define simple parametric forward models to relate seismoäcoustoöptic observations from a data set of known explosive yields and height-of-bursts. The parameters of the models and a prediction for the yield and height-of-burst of a new event can then be estimated given new observations via Bayesian inference. We report posterior distribution estimates of the parametric models using a Markov chain Monte Carlo sampling technique. These models are then used to predict the yield and height-of-burst of SUGAR, a historical near-surface nuclear explosion, using its reported historical observations. The reported yield of 1.2 ktonne Trinitrotoluene (TNT)-equivalent (Department of Energy, 2015) is within the estimated posterior. Yield uncertainty can be estimated from the spread of the posterior, which is between 0.9 and 2.1 ktonne TNT-equivalent. The posterior for height-of-burst has a wider range between 10 m below and 8 m above ground that includes the true height-of-burst of 1 m.

58 GEOSCIENCES↗

Advanced Permanent Magnet Generator Topologies Using Multimaterial Shape Optimization and 3D Printing: Preprint

A vast majority of utility-scale wind turbine generators in the United States are dependent on foreign- sourced rare-earth permanent magnets that are vulnerable to supply chain uncertainties. Many small wind original equipment manufacturers are motivated to pursue continuous improvements to the generator design to lower the material and production costs and improve performance by lowering cogging torque and increasing the efficiency. Traditional design and manufacturing offer limited opportunities. In this work, we demonstrate advanced design approaches for a 15-kW baseline wind turbine generator by making use of recent progress in three-dimensional (3D) printing of polymer- bonded magnets and, electrical and structural steel. We explore three methods of magnet parametrization using Bezier curves resulting in symmetric, asymmetric and multimaterial magnet designs. We employ a multiphysics approach combining parametric computer-aided design modeling, finite- element analysis and targeted sampling to identify novel designs with more opportunities for reducing rare-earth material, improving efficiency and minimizing cogging torque. The results show that asymmetric-pole design and multimaterial-pole designs offer a greater opportunity to minimize rare-earth magnet materials by up to 35% with similar performance as the baseline generator, suggesting newer opportunities with design freedom beyond traditional limits of symmetry and as allowed by 3D printing.

Bezier curves↗

Study of γ γ → γ ψ ( 2 S ) at Belle

Using 980 fb -1 of data at and around the Υ(nS)(n = 1, 2, 3, 4, 5) resonances collected with the Belle detector at the KEKB asymmetric-energy e+e- collider, the two-photon process γγ → γψ(2S) is studied from the threshold to 4.2 GeV for the first time. Two structures are seen in the invariant mass distribution of γψ(2S): one at M R 1 = 3922.4 ± 6.5 ± 2.0 MeV/c 2 with a width of Γ R 1 = 22 ± 17 ± 4 MeV, and another at M R 2 = 4014.3 ± 4.0 ± 1.5 MeV/c 2 with a width of Γ R 2 = 4 ± 11 ± 6 MeV; the signals are parametrized with the incoherent sum of two Breit- Wigner functions. The first structure is consistent with the X(3915) or the χ c2 (3930), and the local statistical significance is determined to be 3.1σ with the systematic uncertainties included. The second matches none of the known charmonium or charmonium like states, and its global significance is determined to be 2.8σ including the look-elsewhere effect. The production rates are Γ γγ B(R 1 → γψ(2S)) = 9.8 ± 3.6 ± 1.2 eV assuming (J PC , |λ|) = (0 ++ , 0) or 2.0 ± 0.7 ± 0.2 eV with (2 ++ , 2) for the first structure and Γ γγ B(R 2 → γψ(2S)) = 6.2 ± 2.2 ± 0.8 eV with (0 ++ , 0) or 1.2 ± 0.4 ± 0.2 eV with (2 ++ , 2) for the second one. Furthermore, the first errors are statistical and the second systematic, and λ is the helicity.

46 INSTRUMENTATION RELATED TO NUCLEAR SCIENCE AND ↗

Stellar Mass Calibrations for Local Low-mass Galaxies

The stellar masses of galaxies are measured from integrated light via several methods—however, few of these methods were designed for low-mass (M ⋆ ≲ 10 8 M ⊙ ) “dwarf” galaxies, whose properties (e.g., stochastic star formation, low metallicity) pose unique challenges for estimating stellar masses. In this work, we quantify the precision and accuracy at which stellar masses of low-mass galaxies can be recovered using UV/optical/IR photometry. We use mock observations of 469 low-mass galaxies from a variety of models, including both semi-empirical models (GRUMPY and UniverseMachine-SAGA) and cosmological baryonic zoom-in simulations (MARVELous Dwarfs and FIRE-2), to test literature color–M ⋆ /L relations and multiwavelength spectral energy distribution (SED) mass estimators. We identify a list of “best practices” for measuring stellar masses of low-mass galaxies from integrated photometry. We find that literature color–M ⋆ /L relations are often unable to capture the bursty star formation histories (SFHs) of low-mass galaxies, and we develop an updated prescription for stellar mass based on g − r color that is better able to recover stellar masses for the bursty low-mass galaxies in our sample (with ∼0.1 dex precision). SED fitting can also precisely recover stellar masses of low-mass galaxies, but this requires thoughtful choices about the form of the assumed SFH: Parametric SFHs can underestimate stellar mass by as much as ∼0.4 dex, while nonparametric SFHs recover true stellar masses with insignificant offset (−0.03 ± 0.11 dex). Finally, we also caution that noninformative (wide) dust attenuation priors may introduce M ⋆ uncertainties of up to ∼0.6 dex.

de los Reyes, Mithi A. C. [Amherst College, MA (Un↗

Experimental validation of simplified radionuclide transport bubble scrubbing code in sodium coolant pool

Solid radionuclides released following fuel pin failure may become entrained in gaseous fission products and be rapidly transported through the coolant pool to the cover gas region. Sensitivity studies on radionuclide transport have identified this potential pathway as one of both high concern and high uncertainty. The simplified radionuclide transport scrubbing code utilizes classical aerosol scrubbing mechanisms to model this phenomenon and predict aerosol masses reaching the cover gas region. This paper serves to validate this code in a sodium environment while conducting a parametric study to analyze the effects of aerosol size, bubble size, pool temperature, pool depth, aerosol density, and aerosol concentration. Through a series of experimental tests, it was determined that aerosol sizes ranging from 0.001 to 1.0 µm are of primary concern as aerosols in this range have a ratio of aerosol mass entering the sodium pool from the fuel pin to aerosol mass exiting the sodium pool to the cover gas region of less than 10. Further, the experimental results were found to match the trends found in the scrubbing model closely, but significantly more scrubbing was seen experimentally. Decreasing bubble size and increasing pool depth and aerosol density were all found to increase scrubbing both experimentally and theoretically. Pool temperature was found to have a negligible effect on scrubbing amounts; however, this was largely due to a subsequent increase in bubble size corresponding to increasing temperatures which offset the increase in scrubbing due to increased temperature. Varying aerosol concentration was found to have no effect on scrubbing ratios. A final series of tests was conducted for a more prototypic fuel pin failure with a heterogenous bubble swarm. From these tests, it was found that the experimental scrubbing quantities were larger than for the single bubble case. Overall, it was found that the simplified bubble transport scrubbing code accurately models the trends of the bubble scrubbing but provides a conservative estimate of scrubbing quantities. Model limitations fail to model the complex phenomena present for fission product scrubbing via bubble transport, but match trends seen experimentally.

22 GENERAL STUDIES OF NUCLEAR REACTORS↗

Sensitivity and uncertainty analysis of PWR spent fuel observables to operational and model parameters

Sensitivity and uncertainty analyses of spent nuclear fuel (SNF) observables - decay heat, neutron and γ-ray emission rate - to operational and model parameters have been performed. A 2D model representing a typical PWR 17x17 UO{sub 2} fuel assembly has been taken as reference. The Serpent code and ENDF/B-VII.1 evaluated nuclear data library have been used for the analyses. Relative uncertainty of decay heat, neutron and γ-ray emission rates due to Monte Carlo counting statistics, as well as the number of fuel pin radial regions required for an accurate characterization of SNF neutron emission, have been estimated. A parametric study has been carried out to investigate the impact of the homogenization to an average value of the fuel and moderator temperature, boron concentration power and burnup on the prediction of the selected observables. In addition, linear sensitivity coefficients have been calculated. (authors)

11 NUCLEAR FUEL CYCLE AND FUEL MATERIALS↗

Model fusion with physics-guided machine learning: Projection-based reduced-order modeling

The unprecedented amount of data generated from experiments, field observations, and large-scale numerical simulations at a wide range of spatiotemporal scales has enabled the rapid advancement of data-driven and especially deep learning models in the field of fluid mechanics. Although these methods are proven successful for many applications, there is a grand challenge of improving their generalizability. This is particularly essential when data-driven models are employed within outer-loop applications like optimization. In this work, we put forth a physics-guided machine learning (PGML) framework that leverages the interpretable physics-based model with a deep learning model. Leveraging a concatenated neural network design from multi-modal data sources, the PGML framework is capable of enhancing the generalizability of data-driven models and effectively protects against or inform about the inaccurate predictions resulting from extrapolation. We apply the PGML framework as a novel model fusion approach combining the physics-based Galerkin projection model and long- to short-term memory (LSTM) network for parametric model order reduction of fluid flows. We demonstrate the improved generalizability of the PGML framework against a purely data-driven approach through the injection of physics features into intermediate LSTM layers. Our quantitative analysis shows that the overall model uncertainty can be reduced through the PGML approach, especially for test data coming from a distribution different than the training data. Moreover, we demonstrate that our approach can be used as an inverse diagnostic tool providing a confidence score associated with models and observations. The proposed framework also allows for multi-fidelity computing by making use of low-fidelity models in the online deployment of quantified data-driven models.

42 ENGINEERING↗

Surrogate models for linear response

Linear response theory is a well-established method in physics and chemistry for exploring excitations of many-body systems. In particular, the quasiparticle random-phase approximation (QRPA) provides a powerful microscopic framework by building excitations on top of the mean-field vacuum; however, its high computational cost limits model calibration and uncertainty quantification studies. Here, we present two complementary QRPA surrogate models and apply them to study response functions of finite nuclei. One is a reduced-order model that exploits the underlying QRPA structure, while the other utilizes the recently developed parametric matrix model algorithm to construct a map between the system’s Hamiltonian and observables. Our benchmark applications, the calculation of the electric dipole polarizability of 180 Yb and the 𝛽-decay half-life of 80 Ni, show that both emulators can achieve 0.1%–1% accuracy while offering a 6–7 orders of magnitude speedup compared to state-of-the-art QRPA solvers. These results demonstrate that the developed QRPA emulators are well positioned to enable Bayesian calibration and large-scale studies of computationally expensive physics models describing the properties of many-body systems.

Beta decay↗

Parametric Vehicle Choice Modeling: ParaChoice

Assess the evolving integration potential of light-duty (LDV) and heavy-duty vehicle (HDV) technologies, fuels, and infrastructure and their contributions to lowering emissions and petroleum consumption. Leverage existing LDV and build HDV ParaChoice capability to conduct parametric analyses that explore the trade-space for key factors that influence consumer choice and technology, fuel and infrastructure development. ParaChoice provides the unique capability to examine tipping points and tradeoffs, and can help quantify the effects of and mitigate uncertainty introduced by data sources and assumptions.

32 ENERGY CONSERVATION, CONSUMPTION, AND UTILIZATI↗

B-DeepONet: An enhanced Bayesian DeepONet for solving noisy parametric PDEs using accelerated replica exchange SGLD

Here, the Deep Operator Network (DeepONet) is a neural network architecture used to approximate operators, including the solution operator of parametric PDEs. DeepONets have shown remarkable approximation ability. However, the performance of DeepONets deteriorates when the training data is polluted with noise, a scenario that occurs in practice. To handle noisy data, we propose a Bayesian DeepONet based on replica exchange Langevin diffusion (reLD). Replica exchange uses two particles. The first particle trains a DeepONet to exploit the loss landscape and make predictions. The other particle trains a different DeepONet to explore the loss landscape and escape local minima via swapping. Compared to DeepONets trained with state-of-the-art gradient-based algorithms (e.g., Adam), the proposed Bayesian DeepONet greatly improves the training convergence for noisy scenarios and accurately estimates the uncertainty. To further reduce the high computational cost of the reLD training of DeepONets, we propose (1) an accelerated training framework that exploits the DeepONet's architecture to reduce its computational cost up to 25% without compromising performance and (2) a transfer learning strategy that accelerates training DeepONets for PDEs with different parameter values. Finally, we illustrate the effectiveness of the proposed Bayesian DeepONet using four parametric PDE problems.

97 MATHEMATICS AND COMPUTING↗

Understanding structure-processing relationships in metal additive manufacturing via featurization of microstructural images

Understanding and predicting accurate property-structure-processing relationships for additively manufactured components is important for both forward and inverse design of robust, reliable parts and assemblies. While direct mapping of process parameters to properties is sometimes plausible, it is often rendered difficult due to poor microstructural control. Exploring the direct relationship between processing conditions and microstructural features can thus provide significant physical insights and aid the overall design process. Here, in this study, we develop an automated high-throughput framework to simulate an uncertainty-aware additive manufacturing (AM) process, characterize microstructural images, and extract meaningful features/descriptors. A kinetic Monte Carlo (KMC) based model of the AM process is used to simulate microstructural evolution for a diverse set of experimentally relevant processing conditions. We perform a parametric study to explore the relationship between microstructural features and processing conditions. Our results indicate that a many-to-one mapping can exist between processing conditions and typical descriptors; therefore, multiple descriptors are thus necessary to unambiguously represent microstructural images. Our work provides crucial quantitative and qualitative in-formation that would aid in the selection of features for microstructural images. Featurized microstructures could then be utilized to build data-driven models for predictive control of microstructures and thereby properties of additively manufactured components.

36 MATERIALS SCIENCE↗

Effects of Model Uncertainties in Underground Chemical Explosions on Far-field Results

We used the CTH shock physics code to simulate the explosion of an 18-t chemical explosive at a depth of 250 m. We used the CTH in the two-dimensional axisymmetric (cylindrical) geometry (2DC) and most simulations included fully tamped explosions in wet tuff. Our study focused on parametric studies of three of the traditional strength models available in CTH, namely, geologic-yield, elastic perfectly-plastic von Mises, and Johnson-Cook strength (flow stress) models. We processed CTH results through a code that generates Reduced Displacement Potential (RDP) histories for each simulation. Since RDP is the solution of the linear wave equation in spherical coordinates, it is mainly valid at far-enough distance from the explosion the elastic radius. Among various parameters examined, we found the yield strength to have the greatest effect on the resulting RDP, where the peak RDP reduces almost linearly in log-log space as the yield strength increases. Moreover, an underground chemical explosion results in a cavity whose final diameter is inversely proportional to the material yield strength, i.e., as the material's yield strength increases the resulting final cavity radius decreases. Additionally, we found the choice of explosive material (COMP-C4 versus COMP-B) has minor effects on the peak RDP, where denser COMP-C4 shows higher peak RDP than the less dense COMP-B by a factor of ~1.1. In addition to wet tuff, we studied explosions in dry tuff, salt, and basalt, for a single strength model and yield strength value. We found wet tuff has the highest peak RDP value, followed by dry tuff, salt, and basalt. 2DC simulations of explosions in 11 m radius spherical, hemispherical, and cylindrical cavities showed the RDP signals have much lower magnitude than tamped explosions, where the cavity explosions mimicked nearly decoupled explosions.

45 MILITARY TECHNOLOGY, WEAPONRY, AND NATIONAL DEF↗

When physics-informed data analytics outperforms black-box machine learning: A case study in thickness control for additive manufacturing

Aerosol jet printing (AJP) has emerged as a promising noncontact additive manufacturing method for high-resolution printing for a wide range of material systems. A key challenge limiting the broader adoption of AJP in the material science community is the lack of methods to precisely control thickness. Herein, we develop a model-based design of experiment (MBDoE) framework that integrates physics-informed models, nonlinear regression, and information criteria to postulate, select and calibrate the best model to describe and optimize the AJP manufacturing process. Starting with already available data from system commissioning (e.g., prior single variable sensitivity analysis), four candidate physics-informed models are postulated and trained. MBDoE identifies a single additional optimal experiment to validate these predictive models with quantified uncertainties, which are then used to determine the best experimental conditions to control printed film thickness. As a comparative benchmark, the analysis is repeated using the same dataset with nonparametric Gaussian process regression (GPR) model that does not incorporate physical information. Using MBDoE principles, we find that only five experiments are necessary to calibrate the nonlinear physics-informed parametric model, and with said limited data, this model outperforms the black-box machine learning GPR model. This key result underscores an emerging trend in the data science community: incorporating physical information into predictive models often drastically reduces the data requirements. Leveraging MBDoE further increased the data efficiency. By design, the proposed data science framework is general in nature and can be easily extended to other experimental and additive manufacturing systems beyond AJP.

Aerosol jet printing↗

The Atacama Cosmology Telescope: DR6 power spectrum foreground model and validation

We discuss the model of astrophysical emission at millimeter wavelengths used to characterize foregrounds in the multi-frequency power spectra of the Atacama Cosmology Telescope (ACT) Data Release 6 (DR6), expanding on Louis et al. (2025) (2503.14452). We detail several tests to validate the capability of the DR6 parametric foreground model to describe current observations and complex simulations, and show that cosmological parameter constraints are robust against model extensions and variations. We demonstrate consistency of the model with pre-DR6 ACT data and observations from Planck and the South Pole Telescope. We evaluate the implications of using different foreground templates and extending the model with new components and/or free parameters. In all scenarios, the DR6 ΛCDM and ΛCDM+N eff cosmological parameters shift by less than 0.5σ relative to the baseline constraints. Some foreground parameters shift more; we estimate their systematic uncertainties associated with modeling choices. From our constraint on the kinematic Sunyaev-Zel'dovich power, we obtain a conservative limit on the duration of reionization of Δz rei < 4.4, assuming a reionization midpoint consistent with optical depth measurements and a minimal low-redshift contribution, with varying assumptions for this component leading to tighter limits. Finally, we analyze realistic non-Gaussian, correlated microwave sky simulations containing Galactic and extragalactic foreground fields, built independently of the DR6 parametric foreground model. Processing these simulations through the DR6 power spectrum and likelihood pipeline, we recover the input cosmological parameters of the underlying cosmic microwave background field, a new demonstration for small-scale CMB analysis. These tests validate the robustness of the ACT DR6 foreground model and cosmological parameter constraints.

CMBR experiments↗

TDCOSMO. XII. Improved Hubble constant measurement from lensing time delays using spatially resolved stellar kinematics of the lens galaxy

Strong-lensing time delays enable measurement of the Hubble constant ($H_{0}$) independently of other traditional methods. The main limitation to the precision of time-delay cosmography is mass-sheet degeneracy (MSD). Some of the previous TDCOSMO analyses broke the MSD by making standard assumptions about the mass density profile of the lens galaxy, reaching 2% precision from seven lenses. However, this approach could potentially bias the $H_0$ measurement or underestimate the errors. For this work, we broke the MSD for the first time using spatially resolved kinematics of the lens galaxy in RXJ1131$-$1231 obtained from the Keck Cosmic Web Imager spectroscopy, in combination with previously published time delay and lens models derived from Hubble Space Telescope imaging. This approach allowed us to robustly estimate $H_0$, effectively implementing a maximally flexible mass model. Following a blind analysis, we estimated the angular diameter distance to the lens galaxy $D_{\rm d} = 865_{-81}^{+85}$ Mpc and the time-delay distance $D_{\Delta t} = 2180_{-271}^{+472}$ Mpc, giving $H_0 = 77.1_{-7.1}^{+7.3}$ km s$^{-1}$ Mpc$^{-1}$ - for a flat $\Lambda$ cold dark matter cosmology. The error budget accounts for all uncertainties, including the MSD inherent to the lens mass profile and the line-of-sight effects, and those related to the mass-anisotropy degeneracy and projection effects. Our new measurement is in excellent agreement with those obtained in the past using standard simply parametrized mass profiles for this single system ($H_0 = 78.3^{+3.4}_{-3.3}$ km s$^{-1}$ Mpc$^{-1}$) and for seven lenses ($H_0 = 74.2_{-1.6}^{+1.6}$ km s$^{-1}$ Mpc$^{-1}$), or for seven lenses using single-aperture kinematics and the same maximally flexible models used by us ($H_0 = 73.3^{+5.8}_{-5.8}$ km s$^{-1}$ Mpc$^{-1}$). This agreement corroborates the methodology of time-delay cosmography.

79 ASTRONOMY AND ASTROPHYSICS↗

Characterization of modeling and experimental data inconsistencies from burst testing for high-burnup commercial fuel rod applications

Fuel fragmentation, relocation, and dispersal are some of the largest issues remaining in the nuclear industry before rod-average burnup can be increased beyond 62 GWd/tU. The issue is primarily related to the potential for fuel to be dispersed into the reactor primary system, which may increase public risk. One way to prevent dispersal is to avoid cladding burst. The objective of this work is to support the high burnup safety case by evaluating cladding burst under high-burnup, full-length fuel rods and to identify uncertainties that could improve model predictions. The results of this analysis will evaluate realistic, prototypic loss-of-coolant accident (LOCA) conditions; support future cladding burst test designs; and inform the development of mechanistic material models. Realistic high-burnup operating conditions were implemented in the BISON fuel performance code to simulate steady-state and LOCA transient fuel rod evolution to the point at which cladding burst occurred. Parametric studies are performed to assess code response to changes in rod internal pressures and heating rates. Results were compared with simulated LOCA experiments to identify inconsistencies between commercial fuel rod analysis and experimental validation. The representative full-length fuel rod LOCA simulation results did not agree with cladding burst tests. Cladding burst tests indicated burst occurring well below (100–150 °C) those calculated in the full-length fuel rod LOCA analysis. Further investigation indicated that the cladding burst tests do not appear to be representative for full-length fuel rods. The inconsistency investigated in this work showed that the differences between the BISON simulation and the experiment's cladding burst conditions arise from an incomplete characterization of the cladding surface temperature, detailed rodlet characterization, lack of cladding strain measurements, and uncertainty in the cladding creep and failure models.

11 NUCLEAR FUEL CYCLE AND FUEL MATERIALS↗

ECCE sensitivity studies for single hadron transverse single spin asymmetry measurements

Here, we performed feasibility studies for various single transverse spin measurements that are related to the Sivers effect, transversity and the tensor charge, and the Collins fragmentation function. The processes studied include semi-inclusive deep inelastic scattering (SIDIS) where single hadrons (pions and kaons) were detected in addition to the scattered DIS lepton. The data were obtained in pythia6 and geant4 simulated e+p collisions at 18 GeV on 275 GeV, 18 on 100, 10 on 100, and 5 on 41 that use the ECCE detector configuration. Typical DIS kinematics were selected, most notably Q 2 >1 GeV 2 , and cover the x range from 10 -4 to 1. The single spin asymmetries were extracted as a function of x and Q 2 , as well as the semi-inclusive variables z, which corresponds to the momentum fraction the detected hadron carries relative to the struck parton, and P T , which corresponds to the transverse momentum of the detected hadron relative to the virtual photon. They are obtained in azimuthal moments in combinations of the azimuthal angles of the hadron transverse momentum and transverse spin of the nucleon relative to the lepton scattering plane. In order to extract asymmetries, the initially unpolarized MonteCarlo was re-weighted in the true kinematic variables, hadron types and parton flavors based on global fits of fixed target SIDIS experiments and e + e – annihilation data. The expected statistical precision of such measurements is extrapolated to 10 fb –1 and potential systematic uncertainties are approximated given the deviations between true and reconstructed yields. Similar neutron information is obtained by comparing the ECCE e+p pseudo-data with the same from the EIC Yellow Report and scaling the corresponding Yellow Report e+ 3 He pseudo-data uncertainties accordingly. The impact on the knowledge of the Sivers functions, transversity and tensor charges, and the Collins function has then been evaluated in the same phenomenological extractions as in the Yellow Report. Finally, the impact is found to be comparable to that obtained with the parametrized Yellow Report detector and shows that the ECCE detector configuration can fulfill the physics goals on these quantities.

46 INSTRUMENTATION RELATED TO NUCLEAR SCIENCE AND ↗

Low-pass spectral analysis of time-resolved serial femtosecond crystallography data

Low-pass spectral analysis (LPSA) is a recently developed dynamics retrieval algorithm showing excellent retrieval properties when applied to model data affected by extreme incompleteness and stochastic weighting. In this work, we apply LPSA to an experimental time-resolved serial femtosecond crystallography (TR-SFX) dataset from the membrane protein bacteriorhodopsin (bR) and analyze its parametric sensitivity. While most dynamical modes are contaminated by nonphysical high-frequency features, we identify two dominant modes, which are little affected by spurious frequencies. The dynamics retrieved using these modes shows an isomerization signal compatible with previous findings. We employ synthetic data with increasing timing uncertainty, increasing incompleteness level, pixel-dependent incompleteness, and photon counting errors to investigate the root cause of the high-frequency contamination of our TR-SFX modes. By testing a range of methods, we show that timing errors comparable to the dynamical periods to be retrieved produce a smearing of dynamical features, hampering dynamics retrieval, but with no introduction of spurious components in the solution, when convergence criteria are met. Using model data, we are able to attribute the high-frequency contamination of low-order dynamical modes to the high levels of noise present in the data. Finally, we propose a method to handle missing observations that produces a substantial dynamics retrieval improvement from synthetic data with a significant static component. Reprocessing of the bR TR-SFX data using the improved method yields dynamical movies with strong isomerization signals compatible with previous findings.

59 BASIC BIOLOGICAL SCIENCES↗