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At least 55 records · Page 3

Sensitivity-Driven Experimental Design to Facilitate Control of Dynamical Systems

Control of nonlinear dynamical systems is a complex and multifaceted process. Essential elements of many engineering systems include high-fidelity physics-based modeling, offline trajectory planning, feedback control design, and data acquisition strategies to reduce uncertainties. Here this article proposes an optimization-centric perspective which couples these elements in a cohesive framework. We introduce a novel use of hyper-differential sensitivity analysis to understand the sensitivity of feedback controllers to parametric uncertainty in physics-based models used for trajectory planning. These sensitivities provide a foundation to define an optimal experimental design which seeks to acquire data most relevant in reducing demand on the feedback controller. Our proposed framework is illustrated on the Zermelo navigation problem and a hypersonic trajectory control problem using data from NASA’s X-43 hypersonic flight tests.

42 ENGINEERING↗

HdsaLib

HdsaLib performs hyper-differential sensitivity analysis in optimization problems that are constrained by partial differential equation problems. The software aids researchers in understanding the impact of uncertainties on their optimization models. The tool has been applied for use in ice sheet modeling, fluid flow modeling, atmospheric tracer transport modeling, and subsurface flow modeling. Sandia National Laboratories is a multimission laboratory managed and operated by National Technology & Engineering Solutions of Sandia, LLC, a wholly owned subsidiary of Honeywell International Inc., for the U.S. Department of Energy’s National Nuclear Security Administration under contract DE-NA0003525.

van Bloemen Waanders, Bart [Sandia National Lab. (↗

A molecular mechanism for the generation of ligand-dependent differential outputs by the epidermal growth factor receptor

The epidermal growth factor receptor (EGFR) is a receptor tyrosine kinase that couples the binding of extracellular ligands, such as EGF and transforming growth factor-α (TGF-α), to the initiation of intracellular signaling pathways. EGFR binds to EGF and TGF-α with similar affinity, but generates different signals from these ligands. To address the mechanistic basis of this phenomenon, we have carried out cryo-EM analyses of human EGFR bound to EGF and TGF-α. We show that the extracellular module adopts an ensemble of dimeric conformations when bound to either EGF or TGF-α. The two extreme states of this ensemble represent distinct ligand-bound quaternary structures in which the membrane-proximal tips of the extracellular module are either juxtaposed or separated. EGF and TGF-α differ in their ability to maintain the conformation with the membrane-proximal tips of the extracellular module separated, and this conformation is stabilized preferentially by an oncogenic EGFR mutation. Close proximity of the transmembrane helices at the junction with the extracellular module has been associated previously with increased EGFR activity. Our results show how EGFR can couple the binding of different ligands to differential modulation of this proximity, thereby suggesting a molecular mechanism for the generation of ligand-sensitive differential outputs in this receptor family.

59 BASIC BIOLOGICAL SCIENCES↗

Fed-batch production of deuterated protein in Escherichia coli for neutron scattering experimentation

Neutron scattering is a powerful technique for determining the structure and dynamics of biological materials in a variety of environmental conditions. A distinguishing property of the neutron is its sensitivity to detecting hydrogen and distinguishing it from its isotope deuterium. This enables unique types of experiments that take advantage of this differential sensitivity called isotopic contrast variation. Using this approach, the chemistry of the system is not changed, but the visibility of individual sample components can be tuned by varying the deuterium content of the system under investigation. Deuterated proteins are commonly produced in bacterial systems that are adapted to growth in D2O minimal media. To maximize the yield of deuterium-labeled protein and efficiently utilize D2O and occasionally the deuterated substrate, fed-batch processes are routinely used to maximize biomass production without compromising cell viability. A step-by-step procedure will be described along with a case study of the production of deuterated green fluorescent protein. Limitations of the process will also be discussed.

Weiss, Kevin L.↗

Randomized algorithms for generalized singular value decomposition with application to sensitivity analysis

The generalized singular value decomposition (GSVD) is a valuable tool that has many applications in computational science. However, computing the GSVD for large-scale problems is challenging. Motivated by applications in hyper-differential sensitivity analysis (HDSA), in this work we propose new randomized algorithms for computing the GSVD which use randomized subspace iteration and weighted QR factorization. Detailed error analysis is given which provides insight into the accuracy of the algorithms and the choice of the algorithmic parameters. We demonstrate the performance of our algorithms on test matrices and a large-scale model problem where HDSA is used to study subsurface flow.

97 MATHEMATICS AND COMPUTING↗

Toward real-time optimization through model reduction and model discrepancy sensitivities

Optimization problems arise in a range of scenarios, from optimal control to model parameter estimation. In many applications, such as the development of digital twins, it is essential to solve these optimization problems within wall-clock-time limitations. However, this is often unattainable for complex systems, such as those modeled by nonlinear partial differential equations. One strategy for mitigating this issue is to construct a reduced-order model (ROM) that enables more rapid optimization. In particular, the use of nonintrusive ROMs—those that do not require access to the full-order model at evaluation time—is popular because they facilitate the computation of optimization solutions within the wall-clock time requirements. However, the optimization solution will be unreliable if the iterates move outside the ROM training data. This article proposes the use of hyper-differential sensitivity analysis with respect to model discrepancy (HDSA-MD) as a computationally efficient tool to augment ROM-constrained optimization and improve its reliability. The proposed approach consists of two phases: (i) an offline phase where several full-order model evaluations are computed to train the ROM, and (ii) an online phase where a ROM-constrained optimization problem is solved, a limited number of full-order model evaluations are computed, and HDSA-MD is used to enhance the optimization solution. Numerical results are demonstrated for two examples, atmospheric contaminant control and wildfire ignition location estimation, in which a ROM is trained offline using inaccurate atmospheric data. In conclusion, the HDSA-MD update yields a significant improvement in the ROM-constrained optimization solution using only one full-order model evaluation online with corrected atmospheric data.

PDE-constrained optimization↗

Sensitivity of Au + Au collisions to the symmetric nuclear matter equation of state at 2–5 nuclear saturation densities

We demonstrate that proton and pion flow measurements in heavy-ion collisions at incident energies ranging from 1 to 20 GeV per nucleon in the fixed target frame can be used for an accurate determination of the symmetric nuclear matter equation of state at baryon densities equal 2–4 times nuclear saturation density n 0 . We simulate Au + Au collisions at these energies using a hadronic transport model with an adjustable vector mean-field potential dependent on baryon density n B . Here, we show that the mean field can be parametrized to reproduce a given density dependence of the speed of sound at zero temperature $c$$^{2}_{s}$ (n B , T = 0), which we vary independently in multiple density intervals to probe the differential sensitivity of heavy-ion observables to the equation of state at these specific densities. Recent flow data from the STAR experiment at the center-of-mass energies √ s NN = {3.0, 4.5} GeV can be described by our model, and a Bayesian analysis of these data indicates a hard equation of state at n B ϵ (2, 3)n 0 and a possible phase transition at n B ϵ (3, 4)n 0 . More data at √ s NN = 2–5 GeV, as well as a more thorough analysis of the model systematic uncertainties will be necessary for a more precise conclusion.

73 NUCLEAR PHYSICS AND RADIATION PHYSICS↗

A data-driven method for modelling dissipation rates in stratified turbulence

We present a deep probabilistic convolutional neural network (PCNN) model for predicting local values of small-scale mixing properties in stratified turbulent flows, namely the dissipation rates of turbulent kinetic energy and density variance, $\varepsilon$ and $\chi$ . Inputs to the PCNN are vertical columns of velocity and density gradients, motivated by data typically available from microstructure profilers in the ocean. The architecture is designed to enable the model to capture several characteristic features of stratified turbulence, in particular the dependence of small-scale isotropy on the buoyancy Reynolds number $Re_b:=\varepsilon /(\nu N^2)$ , where $\nu$ is the kinematic viscosity and $N$ is the background buoyancy frequency, the correlation between suitably locally averaged density gradients and turbulence intensity and the importance of capturing the tails of the probability distribution functions of values of dissipation. Empirically modified versions of commonly used isotropic models for $\varepsilon$ and $\chi$ that depend only on vertical derivatives of density and velocity are proposed based on the asymptotic regimes $Re_b\ll 1$ and $Re_b\gg 1$ , and serve as an instructive benchmark for comparison with the data-driven approach. When trained and tested on a simulation of stratified decaying turbulence which accesses a range of turbulent regimes (associated with differing values of $Re_b$ ), the PCNN outperforms assumptions of isotropy significantly as $Re_b$ decreases, and additionally demonstrates improvements over the fitted empirical models. A differential sensitivity analysis of the PCNN facilitates a comparison with the theoretical models and provides a physical interpretation of the features enabling it to make improved predictions.

42 ENGINEERING↗

Contrasting biological production trends over land and ocean

Terrestrial and marine ecosystems constitute the primary components of the Earth’s biosphere, yet their photosynthetic productions are typically studied separately, which limits understanding of planetary carbon uptake and biosphere health. Here, in this study, using multiple satellite-derived products, we identify contrasting net primary production (NPP) trends between land and ocean, probably reflecting their differential sensitivity to climate warming, especially in tropical regions. Planetary NPP shows an overall increase of 0.11 ± 0.13 PgC yr −1 (P = 0.05) from 2003 to 2021, driven by a significant terrestrial enhancement of 0.20 ± 0.07 PgC yr −1 (P < 0.001) and partially offset by an oceanic decline of −0.12 ± 0.12 PgC yr −1 (P = 0.07). While land contributes to the strong upwards NPP trend, the interannual variability in global NPP is predominantly driven by the ocean, especially during strong El Niño–Southern Oscillation events. Our findings highlight the resilience and potential vulnerability of biosphere primary productivity in a warming climate, calling for integrated land–ocean monitoring and assessment to support climate mitigation initiatives.

54 ENVIRONMENTAL SCIENCES↗

Biomembrane Structure and Material Properties Studied With Neutron Scattering

Cell membranes and their associated structures are dynamical supramolecular structures where different physiological processes take place. Detailed knowledge of their static and dynamic structures is therefore needed, to better understand membrane biology. The structure–function relationship is a basic tenet in biology and has been pursued using a range of different experimental approaches. In this review, we will discuss one approach, namely the use of neutron scattering techniques as applied, primarily, to model membrane systems composed of lipid bilayers. An advantage of neutron scattering, compared to other scattering techniques, is the differential sensitivity of neutrons to isotopes of hydrogen and, as a result, the relative ease of altering sample contrast by substituting protium for deuterium. This property makes neutrons an ideal probe for the study of hydrogen-rich materials, such as biomembranes. In this review article, we describe isotopic labeling studies of model and viable membranes, and discuss novel applications of neutron contrast variation in order to gain unique insights into the structure, dynamics, and molecular interactions of biological membranes. We specifically focus on how small-angle neutron scattering data is modeled using different contrast data and molecular dynamics simulations. We also briefly discuss neutron reflectometry and present a few recent advances that have taken place in neutron spin echo spectroscopy studies and the unique membrane mechanical data that can be derived from them, primarily due to new models used to fit the data.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Characterization of the First Prototype of the L1K65n Differential-Output Charge-Sensitive Preamplifier ASIC for High-Performance, Low-Background HPGe Detector Readout

Next-generation neutrinoless double-beta (0νββ) decay searches require a large detector/isotope mass and very low radioactive backgrounds. The upcoming LEGEND-1000 experiment (Large Enriched Germanium Experiment for Neutrinoless double-beta Decay) constitute a ton-scale array of several hundred high-purity germanium (HPGe) detectors enriched in 76Ge, the isotope of interest. It aims to reach a sensitivity beyond 10 28 years on the 0νββ decay half-life of 76Ge, necessitating an order of magnitude reduction in background with respect to the state of the art. This will require the implementation of a dedicated application specific integrated circuit (ASIC) preamplifier that will significantly lower background contribution compared to the conventional low-mass front end (LMFE) employed in the Majorana Demonstrator and LEGEND-200 experiments while maintaining or improving energy resolution and other performance parameters. Features include a high (9 MeV) dynamic range with noise low enough to achieve a trigger threshold of <1 keV, a single power supply to reduce background-inducing cabling, and a differential output to maintain signal integrity over several meters of transmission line. The chip would be optimized to operate in liquid argon (87 K) and be able to do so reliably for ten years. Following on from an earlier 180-nm prototype, we have developed a differential-output charge-sensitive preamplifier ASIC fabricated in a 65-nm process, 1×2 mm in size, that addresses these needs. Here, we present recent results from the successful testing and characterization of the first version of this device.

ASIC↗

Punzi-loss: a non-differentiable metric approximation for sensitivity optimisation in the search for new particles

We present the novel implementation of a non-differentiable metric approximation and a corresponding loss-scheduling aimed at the search for new particles of unknown mass in high energy physics experiments. We call the loss-scheduling, based on the minimisation of a figure-of-merit related function typical of particle physics, a Punzi-loss function, and the neural network that utilises this loss function a Punzi-net. We show that the Punzi-net outperforms standard multivariate analysis techniques and generalises well to mass hypotheses for which it was not trained. This is achieved by training a single classifier that provides a coherent and optimal classification of all signal hypotheses over the whole search space. Our result constitutes a complementary approach to fully differentiable analyses in particle physics. We implemented this work using PyTorch and provide users full access to a public repository containing all the codes and a training example.

71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗

Balancing Trade-offs: Adaptive Differential Privacy in Interpretable Machine Learning Models

In the advancing field of machine learning, balancing accuracy, interpretability, and privacy represents a significant challenge. The problem is exacerbated by the widespread deployment of pre-trained models locally in diverse applications, which could lead to various amounts of privacy leakage. Conventional Differential Privacy strategies, in which uniform noises are applied to model gradients, guarantee data privacy at the expense of accuracy and interpretability. This paper introduces a Feature-Sensitive Adaptive Differential Privacy (FADP) framework with a unique noise-adding strategy. Noises are adaptively added based on feature importance clustering, where important features are considered for interpretability. By employing a unique masking technique, FADP selectively preserves crucial features with minimal noise interference, maintaining accuracy while enhancing interpretability. The FADP framework addresses the limitations of traditional DP methods by preserving critical channels and improving interpretability — a vital requirement in machine learning applications that demand transparency in model decisions. Through comprehensive testing, FADP is shown to balance the trade-offs among accuracy, privacy, and interpretability, marking a substantial advancement in the field of privacy-preserving machine learning.

Farhad Riya, Farhin [University of Tennessee, Knox↗