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At least 289 records · Page 16

Physics-based shape matching for intraoperative image guidance

Purpose: Soft-tissue deformations can severely degrade the validity of preoperative planning data during computer assisted interventions. Intraoperative imaging such as stereo endoscopic, time-of-flight or, laser range scanner data can be used to compensate these movements. In this context, the intraoperative surface has to be matched to the preoperative model. The shape matching is especially challenging in the intraoperative setting due to noisy sensor data, only partially visible surfaces, ambiguous shape descriptors, and real-time requirements. Methods: A novel physics-based shape matching (PBSM) approach to register intraoperatively acquired surface meshes to preoperative planning data is proposed. The key idea of the method is to describe the nonrigid registration process as an electrostatic–elastic problem, where an elastic body (preoperative model) that is electrically charged slides into an oppositely charged rigid shape (intraoperative surface). It is shown that the corresponding energy functional can be efficiently solved using the finite element (FE) method. It is also demonstrated how PBSM can be combined with rigid registration schemes for robust nonrigid registration of arbitrarily aligned surfaces. Furthermore, it is shown how the approach can be combined with landmark based methods and outline its application to image guidance in laparoscopic interventions. Results: A profound analysis of the PBSM scheme based on in silico and phantom data is presented. Simulation studies on several liver models show that the approach is robust to the initial rigid registration and to parameter variations. The studies also reveal that the method achieves submillimeter registration accuracy (mean error between 0.32 and 0.46 mm). An unoptimized, single core implementation of the approach achieves near real-time performance (2 TPS, 7–19 s total registration time). It outperforms established methods in terms of speed and accuracy. Furthermore, it is shown that the method is able to accurately match partial surfaces. Finally, a phantom experiment demonstrates how the method can be combined with stereo endoscopic imaging to provide nonrigid registration during laparoscopic interventions. Conclusions: The PBSM approach for surface matching is fast, robust, and accurate. As the technique is based on a preoperative volumetric FE model, it naturally recovers the position of volumetric structures (e.g., tumors and vessels). It cannot only be used to recover soft-tissue deformations from intraoperative surface models but can also be combined with landmark data from volumetric imaging. In addition to applications in laparoscopic surgery, the method might prove useful in other areas that require soft-tissue registration from sparse intraoperative sensor data (e.g., radiation therapy)

46 INSTRUMENTATION RELATED TO NUCLEAR SCIENCE AND ↗

Body Imaging

Magnetic Resonance Imaging (MRI) and Computer-aided Tomography (CT) images are often complementary. In most cases, MRI is good for viewing soft tissue but not bone, while CT images are good for bone but not always good for soft tissue discrimination. Physicians and engineers in the Department of Radiology at the University of Michigan Hospitals are developing a technique for combining the best features of MRI and CT scans to increase the accuracy of discriminating one type of body tissue from another. One of their research tools is a computer program called HICAP. The program can be used to distinguish between healthy and diseased tissue in body images.

Source record↗

Anticipating gelation and vitrification with medium amplitude parallel superposition (MAPS) rheology and artificial neural networks

Abstract Anticipating qualitative changes in the rheological response of complex fluids (e.g., a gelation or vitrification transition) is an important capability for processing operations that utilize such materials in real-world environments. One class of complex fluids that exhibits distinct rheological states are soft glassy materials such as colloidal gels and clay dispersions, which can be well characterized by the soft glassy rheology (SGR) model. We first solve the model equations for the time-dependent, weakly nonlinear response of the SGR model. With this analytical solution, we show that the weak nonlinearities measured via medium amplitude parallel superposition (MAPS) rheology can be used to anticipate the rheological aging transitions in the linear response of soft glassy materials. This is a rheological version of a technique called structural health monitoring used widely in civil and aerospace engineering. We design and train artificial neural networks (ANNs) that are capable of quickly inferring the parameters of the SGR model from the results of sequential MAPS experiments. The combination of these data-rich experiments and machine learning tools to provide a surrogate for computationally expensive viscoelastic constitutive equations allows for rapid experimental characterization of the rheological state of soft glassy materials. We apply this technique to an aging dispersion of Laponite ® clay particles approaching the gel point and demonstrate that a trained ANN can provide real-time detection of transitions in the nonlinear response well in advance of incipient changes in the linear viscoelastic response of the system.

Lennon, Kyle R. (ORCID:0000000212515461)↗

Bulk viscous corrections to screening and damping in QCD at high temperatures

Non-equilibrium corrections to the distribution functions of quarks and gluons in a hot and dense QCD medium modify the \hard thermal loops" (HTL). The HTLs determine the retarded, advanced, and symmetric (time-ordered) propagators for gluons with soft momenta as well as the Debye screening and Landau damping mass scales. Here, we compute such corrections to a thermal as well as to a non-thermal fixed point. The screening and damping mass scales are sensitive to the bulk pressure and hence to (pseudo-) critical dynamical scaling of the bulk viscosity in the vicinity of a second-order critical point. This could be reected in the properties of quarkonium bound states in the deconfined phase and in the dynamics of soft gluon fields.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗

Explicit soft supersymmetry breaking in the heterotic M-theory B - L MSSM

The strongly coupled heterotic M-theory vacuum for both the observable and hidden sectors of the B - L MSSM theory is reviewed, including a discussion of the “bundle” constraints that both the observable sector SU(4) vector bundle and the hidden sector bundle induced from a single line bundle must satisfy. Gaugino condensation is then introduced within this context, and the hidden sector bundles that exhibit gaugino condensation are presented. The condensation scale is computed, singling out one line bundle whose associated condensation scale is low enough to be compatible with the energy scales available at the LHC. The corresponding region of Kähler moduli space where all bundle constraints are satisfied is presented. The generic form of the moduli dependent F-terms due to a gaugino superpotential — which spontaneously break N = 1 supersymmetry in this sector — is presented and then given explicitly for the unique line bundle associated with the low condensation scale. The moduli-dependent coefficients for each of the gaugino and scalar field soft supersymmetry breaking terms are computed leading to a low-energy effective Lagrangian for the observable sector matter fields. We then show that at a large number of points in Kähler moduli space that satisfy all “bundle” constraints, these coefficients are initial conditions for the renormalization group equations which, at low energy, lead to completely realistic physics satisfying all phenomenological constraints. Finally, we show that a substantial number of these initial points also satisfy a final constraint arising from the quadratic Higgs-Higgs conjugate soft supersymmetry breaking term.

71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗

Algorithm-Based Fault Tolerance for Convolutional Neural Networks

Convolutional neural networks (CNNs) are becoming more and more important for solving challenging and critical problems in many fields. CNN inference applications have been deployed in safety-critical systems, which may suffer from soft errors caused by high-energy particles, high temperature, or abnormal voltage. Of critical importance is ensuring the stability of the CNN inference process against soft errors. Traditional fault tolerance methods are not suitable for CNN inference because error-correcting code is unable to protect computational components, instruction duplication techniques incur high overhead, and existing algorithm-based fault tolerance (ABFT) techniques cannot protect all convolution implementations. In this paper, we focus on how to protect the CNN inference process against soft errors as efficiently as possible, with the following three contributions. (1) We propose several systematic ABFT schemes based on checksum techniques and analyze their fault protection ability and runtime thoroughly. Unlike traditional ABFT based on matrix-matrix multiplication, our schemes support any convolution implementations. (2) We design a novel workflow integrating all the proposed schemes to obtain a high detection/correction ability with limited total runtime overhead. (3) We perform our evaluation using ImageNet with well-known CNN models including AlexNet, VGG-19, ResNet-18, and YOLOv2. Here, experimental results demonstrate that our implementation can handle soft errors with very limited runtime overhead (4%~8% in both error-free and error-injected situations).

97 MATHEMATICS AND COMPUTING↗

Computer subroutines for the estimation of nuclear reaction effects in proton-tissue-dose calculations

Calculational methods for estimation of dose from external proton exposure of arbitrary convex bodies are briefly reviewed. All the necessary information for the estimation of dose in soft tissue is presented. Special emphasis is placed on retaining the effects of nuclear reaction, especially in relation to the dose equivalent. Computer subroutines to evaluate all of the relevant functions are discussed. Nuclear reaction contributions for standard space radiations are in most cases found to be significant. Many of the existing computer programs for estimating dose in which nuclear reaction effects are neglected can be readily converted to include nuclear reaction effects by use of the subroutines described herein.

Wilson, J. W.↗

On proton CT reconstruction using MVCT-converted virtual proton projections

Purpose: To describe a novel methodology of converting megavoltage x-ray projections into virtual proton projections that are otherwise missing due to the proton range limit. These converted virtual proton projections can be used in the reconstruction of proton computed tomography (pCT). Methods: Relations exist between proton projections and multispectral megavoltage x-ray projections for human tissue. Based on these relations, these tissues can be categorized into: (a) adipose tissue; (b) nonadipose soft tissues; and (c) bone. These three tissue categories can be visibly identified on a regular megavoltage x-ray computed tomography (MVCT) image. With an MVCT image and its projection data available, the x-ray projections through heterogeneous anatomy can be converted to the corresponding proton projections using predetermined calibration curves for individual materials, aided by a coarse segmentation on the x-ray CT image. To show the feasibility of this approach, mathematical simulations were carried out. The converted proton projections, plotted on a proton sinogram, were compared to the simulated ground truth. Proton stopping power images were reconstructed using either the virtual proton projections only or a blend of physically available proton projections and virtual proton projections that make up for those missing due to the range limit. These images were compared to a reference image reconstructed from theoretically calculated proton projections. Results: The converted virtual projections had an uncertainty of {+-}0.8% compared to the calculated ground truth. Proton stopping power images reconstructed using a blend of converted virtual projections (48%) and physically available projections (52%) had an uncertainty of {+-}0.86% compared with that reconstructed from theoretically calculated projections. Reconstruction solely from converted virtual proton projections had an uncertainty of {+-}1.1% compared with that reconstructed from theoretical projections. If these images are used for treatment planning, the average proton range uncertainty is estimated to be less than 1.5% for an imaging dose in the milligray range. Conclusions: The proposed method can be used to convert x-ray projections into virtual proton projections. The converted proton projections can be blended with existing proton projections or can be used solely for pCT reconstruction, addressing the range limit problem of pCT using current therapeutic proton machines.

60 APPLIED LIFE SCIENCES↗

Shape Servoing of Deformable Objects using Adaptive Deformation Model Estimation

In this paper, we propose an adaptive shape servoing method to deform a soft object into a desired 3-D shape. The high dimensional representation and the unknown deformation properties of the soft object pose a challenge to actively manipulate its shape. To address this issue, we develop a method to compute the deformation Jacobian matrix in real-time. The Jacobian is estimated using a set of basis functions and its corresponding parameters to capture the dynamics of the system and relate the applied input motion to changes in the soft object's shape. An integral concurrent learning (ICL) based adaptive update law is derived using Lyapunov analysis to estimate the deformation parameters and prove its convergence. A physics-based simulation is used to validate the proposed method and controller by performing manipulation tasks with different desired configurations. The performance is compared with a standard gradient update law to demonstrate the accuracy and robustness of our approach.

Vrithik Raj Guthikonda↗

Brownian Dynamics Simulation of Protein Solutions: Structural and Dynamical Properties

The study of solutions of biomacromolecules provides an important basis for understanding the behavior of many fundamental cellular processes, such as protein folding, self-assembly, biochemical reactions, and signal transduction. Here, we describe a Brownian dynamics simulation procedure and its validation for the study of the dynamic and structural properties of protein solutions. In the model used, the proteins are treated as atomically detailed rigid bodies moving in a continuum solvent. The protein-protein interaction forces are described by the sum of electrostatic interaction, electrostatic desolvation, nonpolar desolvation, and soft-core repulsion terms. The linearized Poisson-Boltzmann equation is solved to compute electrostatic terms. Simulations of homogeneous solutions of three different proteins with varying concentrations, pH, and ionic strength were performed. The results were compared to experimental data and theoretical values in terms of long-time self-diffusion coefficients, second virial coefficients, and structure factors. The results agree with the experimental trends and, in many cases, experimental values are reproduced quantitatively. There are no parameters specific to certain protein types in the interaction model, and hence the model should be applicable to the simulation of the behavior of mixtures of macromolecules in cell-like crowded environments.

59 BASIC BIOLOGICAL SCIENCES↗

Quantitative Bioluminescence Tomography-Guided Conformal Irradiation for Preclinical Radiation Research

Widely used cone beam computed tomography (CBCT)-guided irradiators in preclinical radiation research are limited to localize soft tissue target because of low imaging contrast. Knowledge of target volume is a fundamental need for radiation therapy (RT). Without such information to guide radiation, normal tissue can be overirradiated, introducing experimental uncertainties. This led us to develop high-contrast quantitative bioluminescence tomography (QBLT) for guidance. The use of a 3-dimensional bioluminescence signal, related to cell viability, for preclinical radiation research is one step toward biology-guided RT.

62 RADIOLOGY AND NUCLEAR MEDICINE↗

A lathe system for micrometre-sized cylindrical sample preparation at room and cryogenic temperatures

A simple two-spindle based lathe system for the preparation of cylindrical samples intended for X-ray tomography is presented. The setup can operate at room temperature as well as under cryogenic conditions, allowing the preparation of samples down to 20 and 50 µm in diameter, respectively, within minutes. Case studies are presented involving the preparation of a brittle biomineral brachiopod shell and cryogenically fixed soft brain tissue, and their examination by means of ptychographic X-ray computed tomography reveals the preparation method to be mainly free from causing artefacts. Since this lathe system easily yields near-cylindrical samples ideal for tomography, a usage for a wide variety of otherwise challenging specimens is anticipated, in addition to potential use as a time- and cost-saving tool prior to focused ion-beam milling. Fast sample preparation becomes especially important in relation to shorter measurement times expected in next-generation synchrotron sources.

36 MATERIALS SCIENCE↗

A Software Simulation Study of a Sequential Decoder Using the Fano Algorithm

A set of subroutines was developed to simulate the performance of a sequential decoder based on the Fano algorithm. This simulation can be used to verify the coding performance of the International Cometary Explorer (ICE) communication link. The probability of frame deletion can be measured as a function of the number of computations allowed per frame and of E(b)/N(o). Both hard and soft quantized inputs are considered.

Pollara, F.↗

Systolic array processing of the Viterbi algorithm

Results on efficient forms of decoding convolutional codes based on the Viterbi algorithm by using systolic arrays are presented. Various properties of convolutional codes are discussed. A technique called strongly connected trellis decoding is introduced to increase the efficient utilization of all the systolic array processors. Issues dealing with the composite branch metric generation, survivor updating, overall system architecture, throughput rate, and computational overhead ratio also investigated. The scheme is applicable to both hard and soft decoding of any rate b/n convolutional code. It is shown that as the length of the code becomes large, the systolic Viterbi decoder maintains a regular and general interconnection structure as well as moderate throughput rate gain over the sequential Viterbi decoder.

Chang, Chi-Yung↗

Ground-Based Correction of Remote-Sensing Spectral Imagery

Software has been developed for an improved method of correcting for the atmospheric optical effects (primarily, effects of aerosols and water vapor) in spectral images of the surface of the Earth acquired by airborne and spaceborne remote-sensing instruments. In this method, the variables needed for the corrections are extracted from the readings of a radiometer located on the ground in the vicinity of the scene of interest. The software includes algorithms that analyze measurement data acquired from a shadow-band radiometer. These algorithms are based on a prior radiation transport software model, called MODTRAN, that has been developed through several versions up to what are now known as MODTRAN4 and MODTRAN5 . These components have been integrated with a user-friendly Interactive Data Language (IDL) front end and an advanced version of MODTRAN4. Software tools for handling general data formats, performing a Langley-type calibration, and generating an output file of retrieved atmospheric parameters for use in another atmospheric-correction computer program known as FLAASH have also been incorporated into the present soft-ware. Concomitantly with the soft-ware described thus far, there has been developed a version of FLAASH that utilizes the retrieved atmospheric parameters to process spectral image data.

Alder-Golden, Steven M.↗

Tailoring Vanadium Dioxide Film Orientation Using Nanosheets: a Combined Microscopy, Diffraction, Transport, and Soft X‐Ray in Transmission Study

Abstract Vanadium dioxide (VO 2 ) is a much‐discussed material for oxide electronics and neuromorphic computing applications. Here, heteroepitaxy of VO 2 is realized on top of oxide nanosheets that cover either the amorphous silicon dioxide surfaces of Si substrates or X‐ray transparent silicon nitride membranes. The out‐of‐plane orientation of the VO 2 thin films is controlled at will between (011) M1 /(110) R and (−402) M1 /(002) R by coating the bulk substrates with Ti 0.87 O 2 and NbWO 6 nanosheets, respectively, prior to VO 2 growth. Temperature‐dependent X‐ray diffraction and automated crystal orientation mapping in microprobe transmission electron microscope mode (ACOM‐TEM) characterize the high phase purity, the crystallographic and orientational properties of the VO 2 films. Transport measurements and soft X‐ray absorption in transmission are used to probe the VO 2 metal–insulator transition, showing results of a quality equal to those from epitaxial films on bulk single‐crystal substrates. Successful local manipulation of two different VO 2 orientations on a single substrate is demonstrated using VO 2 grown on lithographically patterned lines of Ti 0.87 O 2 and NbWO 6 nanosheets investigated by electron backscatter diffraction. Finally, the excellent suitability of these nanosheet‐templated VO 2 films for advanced lensless imaging of the metal–insulator transition using coherent soft X‐rays is discussed.

Le, Phu Tran Phong↗

Triaxiality and the nature of low-energy excitations in Ge 76

The deformation properties of the low-lying states in 76 Ge have been investigated following a safe energy Coulomb excitation measurement with the GRETINA tracking array and CHICO2 heavy-ion counter at the ATLAS accelerator facility at Argonne National Laboratory. A comprehensive set of transition and static E2 matrix elements were extracted from the measured differential Coulomb cross-sections, and compared with results of configuration interaction shell-model calculations and computations carried out within the framework of the generalized triaxial rotor model. The remarkable agreement between the calculated and experimental data supports a near-maximum triaxial deformation for the ground state of 76 Ge. Additionally, the degree of softness of the asymmetry in 76 Ge and 76 Se was investigated using rotational invariants generated from configuration interaction shell-model wave functions computed with the jj44b and JUN45 effective interactions. The resulting invariants are shown to be consistent with a stiff triaxial deformation in 76 Ge and a predominantly soft triaxial potential for 76 Se, in agreement with the conclusions of recent works by this collaboration.

59 ≤ A ≤ 89↗

Quark and gluon two-loop beam functions for leading-jet p T and slicing at NNLO

We compute the complete set of two-loop beam functions for the transverse momentum distribution of the leading jet produced in association with an arbitrary colour-singlet system. Our results constitute the last missing ingredient for the calculation of the jet-vetoed cross section at small veto scales at the next-to-next-to-leading order, as well as an important ingredient for its resummation to next-to-next-to-next-to-leading logarithmic order. Our calculation is performed in the soft-collinear effective theory framework with a suitable regularisation of the rapidity divergences occurring in the phase-space integrals. We discuss the occurrence of soft-collinear mixing terms that might violate the factorisation theorem, and demonstrate that they are naturally absorbed into the beam functions at two loops in the exponential rapidity regularisation scheme when performing a multipole expansion of the measurement function. As in our recent computation of the two-loop soft function, we present the results as a Laurent expansion in the jet radius R. We provide analytic expressions for all flavour channels in x space with the exception of a set of R-independent non-logarithmic terms that are given as numerical grids. We also perform a fully numerical calculation with exact R dependence, and find that it agrees with our analytic expansion at the permyriad level or better. Our calculation allows us to define a next-to-next-to-leading order slicing method using the leading-jet p T as a slicing variable. As a check of our results, we carry out a calculation of the Higgs and Z boson total production cross sections at the next-to-next-to-leading order in QCD.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗