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Simultaneous 3D–2D image registration and C-arm calibration: Application to endovascular image-guided interventions

Purpose: Three-dimensional to two-dimensional (3D–2D) image registration is a key to fusion and simultaneous visualization of valuable information contained in 3D pre-interventional and 2D intra-interventional images with the final goal of image guidance of a procedure. In this paper, the authors focus on 3D–2D image registration within the context of intracranial endovascular image-guided interventions (EIGIs), where the 3D and 2D images are generally acquired with the same C-arm system. The accuracy and robustness of any 3D–2D registration method, to be used in a clinical setting, is influenced by (1) the method itself, (2) uncertainty of initial pose of the 3D image from which registration starts, (3) uncertainty of C-arm’s geometry and pose, and (4) the number of 2D intra-interventional images used for registration, which is generally one and at most two. The study of these influences requires rigorous and objective validation of any 3D–2D registration method against a highly accurate reference or “gold standard” registration, performed on clinical image datasets acquired in the context of the intervention. Methods: The registration process is split into two sequential, i.e., initial and final, registration stages. The initial stage is either machine-based or template matching. The latter aims to reduce possibly large in-plane translation errors by matching a projection of the 3D vessel model and 2D image. In the final registration stage, four state-of-the-art intrinsic image-based 3D–2D registration methods, which involve simultaneous refinement of rigid-body and C-arm parameters, are evaluated. For objective validation, the authors acquired an image database of 15 patients undergoing cerebral EIGI, for which accurate gold standard registrations were established by fiducial marker coregistration. Results: Based on target registration error, the obtained success rates of 3D to a single 2D image registration after initial machine-based and template matching and final registration involving C-arm calibration were 36%, 73%, and 93%, respectively, while registration accuracy of 0.59 mm was the best after final registration. By compensating in-plane translation errors by initial template matching, the success rates achieved after the final stage improved consistently for all methods, especially if C-arm calibration was performed simultaneously with the 3D–2D image registration. Conclusions: Because the tested methods perform simultaneous C-arm calibration and 3D–2D registration based solely on anatomical information, they have a high potential for automation and thus for an immediate integration into current interventional workflow. One of the authors’ main contributions is also comprehensive and representative validation performed under realistic conditions as encountered during cerebral EIGI.

60 APPLIED LIFE SCIENCES↗

HOST GALAXY IDENTIFICATION FOR SUPERNOVA SURVEYS

Host galaxy identification is a crucial step for modern supernova (SN) surveys such as the Dark Energy Survey and the Large Synoptic Survey Telescope, which will discover SNe by the thousands. Spectroscopic resources are limited, and so in the absence of real-time SN spectra these surveys must rely on host galaxy spectra to obtain accurate redshifts for the Hubble diagram and to improve photometric classification of SNe. In addition, SN luminosities are known to correlate with host-galaxy properties. Therefore, reliable identification of host galaxies is essential for cosmology and SN science. We simulate SN events and their locations within their host galaxies to develop and test methods for matching SNe to their hosts. We use both real and simulated galaxy catalog data from the Advanced Camera for Surveys General Catalog and MICECATv2.0, respectively. We also incorporate “hostless” SNe residing in undetected faint hosts into our analysis, with an assumed hostless rate of 5%. Our fully automated algorithm is run on catalog data and matches SNe to their hosts with 91% accuracy. We find that including a machine learning component, run after the initial matching algorithm, improves the accuracy (purity) of the matching to 97% with a 2% cost in efficiency (true positive rate). Although the exact results are dependent on the details of the survey and the galaxy catalogs used, the method of identifying host galaxies we outline here can be applied to any transient survey.

79 ASTRONOMY AND ASTROPHYSICS↗

A journey from nuclear criticality methods to high energy density radflow experiments

Los Alamos National Laboratory is a nuclear weapons laboratory supporting our nation's defense. In support of this mission is a high energy-density physics program in which we design and execute experiments to study radiationhydrodynamics phenomena and improve the predictive capability of our largescale multi-physics software codes on our big-iron computers. The Radflow project’s main experimental effort now is to understand why we haven't been able to predict opacities on Sandia National Laboratory's Z-machine. We are modeling an increasing fraction of the Z-machine's dynamic hohlraum to find multi-physics explanations for the experimental results. Further, we are building an entirely different opacity platform on Lawrence Livermore National Laboratory's National Ignition Facility (NIF), which is set to get results early 2017. Will the results match our predictions, match the Z-machine, or give us something entirely different? The new platform brings new challenges such as designing hohlraums and spectrometers. The speaker will recount his history, starting with one-dimensional Monte Carlo nuclear criticality methods in graduate school, radiative transfer methods research and software development for his first 16 years at LANL, and, now, radflow technology and experiments. Who knew that the real world was more than just radiation transport? Experiments aren't easy and they are as saturated with politics as a presidential election, but they sure are fun.

45 MILITARY TECHNOLOGY, WEAPONRY, AND NATIONAL DEF↗

A journey from nuclear criticality methods to high energy density radflow experiments

Los Alamos National Laboratory is a nuclear weapons laboratory supporting our nation's defense. In support of this mission is a high energy-density physics program in which we design and execute experiments to study radiationhydrodynamics phenomena and improve the predictive capability of our largescale multi-physics software codes on our big-iron computers. The Radflow project’s main experimental effort now is to understand why we haven't been able to predict opacities on Sandia National Laboratory's Z-machine. We are modeling an increasing fraction of the Z-machine's dynamic hohlraum to find multi-physics explanations for the experimental results. Further, we are building an entirely different opacity platform on Lawrence Livermore National Laboratory's National Ignition Facility (NIF), which is set to get results early 2017. Will the results match our predictions, match the Z-machine, or give us something entirely different? The new platform brings new challenges such as designing hohlraums and spectrometers. The speaker will recount his history, starting with one-dimensional Monte Carlo nuclear criticality methods in graduate school, radiative transfer methods research and software development for his first 16 years at LANL, and, now, radflow technology and experiments. Who knew that the real world was more than just radiation transport? Experiments aren't easy, but they sure are fun.

73 NUCLEAR PHYSICS AND RADIATION PHYSICS↗

Multithreaded Algorithms for Maximum Matching in Bipartite Graphs

Abstract—We design, implement, and evaluate algorithms for computing a matching of maximum cardinality in a bipartite graph on multi-core and massively multithreaded computers. As computers with larger number of slower cores dominate the commodity processor market, the design of multithreaded algorithms to solve large matching problems becomes a necessity. Recent work on serial algorithms based on searching for augmenting paths for this problem have shown that their performance is sensitive to the order in which the vertices are processed for matching. In a multithreaded environment, imposing a serial order in which vertices are considered for matching would lead to loss of concurrency and performance. But this raises the question: Would parallel matching algorithms on multithreaded machines improve performance over a serial algorithm? We answer this question in the affirmative. We report efficient multithreaded implementations of two key algorithms (Hopcroft- Karp based on breadth-first-search, and Pothen-Fan based on depth-first-search) and their variants, combined with the Karp- Sipser initialization algorithm. We report extensive results and insights using three shared-memory platforms (a 48-core AMD Opteron, a 32-core Intel Nehalem, and a 128-processor Cray XMT) on a representative set of real-world and synthetic graphs. To the best of our knowledge, this is the first extensive study of augmentation-based parallel algorithms for bipartite cardinality matching.

Azad, Md Ariful↗

SU-F-T-470: Implementation of a Daily Quality Assurance Phantom for Six Degrees-Of-Freedom Couch Testing

Purpose: To develop a daily quality assurance (QA) device that can test the 6DoF (degrees of freedom) couch repositioning accuracy, prior to SBRT treatment deliveries, with an accuracy of ±0.3 degrees and ±0.3 mm. Methods: A daily QA phantom is designed with a focus on the derived center of projections of its markers, rather than tracking its individual markers one at a time. This approach can be the most favorable to address the intended machining accuracy of the QA phantom and the CBCT spatial resolution limitations, primarily 1 mm min slice thickness, simultaneously. With the current design, ±0.1 mm congruence of the resultant center of gravity of the markers with reference CT (0.6 mm minimum slice thickness) vs CBCT (1.0 mm minimum slice thickness) can be achieved. If successful, the QA device should be qualified to test 6DoF couch performance with a gauged accuracy of ±0.3 degrees/±0.3 mm. Testing is performed for the Varian True Beam 2.0 6DoF system. Results: Once the QA phantom is constructed and tested, agreement of the center of gravity of the reference CT scan and the CBCT scan of ±0.1 mm is achieved. This has translated into a consistent 3D-3D match on the treatment machine, CT vs CBCT, with a repetitive ±0.1 mm variation, thus exceeding our expectations. We have deployed the phantom for daily QA on one of our accelerators, and found that the QA time has increased by only 10 minutes. Conclusion: A 6DoF phantom has been designed (patent pending) and built with a realistic work flow in mind where the daily couch accuracy QA checks taking less than 10 minutes. Current developments include integration with the Varian’s Machine Performance Check consistency module.

60 APPLIED LIFE SCIENCES↗

SU-F-T-467: A Cross-Checking Approach for Dosimetric Verification of Beam- Matched Elekta Linear Accelerators

Purpose: To verify the similarity of the dosimetric characteristics between two Elekta linear accelerators (linacs) in order to treat patients interchangeably on these two machines without re-planning. Methods: To investigate the viability of matching the 6 MV flattened beam on an existing linac (Elekta Synergy with Agility head) with a recently installed new linca (Elekta Versa HD), percent depth doses (PDD), flatness and symmetry output factors were compared for both machines. To validate the beam matching among machines, we carried out two approaches to cross-check the dosimetrical equivalence: 1) the prior treatment plans were re-computed based on the newly built Versa HD treatment planning system (TPS) model without changing the beam control points; 2) The same plans were delivered on both machines and the radiation dose measurements on a MapCheck2 were compared with TPS calculations. Three VMAT plans (Head and neck, lung, and prostate) were used in the study. Results: The difference between the PDDs for 10×10 cm{sup 2} field at all depths was less than 0.8%. The difference of flatness and symmetry for 30×30 cm{sup 2} field was less than 0.8%, and the measured output factors varies by less than 1% for each field size ranging from 2×2 cm2 to 40×40 cm{sup 2}. For the same plans, the maximum difference of the two calculated dose distributions is 2% of prescription. For the QA measurements, the gamma index passing rates were above 99% for 3%/3mm criteria with 10% threshold for all three clinical plans. Conclusion: A beam modality matching between two Elekta linacs is demonstrated with a cross-checking approach.

43 PARTICLE ACCELERATORS↗

Streaming Analytics Machine (SAM) v. 0.0.1

This is software developed in the course of my dissertation work, which was funded by Sandia. The software includes a library (the Streaming Analytics Machine or SAM) for expressing machine learning and subgraph matching over streaming data sources. It also includes a utility that will convert from a high-level language, the Streaming Analytics Language (SAL) to SAM. SAND2019-4322 M

Goodman, Eric↗

Real-Time Data Acquisition and Processing System for MHz Repetition Rate Image Sensors

An electro-optic detector is one of the diagnostic setups used in particle accelerators. It employs an electro-optic crystal to encode the longitudinal beam charge profile in the spectrum of a light pulse. The charge distribution is then reconstructed using data captured by a fast spectrometer. The measurement repetition rate should match or exceed the machine bunching frequency, which is often in the range of several MHz. A high-speed optical line detector (HOLD) is a linear camera designed for easy integration with scientific experiments. The use of modern FPGA circuits helps in the efficient collection and processing of data. The solution is based on Xilinx 7-Series FPGA circuits and implements a custom latency-optimized architecture utilizing the AXI4 family of interfaces. HOLD is one of the fastest line cameras in the world. Thanks to its hardware architecture and a powerful KALYPSO sensor from KIT, it outperforms the fastest comparable commercial devices.

MicroTCA↗

Air-Lubricated Lead Screw

Air lubricated lead screw and nut carefully machined to have closely matched closely fitting threads. Compressed air injected into two plenums encircle nut and flow through orifices to lubricate mating threads. Originally developed to position precisely interferometer retroreflector for airborne measurement of solar infrared radiation, device now has positioning accuracy of 0.25 micron.

Perkins, G. S.↗

Fixture For Calibrating Pressure Probe

Fixture in form of specially designed clamshell housing enables in situ calibration of pressure transducer mounted in body of pressure probe in wind tunnel. Includes two metal half shells machined with necks and matching cavities, when put together, define larger neck and cavity accommodating probe. Probe secured to bottom half shell by use of clamp before installing top half shell: necessary to follow sequence to protect probe during assembly. Clamshell calibration fixture attached to pressure probe in few minutes, making it possible to calibrate pressure transducer at convenient times. Calibrations performed before and after wind-tunnel runs each day, between runs in event of delays or suspected malfunctions, and essentially any other time, without having to remove probe from wind tunnel.

Ashby, George C., Jr.↗

Machine-learning Kohn–Sham potential from dynamics in time-dependent Kohn–Sham systems

Abstract The construction of a better exchange-correlation potential in time-dependent density functional theory (TDDFT) can improve the accuracy of TDDFT calculations and provide more accurate predictions of the properties of many-electron systems. Here, we propose a machine learning method to develop the energy functional and the Kohn–Sham potential of a time-dependent Kohn–Sham (TDKS) system is proposed. The method is based on the dynamics of the Kohn–Sham system and does not require any data on the exact Kohn–Sham potential for training the model. We demonstrate the results of our method with a 1D harmonic oscillator example and a 1D two-electron example. We show that the machine-learned Kohn–Sham potential matches the exact Kohn–Sham potential in the absence of memory effect. Our method can still capture the dynamics of the Kohn–Sham system in the presence of memory effects. The machine learning method developed in this article provides insight into making better approximations of the energy functional and the Kohn–Sham potential in the TDKS system.

97 MATHEMATICS AND COMPUTING↗

GMFOLD: Subgraph matching for high-throughput DNA-aptamer secondary structure classification and machine learning interpretability

Aptamers are oligonucleotide receptors that bind to their targets with high affinity. Here, we consider aptamers comprised of single-stranded DNA that undergo target-binding-induced conformational changes, giving rise to unique secondary and tertiary structures. Given a specific aptamer primary sequence, there are well-established computational tools (notably mfold) to predict the secondary structure via free energy minimization algorithms. While mfold generates secondary structures for individual sequences, there is a need for a high-throughput process whereby thousands of DNA structures can be predicted in real-time for use in an interactive setting, when combined with aptamer selections that generate candidate pools that are too large to be experimentally interrogated. We developed a new Python code for high-throughput aptamer secondary structure determination (GMfold). GMfold uses subgraph matching methods to group aptamer candidates by secondary structure similarities. We also improve an open-source code, SeqFold, to incorporate subgraph matching concepts. We represent each secondary structure as a lowest-energy bipartite subgraph matching of the DNA graph to itself. These new tools enable thousands of DNA sequences to be compared based on their secondary structures, using machine-learning algorithms. This process is advantageous when analyzing sequences that arise from aptamer selections via systematic evolution of ligands by exponential enrichment (SELEX). This work is a building block for future machine-learning-informed DNA-aptamer selection processes to identify aptamers with improved target affinity and selectivity and advance aptamer biosensors and therapeutics.

Aptamer↗

Real-time signal detection for Cyclotron Radiation Emission Spectroscopy measurements using antenna arrays

Cyclotron Radiation Emission Spectroscopy (CRES) is a technique for precision measurement of the energies of charged particles, which is being developed by the Project 8 Collaboration to measure the neutrino mass using tritium beta-decay spectroscopy. Project 8 seeks to use the CRES technique to measure the neutrino mass with a sensitivity of 40 meV, requiring a large supply of tritium atoms stored in a multi-cubic meter detector volume. Antenna arrays are one potential technology compatible with an experiment of this scale, but the capability of an antenna-based CRES experiment to measure the neutrino mass depends on the efficiency of the signal detection algorithms. Here, in this paper, we develop efficiency models for three signal detection algorithms and compare them using simulations from a prototype antenna-based CRES experiment as a case-study. The algorithms include a power threshold, a matched filter template bank, and a neural network based machine learning approach, which are analyzed in terms of their average detection efficiency and relative computational cost. It is found that significant improvements in detection efficiency and, therefore, neutrino mass sensitivity are achievable, with only a moderate increase in computation cost, by utilizing either the matched filter or machine learning approach in place of a power threshold, which is the baseline signal detection algorithm used in previous CRES experiments by Project 8.

46 INSTRUMENTATION RELATED TO NUCLEAR SCIENCE AND ↗

Differential Property Prediction: A Machine Learning Approach to Experimental Design in Advanced Manufacturing

Advanced manufacturing techniques have enabled the production of materials with state-of-the-art properties. In many cases however, the development of physics-based models of these techniques lags behind their development in the lab. This means that material and process development proceeds largely via trial and error. This is sub-optimal since experiments are cost-, time-, and labor-intensive. In this work we propose a machine learning framework, differential property classification (DPC), which enables an experimenter to leverage machine learning's unparalleled pattern matching capability to pursue data-driven experimental design. DPC takes two possible experiment parameter sets and outputs a prediction of which will produce a material with a more desirable property specified by the operator. We demonstrate the success of DPC on AA7075 tube manufacturing process and mechanical property data using shear assisted processing and extrusion (ShAPE), an emerging solid phase processing technology. We show that by focusing on the experimenter's need to choose between multiple candidate experimental parameters, we can reframe the challenging regression task of predicting material properties from processing parameters, into a classification task on which machine learning models can achieve good performance.

advanced manufacturing, machine learning, ShAPE↗

Commissioning and dosimetric characteristics of TrueBeam system: Composite data of three TrueBeam machines

Purpose: A TrueBeam linear accelerator (TB-LINAC) is designed to deliver traditionally flattened and flattening-filter-free (FFF) beams. Although it has been widely adopted in many clinics for patient treatment, limited information is available related to commissioning of this type of machine. In this work, commissioning data of three units were measured, and multiunit comparison was presented to provide valuable insights and reliable evaluations on the characteristics of the new treatment system. Methods: The TB-LINAC is equipped with newly designed waveguide, carousel assembly, monitoring control, and integrated imaging systems. Each machine in this study has 4, 6, 8, 10, 15 MV flattened photon beams, and 6 MV and 10 MV FFF photon beams as well as 6, 9, 12, 16, 20, and 22 MeV electron beams. Dosimetric characteristics of the three new TB-LINAC treatment units are systematically measured for commissioning. High-resolution diode detectors and ion chambers were used to measure dosimetric data for a range of field sizes from 10 Multiplication-Sign 10 to 400 Multiplication-Sign 400 mm{sup 2}. The composite dosimetric data of the three units are presented in this work. The commissioning of intensity modulated radiotherapy (IMRT), volumetric modulated arc therapy (VMAT), image-guided radiation therapy, and gating systems are also illustrated. Critical considerations of P{sub ion} of FFF photon beams and small field dosimetric measurements were investigated. Results: The authors found all PDDs and profiles matched well among the three machines. Beam data were quantitatively compared and combined through average to yield composite beam data. The discrepancies among the machines were quantified using standard deviation (SD). The mean SD of the PDDs among the three units is 0.12%, and the mean SD of the profiles is 0.40% for 10 MV FFF open fields. The variations of P{sub ion} of the chamber CC13 is 1.2 {+-} 0.1% under 6 MV FFF and 2.0 {+-} 0.5% under 10 MV FFF from dmax to the 18 cm-off-axis point at 35 cm depth under 40 Multiplication-Sign 40 cm{sup 2}. The mean penumbra of crossplane flattened photon beams at collimator angle of 0 Degree-Sign is measured from 5.88 {+-} 0.09 to 5.99 {+-} 0.13 mm from 4 to 15 MV at 10 cm depth of 100 Multiplication-Sign 100 mm{sup 2}. The mean penumbra of crossplane beams at collimator angle of 0 Degree-Sign is measured as 3.70 {+-} 0.21 and 4.83 {+-} 0.04 mm for 6 MV FFF and 10 MV FFF, respectively, at 10 cm depth with a field size of 5 Multiplication-Sign 5 cm{sup 2}. The end-to-end test procedures of both IMRT and VMAT were performed for various energy modes. The mean ion chamber measurements of three units showed less than 2% between measurement and calculation; the mean MultiCube ICA measurements demonstrated over 90% pixels passing gamma analysis (3%, 3 mm, 5% threshold). The imaging dosimetric data of KV planar imaging and CBCT demonstrated improved consistency with vendor specifications and dose reduction for certain imaging protocols. The gated output verification showed a discrepancy of 0.05% or less between gating radiation delivery and nongating radiation delivery. Conclusions: The commissioning data indicated good consistency among the three TB-LINAC units. The commissioning data provided us valuable insights and reliable evaluations on the characteristics of the new treatment system. The systematically measured data might be useful for future reference.

07 ISOTOPE AND RADIATION SOURCES↗

ColdRoute: effective routing of cold questions in stack exchange sites

Routing questions in Community Question Answer services such as Stack Exchange sites is a well-studied problem. Yet, cold-start—a phenomena observed when a new question is posted is not well addressed by existing approaches. Additionally, cold questions posted by new askers present significant challenges to state-of-the-art approaches. We propose ColdRoute to address these challenges. ColdRoute is able to handle the task of routing cold questions posted by new or existing askers to matching experts. Specifically, we use Factorization Machines on the one-hot encoding of critical features such as question tags and compare our approach to well-studied techniques such as CQARank and semantic matching (LDA, BoW, and Doc2Vec). Furthermore by using data from eight stack exchange sites, we are able to improve upon the routing metrics (Precision@1, Accuracy, MRR) over the state-of-the-art models such as semantic matching by 159.5, 31.84, and 40.36% for cold questions posted by existing askers, and 123.1, 27.03, and 34.81% for cold questions posted by new askers respectively.

96 KNOWLEDGE MANAGEMENT AND PRESERVATION↗