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Search indexed NASA NTRS and DOE OSTI research on propulsion, heat transfer, battery materials and energy systems. Follow report and document links to the original sources.

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At least 451 records · Page 25
All sourcesNASA NTRSDOE OSTI
DOE OSTI2025

Complex water networks visualized by cryogenic electron microscopy of RNA

The stability and function of biomolecules are directly influenced by their myriad interactions with water. Here we investigated water through cryogenic electron microscopy (cryo-EM) on a highly solvated molecule: the Tetrahymena ribozyme. By using segmentation-guided water and ion modelling (SWIM), an approach combining resolvability and chemical parameters, we automatically modelled and cross-validated water molecules and Mg 2+ ions in the ribozyme core, revealing the extensive involvement of water in mediating RNA non-canonical interactions. Unexpectedly, in regions where SWIM does not model ordered water, we observed highly similar densities in both cryo-EM maps. In many of these regions, the cryo-EM densities superimpose with complex water networks predicted by molecular dynamics, supporting their assignment as water and suggesting a biophysical explanation for their elusiveness to conventional atomic coordinate modelling. Our study demonstrates an approach to unveil both rigid and flexible waters that surround biomolecules through cryo-EM map densities, statistical and chemical metrics, and molecular dynamics simulations.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2023

Discovering strongly lensed quasar candidates with catalogue-based methods from DESI Legacy Surveys

The Hubble tension, revealed by a ~5σ discrepancy between measurements of the Hubble-Lemaitre constant among observations of the early and local Universe, is one of the most significant problems in modern cosmology. In order to better understand the origin of this mismatch, independent techniques to measure H 0 , such as strong lensing time delays, are required. Notably, the sample size of such systems is key to minimising the statistical uncertainties and cosmic variance, which can be improved by exploring the datasets of large-scale sky surveys such as Dark Energy Spectroscopic Instrument (DESI). We identify possible strong lensing time-delay systems within DESI by selecting candidate multiply imaged lensed quasars from a catalogue of 24 440 816 candidate QSOs contained in the ninth data release of the DESI Legacy Imaging Surveys (DESI-LS). Using a friend-of-friends-like algorithm on spatial co-ordinates, our method generates an initial list of compact quasar groups. This list is subsequently filtered using a measure of the similarity of colours among a group’s members and the likelihood that they are quasars. A visual inspection finally selects candidate strong lensing systems based on the spatial configuration of the group members. We identified 620 new candidate multiply imaged lensed quasars (101 grade-A, 214 grade-B, 305 grade-C). This number excludes 53 known spectroscopically confirmed systems and existing candidate systems identified in other similar catalogues. When available, these new candidates will be further checked by combining the spectroscopic and photometric data from DESI.

79 ASTRONOMY AND ASTROPHYSICS↗
DOE OSTI2016

PERSISTENCE MAPPING USING EUV SOLAR IMAGER DATA

We describe a simple image processing technique that is useful for the visualization and depiction of gradually evolving or intermittent structures in solar physics extreme-ultraviolet imagery. The technique is an application of image segmentation, which we call “Persistence Mapping,” to isolate extreme values in a data set, and is particularly useful for the problem of capturing phenomena that are evolving in both space and time. While integration or “time-lapse” imaging uses the full sample (of size N ), Persistence Mapping rejects ( N − 1)/ N of the data set and identifies the most relevant 1/ N values using the following rule: if a pixel reaches an extreme value, it retains that value until that value is exceeded. The simplest examples isolate minima and maxima, but any quantile or statistic can be used. This paper demonstrates how the technique has been used to extract the dynamics in long-term evolution of comet tails, erupting material, and EUV dimming regions.

79 ASTRONOMY AND ASTROPHYSICS↗
DOE OSTI2014

SU-D-17A-04: The Impact of Audiovisual Biofeedback On Image Quality During 4D Functional and Anatomic Imaging: Results of a Prospective Clinical Trial

Purpose: The ability of audiovisual (AV) biofeedback to improve breathing regularity has not previously been investigated for functional imaging studies. The purpose of this study was to investigate the impact of AV biofeedback on 4D-PET and 4D-CT image quality in a prospective clinical trial. We hypothesized that motion blurring in 4D-PET images and the number of artifacts in 4D-CT images are reduced using AV biofeedback. Methods: AV biofeedback is a real-time, interactive and personalized system designed to help a patient self-regulate his/her breathing using a patient-specific representative waveform and musical guides. In an IRB-approved prospective clinical trial, 4D-PET and 4D-CT images of 10 lung cancer patients were acquired with AV biofeedback (AV) and free breathing (FB). The 4D-PET images in 6 respiratory bins were analyzed for motion blurring by: (1) decrease of GTVPET and (2) increase of SUVmax in 4-DPET compared to 3D-PET. The 4D-CT images were analyzed for artifacts by: (1) comparing normalized cross correlation-based scores (NCCS); and (2) quantifying a visual assessment score (VAS). A two-tailed paired t-test was used to test the hypotheses. Results: The impact of AV biofeedback on 4D-PET and 4D-CT images varied widely between patients, suggesting inconsistent patient comprehension and capability. Overall, the 4D-PET decrease of GTVPET was 2.0±3.0cm3 with AV and 2.3±3.9cm{sup 3} for FB (p=0.61). The 4D-PET increase of SUVmax was 1.6±1.0 with AV and 1.1±0.8 with FB (p=0.002). The 4D-CT NCCS were 0.65±0.27 with AV and 0.60±0.32 for FB (p=0.32). The 4D-CT VAS was 0.0±2.7 (p=ns). Conclusion: A 10-patient study demonstrated a statistically significant reduction of motion blurring of AV over FB for 1/2 functional 4D-PET imaging metrics. No difference between AV and FB was found for 2 anatomic 4D-CT imaging metrics. Future studies will focus on optimizing the human-computer interface and including patient training sessions for improved comprehension and capability. Supported by NIH/NCI R01 CA 093626, Stanford BioX Interdisciplinary Initiatives Program, NHMRC Australia Fellowship, and Kwanjeong Educational Foundation. GE Healthcare provided the Respiratory Gating Toolbox for 4D-PET image reconstruction. Stanford University owns US patent #E7955270 which is unlicensed to any commercial entity.

60 APPLIED LIFE SCIENCES↗
DOE OSTI2017

EDGE COMPUTING AND CONTEXTUAL INFORMATION FOR THE INTERNET OF THINGS SENSORS

Interpreting sensor data require knowledge about sensor placement and the surrounding environment. For a single sensor measurement, it is easy to document the context by visual observation, however for millions of sensors reporting data back to a server, the contextual information needs to be automatically extracted from either data analysis or leveraging complimentary data sources. Data layers that overlap spatially or temporally with sensor locations, can be used to extract the context and to validate the measurement. To minimize the amount of data transmitted through the internet, while preserving signal information content, two methods are explored; computation at the edge and compressed sensing. We validate the above methods on wind and chemical sensor data (1) eliminate redundant measurement from wind sensors and (2) extract peak value of a chemical sensor measuring a methane plume. We present a general cloud based framework to validate sensor data based on statistical and physical modeling and contextual data extracted from geospatial data.

03 NATURAL GAS↗
DOE OSTI2017

EDGE COMPUTING AND CONTEXTUAL INFORMATION FOR THE INTERNET OF THINGS SENSORS

Interpreting sensor data require knowledge about sensor placement and the surrounding environment. For a single sensor measurement, it is easy to document the context by visual observation, however for millions of sensors reporting data back to a server, the contextual information needs to be automatically extracted from either data analysis or leveraging complimentary data sources. Data layers that overlap spatially or temporally with sensor locations, can be used to extract the context and to validate the measurement. To minimize the amount of data transmitted through the internet, while preserving signal information content, two methods are explored; computation at the edge and compressed sensing. We validate the above methods on wind and chemical sensor data (1) eliminate redundant measurement from wind sensors and (2) extract peak value of a chemical sensor measuring a methane plume. We present a general cloud based framework to validate sensor data based on statistical and physical modeling and contextual data extracted from geospatial data.

Klein, Levente↗
DOE OSTI2021

Adversarial Perturbations Are Not So Weird: Entanglement of Robust and Non-Robust Features in Neural Network Classifiers

Neural networks trained on visual data are well-known to be vulnerable to often imperceptible adversarial perturbations. The reasons for this vulnerability are still being debated in the literature. Recently Ilyas et al. (2019) showed that this vulnerability arises, in part, because neural network classifiers rely on highly predictive but brittle “non-robust” features. In this paper we extend the work of Ilyas et al. by investigating the nature of the input patterns that give rise to these features. In particular, we hypothesize that in a neural network trained in a standard way, non-robust features respond to small, “non-semantic” patterns that are typically entangled with larger, robust patterns, known to be more human-interpretable, as opposed to solely responding to statistical artifacts in a dataset. Thus, adversarial examples can be formed via minimal perturbations to these small, entangled patterns. In addition, we demonstrate a corollary of our hypothesis: robust classifiers are more effective than standard (non-robust) ones as a source for generating transferable adversarial examples in both the untargeted and targeted settings. The results we present in this paper provide new insight into the nature of the non-robust features responsible for adversarial vulnerability of neural network classifiers.

97 MATHEMATICS AND COMPUTING↗
DOE OSTI2014

Lake Michigan Offshore Wind Feasibility Assessment

The purpose of this project was to conduct the first comprehensive offshore wind assessment over Lake Michigan and to advance the body of knowledge needed to support future commercial wind energy development on the Great Lakes. The project involved evaluation and selection of emerging wind measurement technology and the permitting, installation and operation of the first mid-lake wind assessment meteorological (MET) facilities in Michigan’s Great Lakes. In addition, the project provided the first opportunity to deploy and field test floating LIDAR and Laser Wind Sensor (LWS) technology, and important research related equipment key to the sitting and permitting of future offshore wind energy development in accordance with public participation guidelines established by the Michigan Great Lakes Wind Council (GLOW). The project created opportunities for public dialogue and community education about offshore wind resource management and continued the dialogue to foster Great Lake wind resource utilization consistent with the focus of the GLOW Council. The technology proved to be effective, affordable, mobile, and the methods of data measurement accurate. The public benefited from a substantial increase in knowledge of the wind resources over Lake Michigan and gained insights about the potential environmental impacts of offshore wind turbine placements in the future. The unique first ever hub height wind resource assessment using LWS technology over water and development of related research data along with the permitting, sitting, and deployment of the WindSentinel MET buoy has captured public attention and has helped to increase awareness of the potential of future offshore wind energy development on the Great Lakes. Specifically, this project supported the acquisition and operation of a WindSentinel (WS) MET wind assessment buoy, and associated research for 549 days over multiple years at three locations on Lake Michigan. Four research objectives were defined for the project including to: 1) test and validate floating LIDAR technology; 2) collect and access offshore wind data; 3) detect and measure bird and bat activity over Lake Michigan; 4) conduct an over water sound propagation study; 5) prepare and offer a college course on offshore energy, and; 6) collect other environmental, bathometric, and atmospheric data. Desk-top research was performed to select anchorage sites and to secure permits to deploy the buoy. The project also collected and analyzed data essential to wind industry investment decision-making including: deploying highly mobile floating equipment to gather offshore wind data; correlating offshore wind data with conventional on-shore MET tower data; and performing studies that can contribute to the advancement and deployment of offshore wind technologies. Related activities included: • Siting, permitting, and deploying an offshore floating MET facility; • Validating the accuracy of floating LWS using near shoreline cup anemometer MET instruments; • Assessment of laser pulse technology (LIDAR) capability to establish hub height measurement of wind conditions at multiple locations on Lake Michigan; • Utilizing an extended-season (9-10 month) strategy to collect hub height wind data and weather conditions on Lake Michigan; • Investigation of technology best suited for wireless data transmission from distant offshore structures; • Conducting field-validated sound propagation study for a hypothetical offshore wind farm from shoreline locations; • Identifying the presence or absence of bird and bat species near wind assessment facilities; • Identifying the presence or absence of benthic and pelagic species near wind assessment facilities; All proposed project activities were completed with the following major findings: • Floating Laser Wind Sensors are capable of high quality measurement and recordings of wind resources. The WindSentinel presented no significant operational or statistical limitations in recording wind data technology at a at a high confidence level as compared to traditional anemometer cup technology. • During storms, mean Turbulent Kinetic Energy (TKE) increases with height above water; • Sufficient wind resources exist over Lake Michigan to generate 7,684 kWh of power using a 850 kW rated turbine at elevations between 90 - 125 meters, a height lower than originally anticipated for optimum power generation; • Based on initial assessments, wind characteristics are not significantly different at distant (thirty-two mile) offshore locations as compared to near-shore (six mile) locations; • Significant cost savings can be achieved in generation wind energy at lower turbine heights and locating closer to shore. • Siting must be sufficiently distant from shore to minimize visual impact and to address public sentiment about offshore wind development; • Project results show that birds and bats do frequent the middle of Lake Michigan, bats more so than birds; • Based on the wind resource assessment and depths of Lake Michigan encountered during the project, future turbine placement will most likely need to incorporate floating or anchored technology; • The most appropriate siting of offshore wind energy locations will enable direct routing of transmission cables to existing generating and transmission facilities located along the Michigan shoreline; • Wind turbine noise propagation from a wind energy generating facility at a five mile offshore location will not be audible at the shoreline over normal background sound levels.

17 WIND ENERGY↗
DOE OSTI2022

Coordinated Ramping Product and Regulation Reserve Procurements in CAISO and MISO using Multi-Scale Probabilistic Solar Power Forecasts (Pro2R)

How can probabilistic solar forecasts lower costs and improve reliability for independent system operator (ISO) markets? We tackle this question in three steps. First, we enhance an existing solar forecasting system to provide well-calibrated hours-ahead probabilistic forecasts. We then relate the degree of uncertainty in those forecasts to error distributions for net load ramps for the California ISO (CAISO) using statistical and machine learning methods. Projected net load errors conditioned on solar uncertainty are translated into flexible ramp requirements that therefore reflect real-time meteorological and solar conditions, improving on typical ISO procedures. Finally, a multi-period look-ahead production cost model quantifies how conditional ramp requirements can a) decrease operating costs by lowering requirements compared to often conservative unconditional methods, and b) reduce generation scarcity events and consequently improve reliability by increasing flexibility requirements at times when unconditional forecast-based requirements understate actual ramp uncertainty. In addition to the products just described (quantification of solar uncertainty, its translation into requirements for ramp capability product, and quantification of the benefits of more accurate ramp requirements), this project also developed a visualization system that alerts system operators of ramp and uncertainty conditions within the network based on solar forecasts. The system is called Resource Forecast and Ramp Visualization for Situational Awareness (RaVIS). These four products represent significant advances in the state-of-the-art of probabilistic solar forecasting, development of weather-informed reserve requirements, production costing methods for estimating the benefits of more accurate reserve requirements, and visualization of system status, respectively. Yet the products are also practical and can be immediately implemented, potentially enabling system operators to save millions of dollars in ramp product procurement costs per year.

14 SOLAR ENERGY↗
DOE OSTI2019

Pain in percutaneous liver core-needle biopsy: a randomized trial comparing the intercostal and subcostal approaches

Purpose: Effective pain control during and after percutaneous core needle liver biopsy is important with regard to ethical considerations and patient comfort. In this randomized double-blind study, we compared post-biopsy pain in the patients undergoing liver core-needle biopsy using either subcostal or intercostal approaches. Methods: All patients referred for ultrasound-guided CNLB between July 2017 and January 2018 to our interventional radiology department were randomized into two groups. Biopsy was performed through intercostal approach in the first group and through subcostal approach in the second group. The intensity of pain 0, 2, and 4 h after the procedure was compared in two groups using a 100-mm visual analogue scale. All biopsies were performed without procedural IV sedation. If patients’ discomfort demanded administration of IV analgesics during or after the procedure, then the patients were excluded from the study. Results: In patients without routine procedural IV sedation, there was no significant difference in the pain level between the intercostal and subcostal groups immediately after the procedure (p = 0.055), but we found a significant difference in the pain level between the two groups 2 (7.5 mm, p = 0.001) and 4 (2 mm, p = 0.001) h after the procedure. Conclusion: The minimum amount of change in the VAS score that is considered clinically important is 13 mm on a 100-mm scale. Pain differences at 2 and 4 h in the two groups in this study were statistically but not clinically significant. Therefore, the authors suggest the use of subcostal route for ultrasound-guided liver biopsy whenever possible, but the results do not warrant the routine use of post-procedure analgesics in whom biopsy is performed via intercostal route.

62 RADIOLOGY AND NUCLEAR MEDICINE↗
DOE OSTI2014

SU-E-J-114: Towards Integrated CT and Ultrasound Guided Radiation Therapy Using A Robotic Arm with Virtual Springs

Purpose: Currently there is an urgent need in Radiation Therapy for noninvasive and nonionizing soft tissue target guidance such as localization before treatment and continuous monitoring during treatment. Ultrasound is a portable, low cost option that can be easily integrated with the LINAC room. We are developing a cooperatively controlled robot arm that has high intrafraction reproducibility with repositioning of the ultrasound probe. In this study, we introduce virtual springs (VS) to assist with interfraction probe repositioning and we compare the soft tissue deformation introduced by VS to the deformation that would exist without them. Methods: Three metal markers were surgically implanted in the kidney of one dog. The dog was anesthetized and immobilized supine in an alpha cradle. The reference ultrasound probe position and force to ideally visualize the kidney was defined by an experienced ultrasonographer using the Clarity ultrasound system and robot sensor. For each interfraction study, the dog was removed from the cradle and re-setup based on CBCT with bony anatomy alignment to mimic regular patient setup. The ultrasound probe was automatically returned to the reference position using the robot. To accommodate the soft tissue anatomy changes between each setup the operator used the VS feature to adjust the probe and obtain an ultrasound image that matched the reference image. CBCT images were acquired and each interfraction marker location was compared with the first interfraction Result. Results: Analysis of the marker positions revealed that the kidney was displaced by 18.8 ± 6.4 mm without VS and 19.9 ± 10.5 mm with VS. No statistically significant differences were found between two procedures. Conclusion: The VS feature is necessary to obtain matching ultrasound images, and they do not introduce further changes to the tissue deformation. Future work will focus on automatic VS based on ultrasound feedback. Supported in part by: NCI R01 CA161613; Elekta Sponsored Research.

60 APPLIED LIFE SCIENCES↗
DOE OSTI2022

The maximum extent of the filaments and sheets in the cosmic web: an analysis of the SDSS DR17

Filaments and sheets are striking visual patterns in cosmic web. The maximum extent of these large-scale structures are difficult to determine due to their structural variety and complexity. We construct a volume-limited sample of galaxies in a cubic region from the SDSS, divide it into smaller subcubes and shuffle them around. We quantify the average filamentarity and planarity in the 3D galaxy distribution as a function of the density threshold and compare them with those from the shuffled realizations of the original data. The analysis is repeated for different shuffling lengths by varying the size of the subcubes. The average filamentarity and planarity in the shuffled data show a significant reduction when the shuffling scales are smaller than the maximum size of the genuine filaments and sheets. We observe a statistically significant reduction in these statistical measures even at a shuffling scale of $\sim 130 \, {{\, \rm Mpc}}$, indicating that the filaments and sheets in three dimensions can extend up to this length scale. They may extend to somewhat larger length scales that are missed by our analysis due to the limited size of the SDSS data cube. We expect to determine these length scales by applying this method to deeper and larger surveys in future.

79 ASTRONOMY AND ASTROPHYSICS↗
DOE OSTI2013

An Uncertainty Quantification Framework for Studying the Effect of Spatial Heterogeneity in Reservoir Permeability on CO2 Sequestration

In this paper, we introduce an uncertainty quantification (UQ) software framework for carbon sequestration, focused on the effect of spatial heterogeneity of reservoir properties on CO2 migration. We use a sequential Gaussian method (SGSIM) to generate realizations of permeability fields with various spatial statistical attributes. To deal with the computational difficulties, we integrate the following ideas/approaches. First, we use three different sampling approaches (probabilistic collocation, quasi-Monte Carlo, and adaptive sampling) to reduce the number of forward calculations while trying to explore the parameter space and quantify the input uncertainty. Second, we use eSTOMP as the forward modeling simulator. eSTOMP is implemented with the Global Arrays toolkit that is based on one-sided inter-processor communication and supports a shared memory programming style on distributed memory platforms, providing a highly-scalable performance. Third, we built an adaptive system infrastructure to select the best possible data transfer mechanisms, to optimally allocate system resources to improve performance and to integrate software packages and data for composing carbon sequestration simulation, computation, analysis, estimation and visualization. We demonstrate the framework with a given CO2 injection scenario in heterogeneous sandstone reservoirs.

Carbon sequestration, uncertainty quantification, ↗
DOE OSTI2016

A selection of giant radio sources from NVSS

Results of the application of pattern-recognition techniques to the problem of identifying giant radio sources (GRSs) from the data in the NVSS catalog are presented, and issues affecting the process are explored. Decision-tree pattern-recognition software was applied to training-set source pairs developed from known NVSS large-angular-size radio galaxies. The full training set consisted of 51,195 source pairs, 48 of which were known GRSs for which each lobe was primarily represented by a single catalog component. The source pairs had a maximum separation of $20^{\prime} $ and a minimum component area of 1.87 square arcmin at the 1.4 mJy level. The importance of comparing the resulting probability distributions of the training and application sets for cases of unknown class ratio is demonstrated. The probability of correctly ranking a randomly selected (GRS, non-GRS) pair from the best of the tested classifiers was determined to be 97.8 ± 1.5%. The best classifiers were applied to the over 870,000 candidate pairs from the entire catalog. Images of higher-ranked sources were visually screened, and a table of over 1600 candidates, including morphological annotation, is presented. These systems include doubles and triples, wide-angle tail and narrow-angle tail, S- or Z-shaped systems, and core-jets and resolved cores. In conclusion, while some resolved-lobe systems are recovered with this technique, generally it is expected that such systems would require a different approach.

79 ASTRONOMY AND ASTROPHYSICS↗
DOE OSTI2015

A novel application of cosmic rays for spent nuclear fuel monitoring - 15738

Monitoring nuclear waste and controlling spent nuclear fuel at its source is one of the main strategies to minimize the risks of nuclear proliferation and reduce potential homeland threats. Storage of high level waste from a fission reactor typically involves placing spent fuel in sealed dry casks. After the spent nuclear fuel has been placed inside the dry cask, the cask is welded, not allowing for visual inspection. Conventional methods for examining the interior of materials e.g., X-rays, are limited by the fact that they cannot penetrate very dense well-shielded objects. Instead, cosmic ray muons have the potential to allow for assessment of spent nuclear fuel stored within sealed dense dry casks. Objectives: 1.Exploit the ability of cosmic ray muons to penetrate high density materials allowing the distribution of materials within the object to be inferred from the muon tracks. 2. Develop a monitoring system that tracks the path of cosmic ray muons, including their deflection and attenuation, to identify the contents of a closed dry cask. Methods: - Monte-Carlo simulations using Geant4; - Bayesian decision theory for signal classification; - Wavelet analysis for noise cancellation; - Chaotic Neural Networks for signal encryption. Results: 1. Preliminary statistical analysis proved that the method is feasible and has the ability to identify the presence of spent nuclear fuel in a dry cask. 2. Using monoenergetic muons, a dry cask with one fuel assembly missing can be correctly identified with error rate <1%. Broader merit: Once completed, the proposed project for cosmic ray muon transport will enable a new and potentially transformative approach towards efficient, inexpensive and remote cosmic ray muon applications in archaeology, medicine and safeguarding of nuclear materials.

12 MANAGEMENT OF RADIOACTIVE AND NON-RADIOACTIVE W↗
DOE OSTI2026

Imaging systematics induced by galaxy subsample fluctuation: New systematics at second order

Imaging systematics refers to the inhomogeneous distribution of a galaxy sample caused by varying observing conditions and astrophysical foregrounds. Current mitigation methods correct the galaxy density fluctuations $n$ gal /$\bar{n}$ gal caused by imaging systematics assuming that all galaxies in a sample have the same $n$ gal /$\bar{n}$ gal . Under this assumption, the corrected sample cannot perfectly recover the true correlation function. Here, we name this effect subsample systematics. For a galaxy sample, even if its overall sample statistics [redshift distribution 𝑛⁡(𝑧), galaxy bias 𝑏⁡(𝑧)], are accurately measured, 𝑛⁡(𝑧), 𝑏⁡(𝑧) can still vary across the observed footprint. It makes the correlation function amplitude of galaxy clustering higher, while correlation functions for galaxy-galaxy lensing and cosmic shear do not have noticeable change. Such a combination could potentially degenerate with physical signals on small angular scales, such as the amplitude of galaxy clustering, the impact of neutrino mass on the matter power spectrum, etc. subsample systematics cannot be corrected using imaging systematics mitigation approaches that rely on the cross-correlation signal between imaging systematics maps and the observed galaxy density field. In this paper, we derive formulated expressions of subsample systematics, demonstrating its fundamental difference with other imaging systematics. We also provide several toy models to visualize this effect. Finally, we discuss a potential method to estimate and mitigate subsample systematics by forward modeling its behavior using synthetic source injection.

Kong, Hui [The Barcelona Institute of Science and ↗
DOE OSTI2021

Understanding protein-complex assembly through grand canonical maximum entropy modeling

Inside a cell, heterotypic proteins assemble in inhomogeneous, crowded systems where the abundance of these proteins vary with cell types. While some protein complexes form putative structures that can be visualized with imaging, there are far more protein complexes that are yet to be solved because of their dynamic associations with one another. Nevertheless, it is possible to infer these protein complexes through a physical model. However, it is often not clear to physicists what kind of data from biology is necessary for such a modeling endeavor. Here, we aim to model these clusters of coarse-grained protein assemblies from multiple subunits through the constraints of interactions among the subunits and the chemical potential of each subunit. We obtained the constraints on the interactions among subunits from the known protein structures. We inferred the chemical potential that dictates the particle number distribution of each protein subunit from the knowledge of protein abundance from experimental data. Guided by the maximum entropy principle, we formulated an inverse statistical mechanical method to infer the distribution of particle numbers from the data of protein abundance as chemical potentials for a grand canonical multicomponent mixture. Using grand canonical Monte Carlo simulations, we captured a distribution of high-order clusters in a protein complex of succinate dehydrogenase with four known subunits. The complexity of hierarchical clusters varies with the relative protein abundance of each subunit in distinctive cell types such as lung, heart, and brain. When the crowding content increases, we observed that crowding stabilizes emergent clusters that do not exist in dilute conditions. We, therefore, proposed a testable hypothesis that the hierarchical complexity of protein clusters on a molecular scale is a plausible biomarker of predicting the phenotypes of a cell.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2015

SU-E-J-109: Evaluation of Deformable Accumulated Parotid Doses Using Different Registration Algorithms in Adaptive Head and Neck Radiotherapy

Purpose: Three deformable image registration (DIR) algorithms are utilized to perform deformable dose accumulation for head and neck tomotherapy treatment, and the differences of the accumulated doses are evaluated. Methods: Daily MVCT data for 10 patients with pathologically proven nasopharyngeal cancers were analyzed. The data were acquired using tomotherapy (TomoTherapy, Accuray) at the PLA General Hospital. The prescription dose to the primary target was 70Gy in 33 fractions.Three DIR methods (B-spline, Diffeomorphic Demons and MIMvista) were used to propagate parotid structures from planning CTs to the daily CTs and accumulate fractionated dose on the planning CTs. The mean accumulated doses of parotids were quantitatively compared and the uncertainties of the propagated parotid contours were evaluated using Dice similarity index (DSI). Results: The planned mean dose of the ipsilateral parotids (32.42±3.13Gy) was slightly higher than those of the contralateral parotids (31.38±3.19Gy)in 10 patients. The difference between the accumulated mean doses of the ipsilateral parotids in the B-spline, Demons and MIMvista deformation algorithms (36.40±5.78Gy, 34.08±6.72Gy and 33.72±2.63Gy ) were statistically significant (B-spline vs Demons, P<0.0001, B-spline vs MIMvista, p =0.002). And The difference between those of the contralateral parotids in the B-spline, Demons and MIMvista deformation algorithms (34.08±4.82Gy, 32.42±4.80Gy and 33.92±4.65Gy ) were also significant (B-spline vs Demons, p =0.009, B-spline vs MIMvista, p =0.074). For the DSI analysis, the scores of B-spline, Demons and MIMvista DIRs were 0.90, 0.89 and 0.76. Conclusion: Shrinkage of parotid volumes results in the dose increase to the parotid glands in adaptive head and neck radiotherapy. The accumulated doses of parotids show significant difference using the different DIR algorithms between kVCT and MVCT. Therefore, the volume-based criterion (i.e. DSI) as a quantitative evaluation of registration accuracy is essential besides the visual assessment by the treating physician. This work was supported in part by the grant from Chinese Natural Science Foundation (Grant No. 11105225)

60 APPLIED LIFE SCIENCES↗