SEARCH · Engineering Papers

Results for “tool life”

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.

SourceResearch connectionFrom yearThrough year

Quote a phrase for an exact phrase match. Source license links do not imply unrestricted reuse.

At least 1,189 records · Page 66

All sources NASA NTRS DOE OSTI

DOE OSTI2020

Prediction for Pressure Differential Across HEPA Filter Media Based on Media Characteristics and Particle Size Distribution

A new method for predicting the pressure drop across High Efficiency Particulate Air (HEPA) filter media is proposed based upon mass deposited onto the filter and known physical characteristics of the filter media. Detailed are the methods used in conjunction with current filter loading models to predict the pressure drop, as well as tests conducted to validate the methods. The benefit of a prediction model for practical use lies in the manufacturing and service life of nuclear grade HEPA filters. HEPA filters for use in nuclear facilities have a prescribed expiration date and a maximum allowable operating pressure drop. Therefore, the ability to predict the pressure drop across a filter and relate it to an expected length of service time can enable a reduction in wasted filters. This will allow for more informed decisions to be made based upon the dictated life cycle of the filters. Also, understanding and predicting how the pressure drop of HEPA filter media behaves as a function of physical characteristics and loaded mass can assist in future design and manufacturing of filter media. Currently, most existing pressure drop models are either computationally based or analytical methods relying on data gathered during tests. Neither are practical for prediction; the computational methods are difficult to implement, and the current analytical methods are more useful as tools for analysis. The current analytical model developed by Bergman et al. is based upon the pressure drop from each media fiber and modeling the deposited particles as newly formed fibers. Using Bergman's model and the media properties, air properties, and known aerosol particle size distribution, a pressure drop curve as a function of loaded mass can be created. This curve implies initial loading in the depth of the filter media with a transition to pure surface loading on the filter face, and a sensitivity to an evolving particle size distribution as mass continues to load onto the filter. To implement the predictive model, knowledge of the mean filter fiber diameter and porosity of the filter media is required. Traditionally, the mean fiber diameter is calculated as an effective diameter from prior media testing, however, in this study a Scanning Electron Microscope (SEM) technique is used to acquire this variable. Validation of the predictive model is provided by flat sheet media tests under a controlled environment with a measured particle size distribution of the challenge aerosol and shows reasonable preliminary agreement.

12 MANAGEMENT OF RADIOACTIVE AND NON-RADIOACTIVE W↗

DOE OSTI2022

National Renewable Energy Laboratory Wildland Fire Management Plan (August 2022-August 2025): February-August 2022

The National Renewable Energy Laboratory (NREL) is located in a moderate wildfire risk region. The region has a history of damaging wildland fire activity and is also susceptible to changing environmental conditions (drought, elevated temperatures) that may lead to an increase in wildfire frequency and consequence over time. An integrated, site-wide wildland fire management plan is required by the Department of Energy and is to be consistent with the Federal Wildland Fire Management Policy. The NREL Wildland Fire Management Plan (WFMP) provides an integrated approach to reducing risk to wildland fire at NREL. The goals of the WFMP are to protect human health and safety, protect NREL facilities and research, enhance community protection, diminish risk and consequences of wildland fires, and maintain the health of the ecosystem. The WFMP accomplishes these goals through the use of tools such as fire behavior modeling, fire growth modeling, a structure ignition risk assessment, and through the application of robust fire prevention, emergency management, and environmental programs. The NREL WFMP was developed in a collaborative manner with input from regional stakeholders including cities, counties, local fire departments, and other governmental agencies. The WFMP provides for recommendations to reduce overall wildland fire risk to life safety and property at NREL.

54 ENVIRONMENTAL SCIENCES↗

NASA NTRS1976

Spacelab - New tool for research and investigations in space

The Orbiter/Spacelab system is regarded as an entity that provides an orbital platform for experiments in a wide variety of scientific and technological fields. The paper presents a brief summary of the Spacelab system and its operation as an introduction to a new tool to be available to an international community of users through the 1980s. Investigations have shown that all the more conventional fields of space research and applications can benefit from the use of Spacelab, such as astronomy, magnetospheric physics, remote sensing, communications, and many others. It is expected that new areas that would gain from using Spacelab will be recognized as its operational life matures. Numerous sketches and photographs supplement the text.

Gibson, R.↗

NASA NTRS1998

Development and Testing of Automatically Generated ACS Flight Software for the MAP Spacecraft

By integrating the attitude determination and control system (ACS) analysis and design, flight software development, and flight software testing processes, it is possible to improve the overall spacecraft development cycle, as well as allow for more thorough software testing. One of the ways to achieve this integration is to use code-generation tools to automatically generate components of the ACS flight software directly from a high-fidelity (HiFi) simulation. In the development of the Microwave Anisotropy Probe (MAP) spacecraft, currently underway at the NASA Goddard Space Flight Center, approximately 1/3 of the ACS flight software was automatically generated. In this paper, we will examine each phase of the ACS subsystem and flight software design life cycle: analysis, design, and testing. In the analysis phase, we scoped how much software we would automatically generate and created the initial interface. The design phase included parallel development of the HiFi simulation and the hand-coded flight software components. Everything came together in the test phase, in which the flight software was tested, using results from the HiFi simulation as one of the bases of comparison for testing. Because parts of the spacecraft HiFi simulation were converted into flight software, more care needed to be put into its development and configuration control to support both the HiFi simulation and flight software. The components of the HiFi simulation from which code was generated needed to be designed based on the fact that they would become flight software. This process involved such considerations as protecting against mathematical exceptions, using acceptable module and parameter naming conventions, and using an input/output interface compatible with the rest of the flight software. Maintaining good configuration control was an issue for the HiFi simulation and the flight software, and a way to track the two systems was devised. Finally, an integrated test approach was devised to support flight software testing at both the unit- and build-test levels using the HiFi simulation to generate data for performance verification. Another benefit of the simulation and code-generation application used on the MAP project is that it supported bringing flight software and test data into the HiFi simulation environment. It was possible to integrate parts of the hand-coded flight software into the HiFi simulation, and also possible to import flight software test data for comparison and performance verification. This capability was used to incorporate the flight software Kalman filter into the HiFi simulation. This enabled us to greatly increase the amount of testing that could be done on the filter, because we could exert a greater degree of control over the software-only simulation than over the flight software test environment. Also, since the simulation could be used to run the Kalman filter faster than real time, our testing efficiency was greatly increased. We will conclude our discussion with a summary of the lessons learned thus far using automatically- generated code for the MAP project, and the spacecraft status as we work towards our scheduled launch in the year 2000.

ODonnell, James R., Jr.↗

NASA NTRS2003

Experiences with Testing the Largest Ground System NASA Has Ever Built

In the 1980s, the National Aeronautics and Space Administration (NASA) embarked upon a major Earth-focused program called Mission to Planet Earth. The Goddard Space Flight Center (GSFC) was selected to manage and develop a key component - the Earth Observing System (EOS). The EOS consisted of four major missions designed to monitor the Earth. The missions included 4 spacecraft. Terra (launched December 1999), Aqua (launched May 2002), ICESat (Ice, Cloud, and Land Elevation Satellite, launched January 2003), and Aura (scheduled for launch January 2004). The purpose of these missions was to provide support for NASA s long-term research effort for determining how human-induced and natural changes affect our global environment. The EOS Data and Information System (EOSDIS), a globally distributed, large-scale scientific system, was built to support EOS. Its primary function is to capture, collect, process, and distribute the most voluminous set of remotely sensed scientific data to date estimated to be 350 Gbytes per day. The EOSDIS is composed of a diverse set of elements with functional capabilities that require the implementation of a complex set of computers, high-speed networks, mission-unique equipment, and associated Information Technology (IT) software along with mission-specific software. All missions are constrained by schedule, budget, and staffing resources, and rigorous testing has been shown to be critical to the success of each mission. This paper addresses the challenges associated with the planning, test definition. resource scheduling, execution, and discrepancy reporting involved in the mission readiness testing of a ground system on the scale of EOSDIS. The size and complexity of the mission systems supporting the Aqua flight operations, for example, combined with the limited resources available, prompted the project to challenge the prevailing testing culture. The resulting success of the Aqua Mission Readiness Testing (MRT) program was due in no small measure to re-structuring the traditional programmatic and technical approach to a more efficient and robust program. Programmatically, it meant gaining the endorsement, commitment, and cooperation of the numerous subsystem element managers and other stakeholder organizations. Technically, it required an MRT program that was agile, could rapidly adapt to requirements changes, and was flexible in its overall approach. Furthermore, this paper addresses the following questions: 1. What are the key ingredients (e.g., test tools, organization) needed to conduct a successful MRT program? 2. What distinguishes EOS MRT from the traditional system testing approach? 3. Where should the focus of testing be since it is infeasible to test every element or subsystem? 4. How can MRT be applied effectively to other systems or missions? To provide answers to these questions, this paper relies heavily on real-life, hands-on experiences ("lessons learned") gained during mission readiness testing of the Terra ground system and, most recently, the Aqua and ICESat missions. Moreover, this paper explores how lessons learned were turned into lessons applied for the upcoming Aura mission. Although derived from the EOS missions, MRT techniques and strategies can be applied to enhance the testing of other missions.

Lehtonen, Ken↗

NASA NTRS2003

Case Studies of Fatigue Life Improvement Using Low Plasticity Burnishing in Gas Turbine Engine Applications

Surface enhancement technologies such as shot peening, laser shock peening (LSP), and low plasticity burnishing (LPB) can provide substantial fatigue life improvement. However, to be effective, the compressive residual stresses that increase fatigue strength must be retained in service. For successful integration into turbine design, the process must be affordable and compatible with the manufacturing environment. LPB provides thermally stable compression of comparable magnitude and even greater depth than other methods, and can be performed in conventional machine shop environments on CNC machine tools. LPB provides a means to extend the fatigue lives of both new and legacy aircraft engines and ground-based turbines. Improving fatigue performance by introducing deep stable layers of compressive residual stress avoids the generally cost prohibitive alternative of modifying either material or design. The X-ray diffraction based background studies of thermal and mechanical stability of surface enhancement techniques are briefly reviewed, demonstrating the importance of minimizing cold work. The LPB process, tooling, and control systems are described. An overview of current research programs conducted for engine OEMs and the military to apply LPB to a variety of engine and aging aircraft components are presented. Fatigue performance and residual stress data developed to date for several case studies are presented including: * The effect of LPB on the fatigue performance of the nickel based super alloy IN718, showing fatigue benefit of thermal stability at engine temperatures. * An order of magnitude improvement in damage tolerance of LPB processed Ti-6-4 fan blade leading edges. * Elimination of the fretting fatigue debit for Ti-6-4 with prior LPB. * Corrosion fatigue mitigation with LPB in Carpenter 450 steel. *Damage tolerance improvement in 17-4PH steel. Where appropriate, the performance of LPB is compared to conventional shot peening after exposure to engine operating temperatures.

Prevey, Paul S.↗

NASA NTRSDate not supplied

Design of Space Systems to Enable In-space Assembly and Servicing

For several decades, NASA has employed in-space systems to enhance the performance and extend the useful life of operational orbital assets. In at least one case, an operational mission was not only enhanced, but enabled – the International Space Station was made possible by crewed and robotic in-space assembly, and continues to support installation and operation of new science and technology payloads. In several cases (Hubble Space Telescope, Intelsat 401, Westar and Palapa), major operational assets were rescued or repaired soon after launch when otherwise mission-ending anomalies occurred or were detected. In addition to the original rescue, Hubble was upgraded four times, enabling high-demand, world class science over four decades. More recently, two Northrop Grumman Mission Extension Vehicles have captured two Intelsat spacecraft near the end of their life and fuel capacity, to take over maneuvering duties. In spite of these recent operational achievements, and with the exception of large human exploration vehicles and large space telescopes, space architects rarely consider in-orbit servicing and assembly capabilities in their future planning. Technologies such as multi-launch mission architectures (and rendezvous and proximity operations systems), docking systems, external robotics, advanced tools, modular systems and structures, and fluid transfer systems are available today to support these missions. In-space manufacturing will soon be operational to enable resilient missions that recover from on-orbit failures, and expand the utilization of space. We envision a future that includes these capabilities, and discuss the cultural, engineering, and technological challenges to achieving this vision. We discuss the vision, the proverbial chicken and the egg (which came first, the serviceable spacecraft or the servicer?), the cost, risk, and perceptions thereof of in-space operations, a “spectrum” of cooperative servicing design considerations, and the current status of the space industry’s slow but steady march to widespread operational use of on-orbit servicing, assembly, and manufacturing.

Bo Naasz↗

NASA NTRS2025

NASA Open Science Data Repository: Open Science for Life in Space

Space biology and health data are critical for the success of deep space missions and sustainable human presence off-world. At the core of effectively managing biomedical risks is the commitment to open science principles, which ensure that data are findable, accessible, interoperable, reusable, reproducible and maximally open. The 2021 integration of the Ames Life Sciences Data Archive with GeneLab to establish the NASA Open Science Data Repository significantly enhanced access to a wide range of life sciences, biomedical-clinical, and mission telemetry data alongside existing ‘omics data from GeneLab. This paper describes the new database, its architecture, and new data streams supporting diverse data types and enhancing data submission, retrieval, and analysis. Features include the Biological Data Management Environment for improved data submission, a new user interface, controlled data access, an enhanced API, and comprehensive public visualization tools for environmental telemetry, radiation dosimetry data, and ‘omics analyses. By fostering global collaboration through its Analysis Working Groups and training programs, the Open Science Data Repository promotes widespread engagement in space biology, ensuring transparency and inclusivity in research. It supports the global scientific community in advancing our understanding of spaceflight's impact on biological systems, ensuring humans will thrive in future deep space missions.

OSDR↗

DOE OSTI2025

PERCEPTIVE: an R shiny $\underline{p}$ipelin$\underline{e}$ for the p$\underline{r}$edi$\underline{c}$tion of $\underline{ep}$igenetic modula$\underline{t}$ors $\underline{i}$n no$\underline{v}$el sp$\underline{e}$cies

Epigenetic processes are central to regulating gene expression, genome stability, and metabolic function across the tree of life; yet, their roles remain underexplored in microalgae, especially as new species continue to be identified and characterized. This is likely due to the cumbersome nature and species-dependent attributes of epigenetic wet-lab methodologies, which preclude the rapid identification of epigenetic modifications and modulators. However, there is high conservation of epigenetic processes from budding yeast to humans; in many cases, one may infer how behavior and function are epigenetically regulated in novel species by identifying epigenetic modulators, or the proteins responsible for conferring epigenetic modifications. Here, to this end, we have developed a graphical software package, titled PERCEPTIVE (pipeline for the prediction of epigenetic modulators in novel species). This platform solely uses the genomic sequence of an algal species, and preexisting information from other model organisms, to predict the epigenetic modulators and associated modifications in algae. Predictions are presented to the user in a graphical interface, which provides literature-based interpretation of results, enabling users to quickly understand potential epigenetic processes in their algal species of interest and plan follow-up experiments. To test PERCEPTIVE, we predicted epigenetic modulators in several feedstock candidate algae species. To validate these predictions, wet-lab studies were performed, including mass spectrometry; these results underscore the high accuracy of PERCEPTIVE predictions. Overall, PERCEPTIVE represents a powerful in silico tool for the research and manipulation of algal species, which does not require a priori knowledge of epigenetics and is accessible to a broad set of investigators.

59 BASIC BIOLOGICAL SCIENCES↗

NASA NTRS2011

Auto-Gopher: A Wire-Line Rotary-Hammer Ultrasonic Drill

Developing technologies that would enable NASA to sample rock, soil, and ice by coring, drilling or abrading at a significant depth is of great importance for a large number of in-situ exploration missions as well as for earth applications. Proven techniques to sample Mars subsurface will be critical for future NASA astrobiology missions that will search for records of past and present life on the planet, as well as, the search for water and other resources. A deep corer, called Auto-Gopher, is currently being developed as a joint effort of the JPL's NDEAA laboratory and Honeybee Robotics Corp. The Auto-Gopher is a wire-line rotary-hammer drill that combines rock breaking by hammering using an ultrasonic actuator and cuttings removal by rotating a fluted bit. The hammering mechanism is based on the Ultrasonic/Sonic Drill/Corer (USDC) that has been developed as an adaptable tool for many of drilling and coring applications. The USDC uses an intermediate free-flying mass to transform the high frequency vibrations of the horn tip into a sonic hammering of a drill bit. The USDC concept was used in a previous task to develop an Ultrasonic/Sonic Ice Gopher. The lessons learned from testing the ice gopher were implemented into the design of the Auto-Gopher by inducing a rotary motion onto the fluted coring bit. A wire-line version of such a system would allow penetration of significant depth without a large increase in mass. A laboratory version of the corer was developed in the NDEAA lab to determine the design and drive parameters of the integrated system. The design configuration lab version of the design and fabrication and preliminary testing results are presented in this paper

life dectection↗

NASA NTRS1975

Analysis of organic matter in sediments and meteorites and paleochemical studies of extinct and contemporary life forms

The insoluble organic materials present in the algal mats at Laguna Mormona, Baja California were studied. A series of six identical sediments collected from Mono lake which were stored under different conditions was investigated to see if any changes are observed in the lipid distribution patterns as a result of differences in sample storage conditions. Bacteria strains from Mono Lake sediments were cultured in bulk quantities and the sterol fractions from them were isolated and analyzed. Results add further support to the utility of the sterols as a chemotaxonomical tool in distinguishing and classifying these bacteria.

Calvin, M.↗

DOE OSTI2024

Transformational Sorbent Materials for a Substantial Reduction in the Energy Requirement for Direct Air Capture of CO 2

InnoSepra’s project, “Transformational Sorbent Materials for a Substantial Reduction in the Energy Requirement for Direct Air Capture of CO 2 ,” utilized computational tools, materials characterization, and lab scale testing to optimize previously identified materials to determine their performance under direct air capture conditions. InnoSepra utilized the test results to determine the energy required for regeneration and to develop a high-level process design/analysis to demonstrate the application of developed materials for direct air capture which could be utilized for future techno-economic and life-cycle analyses to fully assess the potential of the materials for direct air capture. InnoSepra also updated the State Point Data Table and completed the environmental, health, and safety (EH&S) Risk Assessment.

99 GENERAL AND MISCELLANEOUS↗

NASA NTRS2001

Making the EZ Choice

Analytical Mechanics Associates, Inc. (AMA), of Hampton, Virginia, created the EZopt software application through Small Business Innovation Research (SBIR) funding from NASA's Langley Research Center. The new software is a user-friendly tool kit that provides quick and logical solutions to complex optimal control problems. In its most basic form, EZopt converts process data into math equations and then proceeds to utilize those equations to solve problems within control systems. EZopt successfully proved its advantage when applied to short-term mission planning and onboard flight computer implementation. The technology has also solved multiple real-life engineering problems faced in numerous commercial operations. For instance, mechanical engineers use EZopt to solve control problems with robots, while chemical plants implement the application to overcome situations with batch reactors and temperature control. In the emerging field of commercial aerospace, EZopt is able to optimize trajectories for launch vehicles and perform potential space station- keeping tasks. Furthermore, the software also helps control electromagnetic devices in the automotive industry.

Source record↗

NASA NTRS2007

NASA Systems Engineering Handbook

This handbook is intended to provide general guidance and information on systems engineering that will be useful to the NASA community. It provides a generic description of Systems Engineering (SE) as it should be applied throughout NASA. A goal of the handbook is to increase awareness and consistency across the Agency and advance the practice of SE. This handbook provides perspectives relevant to NASA and data particular to NASA. The coverage in this handbook is limited to general concepts and generic descriptions of processes, tools, and techniques. It provides information on systems engineering best practices and pitfalls to avoid. There are many Center-specific handbooks and directives as well as textbooks that can be consulted for in-depth tutorials. This handbook describes systems engineering as it should be applied to the development and implementation of large and small NASA programs and projects. NASA has defined different life cycles that specifically address the major project categories, or product lines, which are: Flight Systems and Ground Support (FS&GS), Research and Technology (R&T), Construction of Facilities (CoF), and Environmental Compliance and Restoration (ECR). The technical content of the handbook provides systems engineering best practices that should be incorporated into all NASA product lines. (Check the NASA On-Line Directives Information System (NODIS) electronic document library for applicable NASA directives on topics such as product lines.) For simplicity this handbook uses the FS&GS product line as an example. The specifics of FS&GS can be seen in the description of the life cycle and the details of the milestone reviews. Each product line will vary in these two areas; therefore, the reader should refer to the applicable NASA procedural requirements for the specific requirements for their life cycle and reviews. The engineering of NASA systems requires a systematic and disciplined set of processes that are applied recursively and iteratively for the design, development, operation, maintenance, and closeout of systems throughout the life cycle of the programs and projects.

Source record↗

NASA NTRS2009

Reliability-Based Design Optimization of a Composite Airframe Component

A stochastic design optimization methodology (SDO) has been developed to design components of an airframe structure that can be made of metallic and composite materials. The design is obtained as a function of the risk level, or reliability, p. The design method treats uncertainties in load, strength, and material properties as distribution functions, which are defined with mean values and standard deviations. A design constraint or a failure mode is specified as a function of reliability p. Solution to stochastic optimization yields the weight of a structure as a function of reliability p. Optimum weight versus reliability p traced out an inverted-S-shaped graph. The center of the inverted-S graph corresponded to 50 percent (p = 0.5) probability of success. A heavy design with weight approaching infinity could be produced for a near-zero rate of failure that corresponds to unity for reliability p (or p = 1). Weight can be reduced to a small value for the most failure-prone design with a reliability that approaches zero (p = 0). Reliability can be changed for different components of an airframe structure. For example, the landing gear can be designed for a very high reliability, whereas it can be reduced to a small extent for a raked wingtip. The SDO capability is obtained by combining three codes: (1) The MSC/Nastran code was the deterministic analysis tool, (2) The fast probabilistic integrator, or the FPI module of the NESSUS software, was the probabilistic calculator, and (3) NASA Glenn Research Center s optimization testbed CometBoards became the optimizer. The SDO capability requires a finite element structural model, a material model, a load model, and a design model. The stochastic optimization concept is illustrated considering an academic example and a real-life raked wingtip structure of the Boeing 767-400 extended range airliner made of metallic and composite materials.

Patnaik, Surya N.↗

NASA NTRS2022

Directed Acyclic Graphs: A Tool for Understanding the NASA Human Spaceflight System Risks - Human System Risk Board

For over a decade, the National Aeronautics and Space Administration (NASA) has tracked and configuration-managed approximately 30 risks to astronaut health and performance that occur before, during and after spaceflight. The Human System Risk Board (HSRB), a Health and Medical Technical Authority (HMTA) Board at NASA Johnson Space Center, is the entity responsible for identifying, assessing, analyzing, and monitoring the official understanding of the risk or risk posture for each of the Human System Risks and determining – based on evaluation of the available evidence – when that risk posture changes. The ultimate purpose of tracking and researching these risks is to find ways to reduce the risk that astronaut crews face during spaceflight. Historically, research, development and operations relevant to one risk have been conducted in isolation from other risks; these individual risk ‘silos’ enabled initial characterization of each specific risk. In spaceflight however, the impact of exposure to risk for astronaut crews is cumulative, and not independent of exposures or other risks, as all the adverse effects of the spaceflight environment begin at launch, continue throughout the duration of the mission and in some cases across the lifetime of the crews. In January of 2020, the HSRB at NASA embarked on a pilot project designed to assess the potential value of causal diagramming as a tool to facilitate understanding of these cumulative and interdependent effects as applied within Human System Risk management. This process uses directed acyclic graphs as a means of formalizing a shared mental model of the causal flow of risk among Risk Board stakeholders. Initially this model was to improve communication among those stakeholders, but the potential value exceeds communication alone. The causal diagrams are formulated as directed acyclic graphs (DAGs) to function as a type of knowledge graph for reference for the board and its stakeholders. This document is a sister document to NASA/TM 20220006812 Directed Acyclic Graph Guidance Documentation (1). In that document, the basic guidance for creating and standardizing directed acyclic graphs as tools for cross-risk analysis is provided. This document contains the initial configuration managed DAGs that were created as a result of applying those principles. These initial versions were accepted by the HSRB in January of 2022. Each of the Human System Risks are represented by a DAG that has been reviewed by the larger Human Health and Performance community at NASA including life scientists, physical scientists, physicians, nurses, pharmacists, exercise specialists and more. These results show the starting point for Human System Risk DAGs as shared mental models and communication aids across the boundaries of the various expertise needed to understand and mitigate the human risks in spaceflight. Because they are a starting point, each of these DAGs can be expected to change over time as new or refined evidence becomes available. The process for updating these DAGs can be found in the JSC-66705 Human System Risk Management Plan (2) that is publicly available on the NASA Technical Reports Server.

Erik L. Antonsen↗

DOE OSTI2022

Network analysis uncovers the communication structure of SARS-CoV-2 spike protein identifying sites for immunogen design

The COVID-19 pandemic, caused by the SARS-CoV-2 virus, has triggered myriad efforts to understand the structure and dynamics of this complex pathogen. The spike glycoprotein of SARS-CoV-2 is a significant target for immunogens as it is the means by which the virus enters human cells, while simultaneously sporting mutations responsible for immune escape. These functional and escape processes are regulated by complex molecular-level interactions. Our study presents quantitative insights on domain and residue contributions to allosteric communication, immune evasion, and local- and global-level control of functions through the derivation of a weighted graph representation from all-atom MD simulations. Focusing on the ancestral form and the D614G-variant, we provide evidence of the utility of our approach by guiding the selection of a mutation that alters the spike’s stability. Taken together, the network approach serves as a valuable tool to evaluate communication “hot-spots” in proteins to guide design of stable immunogens.

60 APPLIED LIFE SCIENCES↗

DOE OSTI2020

Improving radiograph analysis throughput through transfer learning and object detection

SIGN Fracture Care International partners with surgeons in low-resource hospitals worldwide to provide access to effective orthopedic care by donating educational materials and innovatively designed surgical implants. Over two decades, SIGN’s Online Surgical Database (SOSD) has grown to contain over 500,000 medical images, with radiographs holding the majority share. One challenge in working with hospitals worldwide is that both the radiographs uploaded to the SOSD and the data entry accompanying the uploads vary in quality. To improve the accuracy of data in the SOSD, we trained a model to detect surgical implants in radiographs. We first developed a tool to automatically detect radiographs, then trained an object detection model to determine the number and placement of surgical implants visible in the radiograph. Active learning was used to generate a training set containing 2,510 radiographs with screws, nails, and plates labeled by bounding boxes. Training a model to simultaneously recognize all three classes of implants gave a low average precision (AP) for the plate class, likely due to the low number of plate instances in our training set and the large variety of surgical plates used by SIGN-partnered surgeons. Applying standard image augmentation techniques to increase the plate count in our training set did not appreciably increase the AP of plate detection. To improve plate detection, we redrew the bounding boxes to account for correlations between the screw and plate classes. Training one model to detect nails and screws and a separate model to detect plates increased the AP of plate detection by 78.8 percentage points. The AP of each class was 80.7% for screws, 93.6% for nails, and 92.6% for plates; meanwhile, the sensitivity was 92% for screws, 86% for nails, and 81% for plates. We show that object detection methods can be used to detect surgical implants in radiographs of varying quality; however, the detection ability is dependent on the type of implant, and some implants, in our case plates, must be treated differently than others. Such tools can improve the throughput of radiograph analysis, assisting physicians and surgeons with the treatment of bone fractures.

60 APPLIED LIFE SCIENCES↗