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At least 1,117 records · Page 62

RCSB Protein Data Bank (RCSB.org): delivery of experimentally-determined PDB structures alongside one million computed structure models of proteins from artificial intelligence/machine learning

Abstract The Research Collaboratory for Structural Bioinformatics Protein Data Bank (RCSB PDB), founding member of the Worldwide Protein Data Bank (wwPDB), is the US data center for the open-access PDB archive. As wwPDB-designated Archive Keeper, RCSB PDB is also responsible for PDB data security. Annually, RCSB PDB serves >10 000 depositors of three-dimensional (3D) biostructures working on all permanently inhabited continents. RCSB PDB delivers data from its research-focused RCSB.org web portal to many millions of PDB data consumers based in virtually every United Nations-recognized country, territory, etc. This Database Issue contribution describes upgrades to the research-focused RCSB.org web portal that created a one-stop-shop for open access to ∼200 000 experimentally-determined PDB structures of biological macromolecules alongside >1 000 000 incorporated Computed Structure Models (CSMs) predicted using artificial intelligence/machine learning methods. RCSB.org is a ‘living data resource.’ Every PDB structure and CSM is integrated weekly with related functional annotations from external biodata resources, providing up-to-date information for the entire corpus of 3D biostructure data freely available from RCSB.org with no usage limitations. Within RCSB.org, PDB structures and the CSMs are clearly identified as to their provenance and reliability. Both are fully searchable, and can be analyzed and visualized using the full complement of RCSB.org web portal capabilities.

59 BASIC BIOLOGICAL SCIENCES↗

The Nature of Insoluble Organic Matter in Sutter’s Mill and Murchison Carbonaceous Chondrites: Testing the Effect of X-ray Computed Tomography (XCT) and Exploring Parent Body Organic Molecular Evolution

This study analyzed samples of the Murchison and Sutter’s Mill carbonaceous chondrite meteorites in support of the future analysis of samples returned from the asteroid (10155) Bennu by the OSIRIS-REx (Origins, Spectral Interpretation, Resource Identification, and Security–Regolith Explorer) mission. Focusing specifically on the insoluble organic matter (IOM), this study establishes that a total of 1.3 g of bulk sample from a single chondritic meteorite is sufficient to obtain a wide range of cosmochemical information, including light element analysis (H, C, and N), isotopic analysis (D/H, 13 C/ 12 C, and 15 N/ 14 N), and X-ray fluorescence spectroscopy for major elemental abundances. IOM isolated from the bulk meteorite samples was analyzed by light element and isotopic analysis as described above, 1 H and 13 C solid-state nuclear magnetic resonance spectroscopy, Raman spectroscopy, and complete noble gas analyses (abundances and isotopes). The samples studied included a pair from Murchison (CM2), one of which had been irradiated with high-energy X-rays in the course of computed tomographic imaging. No differences between the irradiated and non-irradiated Murchison samples were observed in the many different chemical and spectroscopic analyses, indicating that any X-ray–derived sample damage is below levels of detection. Elemental, isotopic, and molecular spectroscopic data derived from IOM isolated from the Sutter’s Mill sample reveals evidence that this meteorite falls into the class of heated CM chondrites.

planetary science↗

Enterprise Credentialing Service Statement of Work (SOW)

The scope of this project includes providing professional services in support of the development and deployment of an Enterprise Credentialing Service for the Department of Energy (DOE) National Nuclear Security Administration (NNSA), which will be used for issuing and managing credentials used for authentication, digital signature, and encryption functions by users, applications, and devices in a closed computing environment. The Seller shall provide subject matter expertise for the design and deployment of the technologies and processes that comprise the Enterprise Credentialing Service, which will include a public key infrastructure (PKI) and a credential management system (CMS) that issues and manages PKI-based smartcard credentials. The Enterprise Credentialing Service will support approximately 17,000 users at 15 DOE NNSA sites and laboratories located across the continental United States.

97 MATHEMATICS AND COMPUTING↗

Cyber-Informed Engineering Adoption in University Engineering Programs: An Overview of CIE Integration Successes at Nine U.S. Educational Institutions

This report examines the adoption of Cyber-Informed Engineering (CIE) in university engineering programs, driven by the need to protect critical energy infrastructure from adversarial threats. CIE equips current and future engineers and technicians with the necessary mindset, skills, and competencies to enhance the resilience of engineered systems against cyber attacks. This report highlights nine academic partners who are incorporating CIE into their curricula through various approaches, including lectures, courses, and certificates.

42 ENGINEERING↗

Rapid CFD Using Machine Learning Algorithms (CRADA Final Report)

This is a collaborative effort between Lawrence Livermore National Security, LLC as manager and operator of Lawrence Livermore National Laboratory (“LLNL”) and Guardian Glass, LLC ("Guardian Glass") to develop a fast-running emulator of the reactive Computational Fluid Dynamics (“CFD”) simulations needed to understand the complex reactions and flows in the glass melting, fining, and forming subprocesses. This CRADA project is sponsored under the High-Performance Computing for Manufacturing (“HPC4Mfg”) Program of the Department of Energy’s Advanced Manufacturing Office (“AMO”) within the Energy Efficiency and Renewable Energy (“EERE”) Office.

36 MATERIALS SCIENCE↗

Flow computations for the Space Shuttle in ascent mode using thin-layer Navier-Stokes equations

The application of CFD techniques to the Space Shuttle ascent environment was aggressively undertaken in the wake of the Challenger accident in order to secure a major new source of aerodynamic information for both the nominal and mission-abort conditions, using Cray 2 and Cray YMP supercomputers. Due to the integrated vehicle's complexity, the 'chimera' composite grid approach, in which an overset body-conforming grid is used to represent each geometric component as well as special flow regions, was employed for the discretization process. Calculation results exhibit general agreement in both flow structure and surface pressure with the available wind tunnel and flight-test results.

Martin, F. W., Jr.↗

Calculation of Centrally Loaded Thin-Walled Columns Above the Buckling Limit

When thin-walled columns formed from flanged sheet, such as used in airplane construction, are subjected to axial load, their behavior at failure varies according to the slenderness ratio. On long columns the axis deflects laterally while the cross section form is maintained; buckling results. The respective breaking load in the elastic range is computed by Euler's formula and for the plastic range by the Engesser- Karman formula. Its magnitude is essentially dependent upon the length. On intermediate length columns, especially where open sections are concerned, the cross section is distorted while the cross section form is preserved; twisting failure results. The buckling load in twisting is calculated according to Wagner and Kappus. On short columns the straight walls of low-bending resistance that form the column are deflected at the same time that the cross section form changes - buckling occurs without immediate failure. Then the buckling load of the total section computable from the buckling loads of the section walls is not the ultimate load; quite often, especially on thin-walled sections, it lies considerably higher and is secured by tests. Both loads, the buckling and the ultimate load are only in a small measure dependent upon length. The present report is an attempt to theoretically investigate the behavior of such short, thin-walled columns above the buckling load with the conventional calculating methods.

Reinitzhuber, F.↗

System and method for leveraging human physiological traits to control microprocessor frequency

A system and method for leveraging physiological traits to control microprocessor frequency are disclosed. In some embodiments, the system and method may optimize, for example, a particular processor-based architecture based on, for example, end user satisfaction. In some embodiments, the system and method may determine, for example, whether their users are satisfied to provide higher efficiency, improved reliability, reduced power consumption, increased security, and a better user experience. The system and method may use, for example, biometric input devices to provide information about a user's physiological traits to a computer system. Biometric input devices may include, for example, one or more of the following: an eye tracker, a galvanic skin response sensor, and/or a force sensor.

97 MATHEMATICS AND COMPUTING↗

14 Steps to Creating Value in Cost and Schedule Resources for Nuclear Waste Management - 20188

While Waste Management budgets are shrinking, DOE required cost and schedule controls are becoming increasingly stringent. At the same time, there is a scarcity of adept, qualified, and competent projects controls staff who both understand nuclear waste management and are capable of addressing today's cost and schedule challenges. In response, we have developed a systematic approach to training and mentoring project controls staff. The approach is based on the observations and lessons learned on projects, both successful and unsuccessful, over the past 20 years. During that time, we evaluated staff development and used that experience to design a program that progresses the maturity, knowledge and experience of the individual. The program is based on the unique needs of cost and schedule specialists while incorporating the best leadership and managerial applications. The system is not limited to developing individual software skills, which is a primary focus of many project controls training programs. Instead, our system develops an individual's soft and hard skill sets. The system develops the user's skill, talent, attitude, and drive to do the best job possible. It focuses on all aspects of becoming a more productive technical team while accepting responsibility for individual growth. It also enhances the project controls team by setting up checks and balances that everyone is aware of and participates in. The system is based on 14 steps of increasing complexity in knowledge and application. The system clarifies roles, responsibilities and expectations. It helps eliminate uncertainty and reduces stress on staff and managers. It contains everyday routine actions and is simple to implement. It allows the development of a consistent rhythm to staff growth and development. Mastering the steps will allow the user to achieve excellence in cost and schedule control. The 14 steps are: 1 - Key Performance Objectives, 2 - Check Lists, 3 - Desktop Guides, 4 - System Description, 5 - Procedures, 6 - Software and On the Job Training (OTJ), 7 - Traceability Checks, 8 - Surveillances, 9 - 32 Criteria, 10 - The Contract, 11 - Customer/Government Guidance, 12 - Training and Mentoring Others, 13 - Master your weekly and daily schedules, 14 - Improving your interpersonal skills. Application and mastery of this system will produce better cost and schedule control results. Your project controls staff will write better reports, analyze data better, make better use of their time, and be more valuable to decision makers. If followed rigorously, our system will produce a great project controls team, which is invaluable to the success of each project. (authors)

12 MANAGEMENT OF RADIOACTIVE AND NON-RADIOACTIVE W↗

LANL Institutional Computing Report: Towards a digital twin of Arctic sea ice

Our goal is to develop a digital twin of Arctic sea ice that combines high-resolution predictive modeling with observational products. This effort will provide an optimized model for use in seasonal to sub-seasonal forecasting and a tool for policymakers to better anticipate, plan for, and mitigate the national security impacts of rapidly changing Arctic conditions. The modeling component uses the Discrete Element Model for Sea Ice (DEMSI), which uses discrete elements to represent the sea ice with an explicit representation of forces between them.

58 GEOSCIENCES↗

Consequence Prioritization Process for Potential High Consequence Events (HCE)

This document describes the process for Consequence Prioritization, the first phase of the Consequence-Driven Cyber-Informed Engineering (CCE) framework. The primary goal of Consequence Prioritization is to identify potential disruptive events that would significantly inhibit an organization’s ability to provide the critical services and functions deemed fundamental to their business mission. These disruptive events, defined as High Consequence Events (HCE), include both events that have occurred or could be realized through an attack of critical infrastructure owner assets. While other efforts have been initiated to identify and mitigate disruptive events at the national security level, such as Presidential Policy Directive 41 (PPD-41), this process is intended to be used by individual organizations to evaluate events that fall below the threshold for a national security. Described another way, Consequence Prioritization considers threats greater than those addressable by standard cyber-hygiene and includes the consideration of events that go beyond a traditional continuity of operations (COOP) perspective. Finally, Consequence Prioritization is most successful when organizations adopt a multi-disciplinary approach, engaging both cyber security and engineering expertise, as in-depth engineering perspectives are required to recognize and characterize and mitigate HCEs. Figure 1 provides a high-level overview of the prioritization process.

97 MATHEMATICS AND COMPUTING↗

Software Quality Assurance Plan for the Geochemist’s Workbench®

The Geochemist’s Workbench® (GWB) Release 10.0.10 is a geochemical modeling suite for simulating the reactive fate and transport of radionuclides and other metals in aqueous systems including groundwater, surface water, soil, and sediment. At the Savannah River National Laboratory, GWB plays an important role in the preparation of Performance Assessments involving cementitious materials. The software classification for GWB is Level “C.” GWB was purchased from Aqueous Solutions LLC and came into existence outside of the Software Quality Assurance procedures; therefore, it is considered “existing/acquired” software. This Software Quality Assurance Plan addresses verification techniques and the required life cycle components for Level “C” existing/acquired software (i.e., “Evaluation,”“Configuration Control,” and “Cyber Security Analysis”) with other elements optionally applied using a graded approach.

58 GEOSCIENCES↗

University of Wisconsin-Madison Campus-Wide Deep Dive

In June 2019, staff members from the Engagement and Performance Operations Center (EPOC) and the University of Wisconsin–Madison Division of Information Technology (UW DoIT) met with researchers for the purpose of a Campus-Wide Deep Dive. The goal of this meeting was to help characterize the requirements for a number of research and educational activities, and to enable cyberinfrastructure support staff to better understand the needs of researchers. Material for this event includes both the written documentation from nine projects, and the campus technology organization, but also a writeup of the discussion that took place in person. The Case Studies highlighted the ongoing challenges that the University of Wisconsin–Madison will face in the coming years to support, encourage, and grow several emerging and established use cases. The University of Wisconsin–Madison received an NSF award to help support upgrading the campus network in 2012, specifically to include a Science DMZ and monitoring equipment. However, there is a currently identified need to refresh equipment and identify and work more closely with current campus researchers. Updates to the state network, as well as the campus, are being planned and were discussed during this event. As part of the overall review, the necessity of working more closely with research teams as they are still in the planning phase was discussed so that DoIT can better understand and adapt to changes in requirements as the research demands grow over time . Additional challenges with securing sensitive data, cybersecurity, and supporting collaborations were also discussed.

97 MATHEMATICS AND COMPUTING↗

Advanced Inversion Algorithms for Scientific Data Analysis [Slides]

Accurate subsurface characterization is crucial for all subsurface energy exploration. Accurate characterization of uncertain subsurface properties is also critical for monitoring storage of CO 2 , estimating pathways of subsurface contaminant transport, and monitoring potential nuclear explosions for treaty verification. This research will advance our world-leading subsurface sensing capabilities that are crucial for LANL missions in energy security (geothermal energy, oil/gas resource exploration, geologic carbon storage) and nuclear security (facility monitoring, detonation detection).

47 OTHER INSTRUMENTATION↗

Evaluation of Digital Twin Modeling and Simulation

A digital twin has intelligent modules that continuously monitor the condition of the individual components and the whole of a system. Digital twins can provide nuclear power plants (NPP) operators an unprecedented level of monitoring, control, supervision, and security by contributing a greater volume of data for more comprehensive data analysis and increased accuracy of insights and predictions for decision making throughout the entire NPP lifecycle. NPP operators and managers have historically relied on limited, second hand or incomplete data. With proper implementation, digital twins can provide a central hub of all intel that allows for a multidisciplinary view of an NPP. This equips operators and managers with the ability to have more information, context, and intel that can be used for greater granularity during planning and decision making. Digital twins can be used in many activities as the technology has many different concepts surrounding it. From the various definitions of a digital twin within the industry, digital twins can be differentiated by levels of integration/automation. The three main models include digital model, digital shadow, and digital twin. Digital twins offer many potential advancements to the nuclear industry that could reduce costs, improve designs, provide safer operation, and improve their overall security.

22 GENERAL STUDIES OF NUCLEAR REACTORS↗