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DOE OSTI2016

Workshop Report: Systems Biology for Organotypic Cell Cultures

Translating in vitro biological data into actionable information related to human health holds the potential to improve disease treatment and risk assessment of chemical exposures. While genomics has identified regulatory pathways at the cellular level, translation to the organism level requires a multiscale approach accounting for intra-cellular regulation, inter-cellular interaction, and tissue/organ-level effects. Tissue-level effects can now be probed in vitro thanks to recently developed systems of three-dimensional (3D), multicellular, “organotypic” cell cultures, which mimic functional responses of living tissue. However, there remains a knowledge gap regarding interactions across different biological scales, complicating accurate prediction of health outcomes from molecular/genomic data and tissue responses. Systems biology aims at mathematical modeling of complex, non-linear biological systems. We propose to apply a systems biology approach to achieve a computational representation of tissue-level physiological responses by integrating empirical data derived from organotypic culture systems with computational models of intracellular pathways to better predict human responses. Successful implementation of this integrated approach will provide a powerful tool for faster, more accurate and cost-effective screening of potential toxicants and therapeutics. On September 11, 2015, an interdisciplinary group of scientists, engineers, and clinicians gathered for a workshop in Research Triangle Park, North Carolina, to discuss this ambitious goal. Participants represented laboratory-based and computational modeling approaches to pharmacology and toxicology, as well as the pharmaceutical industry, government, non-profits, and academia. Discussions focused on identifying critical system perturbations to model, the computational tools required, and the experimental approaches best suited to generating key data.

3D models↗

DOE OSTI2016

Systems Biology for Organotypic Cell Cultures

59 BASIC BIOLOGICAL SCIENCES↗

DOE OSTI2018

Biological System Characterization to Address Biofouling of the 200 West Pump-and-Treat Injection Wells

Contaminated groundwater in the 200W Area of the Hanford Site is being treated ex situ by the 200W Pump-and-Treat (P&T) Facility and the subsurface plume is under hydraulic containment. The 200W P&T Facility removes several contaminants of concern from groundwater, as well as nitrate. Facility capacity is constrained by biofouling of injection wells, which limits the ability to efficiently inject treated effluent water in to the subsurface. In a previous report, Thomle et al. provided a comprehensive engineering assessment of biofouling at the 200W P&T Facility. In that report, both operational changes and facility modifications were recommended to help mitigate the symptoms and consequences of biofouling by expanding treatment processes in the plant. The 200W P&T Facility’s fluidized bed reactor (FBR) is a biological treatment system that has been identified as a principal source of biofouling. Carbon and nutrient inputs to the FBR are needed to sustain high rates of activity, but can also be responsible for microbial proliferation in the effluent water distribution pipeline, and loss injection well capacity. The primary objective of this work was to fill critical knowledge gaps associated with the FBR that can be used to optimize the biological system for continuous operation and sustained performance.

54 ENVIRONMENTAL SCIENCES↗

DOE OSTI2023

Status of HEU-Pb in the International Criticality Safety Benchmark Evaluation Project (ICSBEP) Handbook

The Department of Energy invests tens of millions of dollars each year to develop the next generation of nuclear engineering modeling & simulation (M&S) tools. These tools are used to analyze advanced reactor designs and the safety of current nuclear operations. As computers become more powerful, we are able to enhance resolution in our calculations. This improved resolution is taking us to a point where the limitations of simulation capability are in the quality of data, including our ability to quantify the uncertainty and sensitivity of the data. In order to model systems of interest with increasing accuracy, the industry must improve key nuclear data measurements. Thus, M&S tools need evaluated and quality-assured experimental data for validation purposes. The International Criticality Safety Benchmark Evaluation Project (ICSBEP) compiles and evaluates experiment data in a handbook that can be used by criticality safety engineers and others to validate computer codes and cross-section libraries at nuclear facilities. Both critical and subcritical experiments are included in the handbook. Figure 1 organizes all the benchmark evaluations that have been performed by the isotope of interest, in this case Pb, and the average neutron energy the system. Compared to other isotopes of interest for nuclear applications, there are few benchmark evaluations for Pb systems. The lack of integral measurements to determine errors in Pb cross-section data has caused the latest nuclear cross-section libraries to over/underestimate k eff compared to experimental results. Therefore, this evaluation fills an important knowledge gap in benchmark evaluations.

73 NUCLEAR PHYSICS AND RADIATION PHYSICS↗

DOE OSTI2017

Exploiting semantics of temporal multi-scale methods to optimize multi-level mesh partitioning: OPTIMIZED MESH PARTITIONING FOR MULTI-SCALE METHODS

Not provided.

Engineering↗

DOE OSTI2021

Dr. Cecil Lubitz (1925–2021)

Dr. Cecil Lubitz passed away on March 5, 2021 at his home in upstate New York. A graduate of the Class of 1945 from the Naval Academy, Cecil served in the US Navy until 1947 after which he earned a MS in electrical engineering (1949) and a PhD in Physics (1960) from the University of Michigan. Following graduate school, Cecil came to work at Knolls Atomic Power Laboratory (KAPL) on applied nuclear physics in the Naval Nuclear Propulsion Program (NNPP). Cecil worked at KAPL for 54 years and had an impactful career with many substantial contributions to the NNPP, national and global nuclear data communities.

96 KNOWLEDGE MANAGEMENT AND PRESERVATION↗

DOE OSTI2021

On-chip spectrometers using stratified waveguide filters

We present an ultra-compact single-shot spectrometer on silicon platform for sparse spectrum reconstruction. It consists of 32 stratified waveguide filters (SWFs) with diverse transmission spectra for sampling the unknown spectrum of the input signal and a specially designed ultra-compact structure for splitting the incident signal into those 32 filters with low power imbalance. Each SWF has a footprint less than 1 µm × 30,µm, while the 1 × 32 splitter and 32 filters in total occupy an area of about 35 µm × 260 µm, which to the best of our knowledge, is the smallest footprint spectrometer realized on silicon photonic platform. Experimental characteristics of the fabricated spectrometer demonstrate a broad operating bandwidth of 180 nm centered at 1550 nm and narrowband peaks with 0.45 nm Full-Width-Half-Maximum (FWHM) can be clearly resolved. This concept can also be implemented using other material platforms for operation in optical spectral bands of interest for various applications.

42 ENGINEERING↗

DOE OSTI2014

Offshore Code Comparison Collaboration, Continuation within IEA Wind Task 30: Phase II Results Regarding a Floating Semisubmersible Wind System: Preprint

Offshore wind turbines are designed and analyzed using comprehensive simulation tools (or codes) that account for the coupled dynamics of the wind inflow, aerodynamics, elasticity, and controls of the turbine, along with the incident waves, sea current, hydrodynamics, and foundation dynamics of the support structure. This paper describes the latest findings of the code-to-code verification activities of the Offshore Code Comparison Collaboration, Continuation (OC4) project, which operates under the International Energy Agency (IEA) Wind Task 30. In the latest phase of the project, participants used an assortment of simulation codes to model the coupled dynamic response of a 5-MW wind turbine installed on a floating semisubmersible in 200 m of water. Code predictions were compared from load-case simulations selected to test different model features. The comparisons have resulted in a greater understanding of offshore floating wind turbine dynamics and modeling techniques, and better knowledge of the validity of various approximations. The lessons learned from this exercise have improved the participants? codes, thus improving the standard of offshore wind turbine modeling.

17 WIND ENERGY↗

DOE OSTI2023

Review of internal and external surface finishing technologies for additively manufactured metallic alloys components and new frontiers

Surface finishing in additive manufacturing (AM) is a technological bottleneck. The field of surface finishing of AM parts is vast because it not only focuses on roughness reduction in the hard-to-access internal surfaces but also includes the scope of adding coatings and sensors. Even though metal AM component is reaching the density and bulk microstructure at par or even better than conventionally produced components, adverse impact of surface roughness and imperfections is becoming the major obstruction. It is observed that external and internal surface roughness of AM components is a high probability cause of many unavoidable issues such as corrosion, incorrect tolerance estimations during the build stage, and the fatigue failure of parts before the expected life cycle. At present, AM field mainly focuses on improving and enhancing the internal and external surface roughness to pass the stringent qualification requirements for actual applications. To address these challenges, researchers worldwide are conducting many experiments and developing different surface finishing techniques. This paper reviews the state-of-the-art knowledge and processes of different surface finishing technology that can be applied to AM metal components. This article mainly highlights several liquid-based surfaces finishing approaches to develop promising surface microstructures on interior and exterior surfaces as a micromachining tool. The future of making strong and self-monitoring AM component requires broadening of surface finishing field and including advanced topics such as coatings and adding sensor technology. We also discuss new frontiers and the scope of future work in the surface finishing field to bring attention to related concerns and possibilities associated with making smart and strong AM components for twenty-first-century integrated engineering systems.

36 MATERIALS SCIENCE↗

DOE OSTI2021

Real-time characterization of particles produced by laser ablation for analysis by inductively coupled plasma mass spectrometry

Not Available

Suski, Kaitlyn J.↗

DOE OSTI2017

Modeling human comprehension of data visualizations

This project was inspired by two needs. The first is a need for tools to help scientists and engineers to design effective data visualizations for communicating information, whether to the user of a system, an analyst who must make decisions based on complex data, or in the context of a technical report or publication. Most scientists and engineers are not trained in visualization design, and they could benefit from simple metrics to assess how well their visualization's design conveys the intended message. In other words, will the most important information draw the viewer's attention? The second is the need for cognition-based metrics for evaluating new types of visualizations created by researchers in the information visualization and visual analytics communities. Evaluating visualizations is difficult even for experts. However, all visualization methods and techniques are intended to exploit the properties of the human visual system to convey information efficiently to a viewer. Thus, developing evaluation methods that are rooted in the scientific knowledge of the human visual system could be a useful approach. In this project, we conducted fundamental research on how humans make sense of abstract data visualizations, and how this process is influenced by their goals and prior experience. We then used that research to develop a new model, the Data Visualization Saliency Model, that can make accurate predictions about which features in an abstract visualization will draw a viewer's attention. The model is an evaluation tool that can address both of the needs described above, supporting both visualization research and Sandia mission needs.

97 MATHEMATICS AND COMPUTING↗

DOE OSTI2013

Build Less Code, Deliver More Science: An Experience Report on Composing Scientific Environments using Component-based and Commodity Software Platforms

Modern scientific software is daunting in its diversity and complexity. From massively parallel simulations running on the world’s largest supercomputers, to visualizations and user support environments that manage ever growing complex data collections, the challenges for software engineers are plentiful. While high performance simulators are necessarily specialized codes to maximize performance on specific supercomputer architectures, we argue the vast majority of supporting infrastructure, data management and analysis tools can leverage commodity open source and component-based technologies. This approach can significantly drive down the effort and costs of building complex, collaborative scientific user environments, as well as increase their reliability and extensibility. In this paper we describe our experiences in creating an initial user environment for scientists involved in modeling the detailed effects of climate change on the environment of selected geographical regions. Our approach composes the user environment using the Velo scientific knowledge management platform and the MeDICi Integration Framework for scientific workflows. These established platforms leverage component-based technologies and extend commodity open source platforms with abstractions and capabilities that make them amenable for broad use in science. Using this approach we were able to deliver an operational user environment capable of running thousands of simulations in a 7 month period, and achieve significant software reuse.

Gorton, Ian↗

DOE OSTI2025

Hungary 908 Event - Risk Based Graded Approach to ITM

This presentation, Risk-Based, Graded Approach to Insider Threat Mitigation: Human Measures, introduces a structured framework for managing insider threat risk using internationally recognized guidance from the International Atomic Energy Agency (IAEA) Nuclear Security Series No. 8-G (Rev. 1) and the Joint Statement on Mitigating Insider Threats (INFCIRC/908). The presentation emphasizes that effective insider threat mitigation (ITM) depends on both positional controls, which manage inherent risk based on access, authority, and knowledge, and human measures, which address residual risk reflected in behavior, motivation, and reliability. Using a risk-informed and graded approach, the presentation outlines methods for identifying and prioritizing high-risk positions, applying layered organizational controls, and integrating human reliability mechanisms such as the Behavior Observation Program (BOP), Fitness-for-Duty (FFD) evaluations, Employee Assistance Programs (EAP), and Nuclear Security Culture (NSC). The human-focused portion examines behavioral and organizational indicators of opportunity, vulnerability, motivation, and crisis, demonstrating how early detection, deterrence, and response can prevent insider events. The session concludes with a case review of the Millstone Nuclear Power Station incident involving engineer George Galatis. The case illustrates how weak leadership and a poor safety culture can create conditions for failure and how a comprehensive ITM framework could have altered the outcome. The objective of this presentation is to help practitioners apply a risk-based, graded philosophy to human factors and promote a culture of accountability, communication, and resilience within nuclear organizations.

99 - GENERAL AND MISCELLANEOUS↗

DOE OSTI2013

Long-term Performance of Engineered Barrier Systems (PEBS) - An International EURATOM Project on the Study and Testing of Engineered Barriers for the Final Disposal of HAW Using PEBS as an Example - 13299

The main aim of the PEBS project is to evaluate the sealing and barrier performance of the EBS over time, through development of a comprehensive approach involving experiments, model development, and consideration of the potential impacts on long-term safety functions. The experiments and models cover the full range of conditions, from initial emplacement of wastes (high heat generation and EBS re-saturation) through to later stage establishment of near steady state conditions, i.e. full re-saturation and thermal equilibrium with the host rock. These aspects will be integrated in a manner that will lead to greater certainty and thus greater confidence regarding the development from the initial transient state of the EBS to its long-term state, which provides the required isolation of the wastes. The work proposed within the project builds on existing knowledge and experience generated during recent years and supported by ongoing national and EC research programs. The project aims to provide a more complete description of the THM and THMC (thermo-hydro-mechanical- chemical) evolution of the EBS system, a more quantitative basis for relating the evolutionary behavior to the safety functions of the system, and a further clarification of the significance of residual uncertainties for long-term performance assessment. The importance of uncertainties arising from potential disagreement between the process models and the laboratory and in-situ experiments to be performed within PEBS, and their implications for an extrapolation of the results, will be reviewed, with particular emphasis on possible impacts on safety functions. In addition to the scientific-technical aims, the consortium will disseminate the basic findings to the broad scientific community within the EU, China and Japan, use expertise gained for public information purposes, and promote knowledge and technology transfer through training. (authors)

12 MANAGEMENT OF RADIOACTIVE AND NON-RADIOACTIVE W↗

DOE OSTI2024

Minimization of Measurement Uncertainty in Optical Frequency Domain Reflectometry

Optical frequency domain reflectometry (OFDR) is a technique for interrogating optical fiber sensors to generate relative, quasi-distributed measurements. Although Optical frequency domain reflectometry (OFDR) is increasingly being adopted for aerospace, energy production, and structural monitoring applications, the quantification of uncertainty for OFDR measurements has not been developed beyond sparse empirical relationships. To address this knowledge gap, an uncertainty metric for OFDR measurements was developed. This uncertainty metric was applied to weight the edges between OFDR measurements on directed correlation graphs and analyzed to minimize the cumulative uncertainty. In conclusion, this work is the first to propose an uncertainty metric for OFDR and provides a generalized mathematical framework for optimizing OFDR hardware selection, optical fiber sensor selection, and postprocessing strategy.

42 ENGINEERING↗

DOE OSTI2017

Superacid-Treated Silicon Surfaces: Extending the Limit of Carrier Lifetime for Photovoltaic Applications

Minimizing carrier recombination at interfaces is of extreme importance in the development of high-efficiency photovoltaic devices and for bulk material characterization. Here, we investigate a temporary room temperature superacid-based passivation scheme, which provides surface recombination velocities below 1 cm/s, thus placing our passivation scheme amongst state-of-the-art dielectric films. Application of the technique to high-quality float-zone silicon allows the currently accepted intrinsic carrier lifetime limit to be reached and calls its current parameterization into doubt for 1 Ω·cm n-type wafers. The passivation also enables lifetimes up to 65 ms to be measured in high-resistivity Czochralski silicon, which, to our knowledge, is the highest ever measured in Czochralski-grown material. The passivation strategies developed in this work will help diagnose bulk lifetime degradation under solar cell processing conditions and also help quantify the electronic quality of new passivation schemes.

42 ENGINEERING↗

DOE OSTI2013

Scale-Up of CdTe Photovoltaic Device Processes for Commercial Application: Cooperative Research and Development (Final Report)

Through this Cooperative Research and Development Agreement, NREL and PrimeStar Solar will work together to scale up the NREL CdTe photovoltaic process from the laboratory to produce photovoltaic devices in a size that is commercially viable. The work in this phase will focus on the transference of NREL CdTe device fabrication techniques to PrimeStar Solar. NREL and PrimeStar Solar will engage in a series of technical exchange meetings and laboratory training sessions to transfer the knowledge of CdTe PV film growth from NREL to PrimeStar Solar. PrimeStar Solar will grow thin films on PrimeStar Solar equipment and interleave them with NREL-grown films in an effort to develop a commercial scale process on PrimeStar Solar equipment. Select NREL film growth equipment will be upgraded either by PrimeStar Solar or at PrimeStar Solar's expense to increase equipment reliability and throughput.

14 SOLAR ENERGY↗

DOE OSTI2025

Cell-Free-Based Thermophilic Biocatalyst for the Synthesis of Amino Acids from One-Carbon Feedstocks

Bioproduction from one-carbon compounds, such as formate, is an attractive prospect due to reduced energy requirements and the possibility for using CO 2 as a sustainable feedstock. Formate-fixing pathways engineered using Escherichia coli lysate-based cell-free expression (CFE) biocatalysts have the potential to route 100% of feedstock carbon toward chemical synthesis but are undermined by siphoning of in-pathway metabolites and cofactors by the CFE background metabolism. To address this limitation, we engineer a CFE-based thermophilic multienzyme biocatalyst for the synthesis of serine and glycine from formate, bicarbonate, and ammonia. After expression of the thermophilic formate-to-serine pathway in a one-pot reaction, the mesophilic E. coli CFE background machinery is removed by simple heat denaturation, eliminating the siphoning of cofactors, inpathway metabolites, and products. After bioprocess optimization, including pathway gene expression duration and chemical synthesis temperature, we achieve near stoichiometric conversion of formate and bicarbonate to serine and glycine, reaching 97% of stoichiometric yield. The use of a moderately thermophilic biocatalyst allowed chemical synthesis to take place at mesophilic temperatures, enabling the balance of optimal enzyme activity with minimal metabolite/cofactor thermal degradation. In a fed-batch experiment, the biocatalyst shows sustained chemical synthesis rates for 8 h, paving the way toward a continuous bioprocess. Finally, a sensitivity analysis of cofactor usage revealed that the most expensive cofactors, THF and NADPH, can be reduced by 5-fold without significantly lowering product yields. To the best of our knowledge, this is the first instance of expressing a thermophilic pathway in an E. coli lysate-based CFE system to generate a thermophilic biocatalyst for use at mesophilic temperatures. The CFEbased thermophilic formate-to-serine biocatalyst triples the combined serine and glycine yield previously obtained by a CFE-based mesophilic formate-to-serine biocatalyst (30%), and quadruple the yield obtained by a purified enzyme system (22%). Ultimately, this work opens the door to using E. coli lysate-based CFE for thermophilic biocatalyst generation to achieve high chemical synthesis yields.

bacteria↗