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At least 811 records · Page 45

A cell type-aware framework for nominating non-coding variants in Mendelian regulatory disorders

Abstract Unsolved Mendelian cases often lack obvious pathogenic coding variants, suggesting potential non-coding etiologies. Here, we present a single cell multi-omic framework integrating embryonic mouse chromatin accessibility, histone modification, and gene expression assays to discover cranial motor neuron (cMN)cis-regulatory elements and subsequently nominate candidate non-coding variants in the congenital cranial dysinnervation disorders (CCDDs), a set of Mendelian disorders altering cMN development. We generate single cell epigenomic profiles for ~86,000 cMNs and related cell types, identifying ~250,000 accessible regulatory elements with cognate gene predictions for ~145,000 putative enhancers. We evaluate enhancer activity for 59 elements using an in vivo transgenic assay and validate 44 (75%), demonstrating that single cell accessibility can be a strong predictor of enhancer activity. Applying our cMN atlas to 899 whole genome sequences from 270 genetically unsolved CCDD pedigrees, we achieve significant reduction in our variant search space and nominate candidate variants predicted to regulate known CCDD disease genesMAFB, PHOX2A, CHN1, andEBF3– as well as candidates in recurrently mutated enhancers through peak- and gene-centric allelic aggregation. This work delivers non-coding variant discoveries of relevance to CCDDs and a generalizable framework for nominating non-coding variants of potentially high functional impact in other Mendelian disorders.

Science & Technology - Other Topics↗

CMS Experience with Adoption of the Community supported DD4hep Toolkit

DD4hep is an open-source software toolkit that provides comprehensive and complete generic detector descriptions for high energy physics (HEP) detectors. The Compact Muon Solenoid collaboration (CMS) has recently evaluated and adopted DD4hep to replace its custom detector description software. CMS has demanding software requirements as a very large, longrunning experiment that must support legacy geometries and study many possible upgraded detector designs of a constantly evolving detector that will be taking data for many years to come. CMS has chosen DD4hep since it is a high-quality, community-supported solution that will benefit from continuing modernization and maintenance. This presentation will discuss the issues of DD4hep adoption, the advantages and disadvantages of the various design choices, performance results, and the integration of the plugin systems from CMS and Gaudi, another open-source software framework. Recommendations about DD4hep based upon the CMS use cases will also be presented.

Vuosalo, Carl↗

Uncertainty Quantification for Multiphase Computational Fluid Dynamics Closure Relations with a Physics-Informed Bayesian Approach

Multiphase Computational Fluid Dynamics (MCFD) based on the two-fluid model is considered a promising tool to model complex two-phase flow systems. MCFD simulation can predict local flow features without resolving interfacial information. As a result, the MCFD solver relies on closure relations to describe the interaction between the two phases. Those empirical or semi-mechanistic closure relations constitute a major source of uncertainty for MCFD predictions. In this paper, we leverage a physics-informed uncertainty quantification (UQ) approach to inversely quantify the closure relations’ model form uncertainty in a physically consistent manner. This proposed approach considers the model form uncertainty terms as stochastic fields that are additive to the closure relation outputs. Combining dimensionality reduction and Gaussian processes, the posterior distribution of the stochastic fields can be effectively quantified within the Bayesian framework with the support of experimental measurements. As this UQ approach is fully integrated into the MCFD solving process, the physical constraints of the system can be naturally preserved in the UQ results. Here, in a case study of adiabatic bubbly flow, we demonstrate that this UQ approach can quantify the model form uncertainty of the MCFD interfacial force closure relations, thus effectively improving the simulation results with relatively sparse data support.

42 ENGINEERING↗

Defect modeling in semiconductors: the role of first principles simulations and machine learning

Abstract Point defects in semiconductors dictate their electronic and optical properties. Vacancies, interstitials, substitutional defects, and defect complexes can form in the semiconductor lattice and significantly impact its performance in applications such as solar absorption, light emission, electronics, and catalysis. Understanding the nature and energetics of point defects is essential for the design and optimization of next-generation semiconductor technologies. Here, we provide a comprehensive overview of the current state of research on point defects in semiconductors, focusing on the application of density functional theory (DFT) and machine learning (ML) in accelerating the prediction and understanding of defect properties. DFT has been instrumental in accurately calculating defect formation energies, charge transition levels, and other defect-related properties such as carrier recombination rates and lifetimes, and ion migration barriers. ML techniques, particularly neural networks, have emerged as powerful tools for enabling rapid prediction of defect properties at DFT-accuracy in order to overcome the expense of using large supercells and advanced functionals. We begin this article with a discussion of different types of point defects and complexes, their impact on semiconductor properties, and the experimental and DFT approaches typically used for their characterization. Through multiple case studies, we explore how DFT has been successfully applied to understand defect behavior across a variety of semiconductors, and how ML approaches integrated with DFT can efficiently predict defect properties and facilitate the discovery of new materials with tailored defect behavior. Overall, the advent of ‘DFT+ML’ promises to drive advancements in semiconductor technology, catalysis, and renewable energy applications, paving the way for the development of high-performance semiconductors which are defect-tolerant or have desirable dopability.

Rahman, Md Habibur (ORCID:000000027705984X)↗

Improving the performance of medical imaging applications using SYCL

As opposed to the Open Computing Language (OpenCL) programming model, in which host and device codes are generally written in different programming languages, SYCL can combine host and device codes for an application in a type-safe way to improve development productivity and performance portability. Hence, this report shows the experimental results of applying the SYCL programming model to medical imaging applications for a study on performance portability and programming productivity between OpenCL and SYCL. Rodinia is a widely used open-source benchmark suite for heterogeneous computing. We choose two medical imaging applications (Heart Wall and Particle Filter) in the benchmark suite, migrate the OpenCL implementations of the applications to the SYCL implementations, and evaluate their performance and productivity on Intel® microprocessors that contain a central processing unit (CPU) and an integrated graphics processing unit (GPU). The maturing SYCL compilers, which are based on a conformant implementation of the SYCL 1.2.1 Khronos specification, have been actively optimized for Intel® computing platforms. The experimental results are promising in terms of the raw performance and productivity. Although the SYCL implementation of the Heart Wall application does not execute successfully on a CPU, the SYCL implementations of the application can achieve comparable or better performance than the OpenCL implementation on Intel® integrated GPUs. For the Particle Filter application, the performance difference between the SYCL and OpenCL implementations is comparable on the GPUs for most cases, but the SYCL implementations are on average 4X faster than the OpenCL implementations on Intel® Xeon® CPUs. For programming productivity, we arguably use lines of code as a way to measure programming productivity in software. The SYCL programs reduce the lines of code of the OpenCL programs by 52% and 38% for the Heart Wall and Particle Filter, respectively. The results indicate that SYCL is a promising programming model for heterogeneous computing with the maturing compilers. We organize the remainder of the report as follows. Section II introduces the SYCL programming model, compares the major differences between an OpenCL program and a SYCL program, and describes the characteristics of the two applications. Section III describes the SYCL programming model in more details, and shows the SYCL implementation of a kernel function in the Particle Filter application as an example. In Section IV, we evaluate the performance of the applications on the CPUs and GPUs. Section V concludes the report.

59 BASIC BIOLOGICAL SCIENCES↗

Catalytic Removal of Oxygen and Pollutants in Exhaust Gases from Pressurized Oxy-Combustors

The primary goal of this project was to develop and validate advanced catalytic materials and systems for purifying the flue gas generated from pressurized oxy-combustors in an effort to achieve the purity specifications of carbon dioxide (CO 2 ) streams required by the U.S. Department of Energy (USDOE) for application in enhanced oil recovery. The technology has shown great potential for improving energy efficiency, simplifying process complexity, and lowering costs compared with current state-of-the-art oxy-combustion flue gas purification technologies. Laboratory studies were conducted for the development, characterization, and screening of metal catalysts for residual oxygen (O 2 ) reduction with methane (CH 4 ) and multifunctional carbon catalysts for combined nitrogen oxides (NO x ), sulfur oxides (SO x ), and mercury (Hg) removal. A bench-scale reverse-flow fixed-bed (RFFB) reactor and a trickle-bed direct-contact cooler (DCC) reactor capable of treating 15 standard liters per min of pressurized oxy-combustion flue gas were fabricated and tested with both a simulated flue gas in the laboratory and a slipstream of actual flue gas at a 100 kW th Staged, Pressurized Oxy-Combustion (SPOC) pilot facility. Process simulation and techno-economic studies were performed to evaluate the energy efficiency and cost of the developed catalytic flue gas purification process integrated into a conceptual 550-MWe SPOC power plant. The goal and objectives of the project have been successfully accomplished. A cobalt-manganese (CoMn) oxide catalyst was developed and demonstrated in the bench-scale RFFB reactor in either a reverse-flow or one-direction flow mode of operation that met the success criterion of performance for residual O 2 reduction. A carbon catalyst was developed and demonstrated in the bench-scale DCC reactor that met the success criterion of performance for combined NO x /SO x /Hg removal. Slipstream testing of the integrated DCC-RFFB system at the SPOC pilot facility demonstrated stable operation and verified the superior performance obtained in the laboratory. The techno-economic analysis showed that a 550-MWe SPOC plant integrated with the catalytic flue gas purification process would result in costs of electricity of $\$$96.94/MWh and $\$$80.27/MWh in two assessed cases compared with $\$$91.07/MWh reported for the USDOE’s Current Technology Case, which generated only a partially pure CO 2 stream. On the basis of the results and findings from this project, scale-up studies of materials production and system demonstration and optimization studies of reactors and processes are recommended at the next stage of technology development.

20 FOSSIL-FUELED POWER PLANTS↗

Resilience Service Framework Using Transactive Systems Valuation Methodology

Recent outage events have spurred national and international interest in improving grid resilience. Actions to make the grid more resilient must be valued against their costs and benefits. This is the goal of this report. We explore a resilience valuation framework, where the services procured by the utility are arranged such that the values associated with them are pinpointed. This is demonstrated by utilizing various diagrams developed in Pacific Northwest National Laboratory’s Transactive System Program, called the Transactive Systems Valuation Methodology (TSVM). We show that TSVM can be utilized to guide traditional valuation methodologies such as integrated resource planning so that resilience considerations can be embedded. This report demonstrates this using a three-step procedure: (1) a use case is developed to define functional requirements, (2) value identification of the utility and the actors with which it interacts (both inside and outside its internal functions), and (3) value tracking of activity performed by actors interacting with the utility while services are procured to enable a resilient grid.

24 POWER TRANSMISSION AND DISTRIBUTION↗

Perform Design Support with MCNP for New Measurements

This report incorporates our work carried out during our 5-month internship at LANL under an internship agreement with EAMEA (École des Applications Militaires de l’Énergie Atomique). After outlining the context in which we worked, we present our work as aid to modeling and predicting the neutronic behavior of nuclear systems, with a view to carrying out criticality experiments qualifying the MCNP code as part of innovative projects. Fourth generation reactors will enable to tackle a lot of issues such as environmental crisis, affordable energy access, and nuclear waste management. They seem to be one of the keys for a sustainable future. Most of the projects that emerge nowadays include the use of HALEU (high assay low enriched uranium) or MOX recycled fuels. Our projects are part of this dynamic and addresses concrete scientific research issues in the nuclear field. Studies of HALEU package are essential to anticipate the need, therefore the Optimus L (OPTImal Modular Universal Shipping cask technology) designed by NAC (Nuclear Assurance Corporation) international but filled with 20 % enriched uranium dioxide (UO 2 ) will be studied to support safe transportation. However, it seems there is no benchmark with a high correlation with the combination of this fuel and this package to validate MCNP simulations. As such, the study will focus on the development of new criticality safety benchmarks for this case. On the other hand, there is a great need for critical benchmarks in the intermediate energy range with MOX fuel. An IER (Integral Experiment Request) has then be requested to answer it through a partnership between French institution IRSN and U.S. Department of Energy's Nuclear Criticality Safety Program (NCSP). This experience planned for 2025 requires to gather calculated data through a MCNP model to be realized safely. Finally, a presentation of our one-week experience at the DAF as part of our discovery of criticality experiments will be introduced in Appendix 1: Week at the DAF (Device Assembly Facility)

73 NUCLEAR PHYSICS AND RADIATION PHYSICS↗

Providing Ancillary Services with Photovoltaic Generation in Multi-Timescale Grid Operation: Preprint

With photovoltaic (PV) generation substantially increases, electric power systems need more flexible resources that can provide ancillary services to mitigate the variability and uncertainty of the PV generation. On the one hand, the increase of PV generation necessitates the needs of more flexible resources. On the other hand, PV generation, because of its low operation cost, has been replacing the conventional generation in the system which is the main flexible resources in the current system. Consequently, there is a trend to require the renewable generation including PV to provide flexible ancillary services to further accommodate more PV integration. This paper proposes a multi-timescale grid operation model considering the various control strategies of PV providing different ancillary services. Numerical case studies demonstrate that with PV providing both regulation reserve and primary frequency reserve, the system operating costs and PV curtailment will be reduced significantly. It shows that not only the system reliability but also PV's profitability can be improved with PV providing more ancillary services.

41 EE - Solar Energy Technologies Office (EE-4S)↗

PSA 2025 DPRA for Cyber Optimization

Cyberattacks can have many different attack paths, durations, and goals. There are also many different mitigation options involving hardware, software, and/or humans. Evaluating defense options should include quantitative evaluation of overall effectiveness to make cost and risk-informed decisions. Typical cyberattack modeling methods only provide a qualitative evaluation and have difficulty with time dependent scenarios. The main areas of cybersecurity are confidentiality, integrity, and availability. For companies with cyber-physical systems such as advanced nuclear reactors, cyber-related integrity is a requirement set by the U.S. Nuclear Regulatory Commission. But companies are also concerned about availability or reliability as a business case. As cyber threats are evolving to a business-for-hire structure, more attacks focus on disrupting business success and reliability, causing financial and economic stability risk. Companies want reliability analysis while optimizing cost, which requires more than safety modeling methods. Dynamic-state-based and Markov-based modeling provides a method for better cyber scenario modeling with timing and conditional features not found in other numerical evaluation methods. EMRALD (Event Modeling Risk Assessment using Lined Diagrams) is a dynamic risk analysis modeling and simulation tool and has features that reduce modeling issues such as state-base explosion found in Markov-based tools. It has been used to model different time-dependent events including plant behavior and operator procedures. As a general modeling tool, EMRALD can also be used to model cyberattack scenarios with varying mitigation options and quantify effectiveness, producing numerical data for risk-informed decisions. This paper uses EMRALD to demonstrate that dynamic risk analysis can be used for cyber threat modeling to provide insights for design decision-making and optimize defense strategies.

97 - MATHEMATICS AND COMPUTING↗

Design and Operation of Energy Systems with Large Amounts of Variable Generation: IEA Wind TCP Task 25 (Final Summary Report)

This report summarizes findings on wind integration from the 17 countries or sponsors participating in the International Energy Agency Wind Technology Collaboration Program (IEA Wind TCP) Task 25 from 2006-2020. Both real experience and studies are reported. Many wind integration studies incorporate solar energy, and most of the results discussed here are valid for other variable renewables in addition to wind. The national case studies address several impacts of wind power on electric power systems. In this report, they are grouped under long-term planning issues and short-term operational impacts. Long-term planning issues include grid planning and capacity adequacy. Short-term operational impacts include reliability, stability, reserves, and maximizing the value of wind in operational timescales (balancing related issues). The first section presents the variability and uncertainty of power system-wide wind power, and the last section presents recent studies toward 100% shares of renewables. The appendix provides a summary of ongoing research in the national projects contributing to Task 25 for 2021-2024. The design and operation of power and energy systems is an evolving field. As ambitious targets toward net-zero carbon energy systems are announced globally, many scenarios are being made regarding how to reach these future decarbonized energy systems, most of them involving large amounts of variable renewables, mainly wind and solar energy. The secure operation of power systems is increasingly challenging, and the impacts of variable renewables, new electrification loads together with increased distribution system resources will lead to somewhat different challenges for different systems. Tools and methods to study future power and energy systems also need to evolve, and both short-term operational aspects (such as power system stability) and long-term aspects (such as resource adequacy) will probably see new paradigms of operation and design. The experience of operating and planning systems with large amounts of variable generation is accumulating, and research to tackle the challenges of inverter-based, nonsynchronous generation is on the way. Energy transition and digitalization also bring new flexibility opportunities, both short and long term.

24 POWER TRANSMISSION AND DISTRIBUTION↗

Efficient Parameterization of Density Functional Tight-Binding for 5 f -Elements: A Th–O Case Study

Density functional tight binding (DFTB) models for f-element species are challenging to parametrize owing to the large number of adjustable parameters. The explicit optimization of the terms entering the semiempirical DFTB Hamiltonian related to f orbitals is crucial to generating a reliable parametrization for f-block elements, because they play import roles in bonding interactions. However, since the number of parameters grows quadratically with the number of orbitals, the computational cost for parameter optimization is much more expensive for the f-elements than for the main group elements. In this work we present a set of efficient approaches for mitigating the hurdle imposed by the large size of the parameter space. A novel group-by-orbital correction functions for two-center bond integrals was developed. With this approach the number of parameters is reduced, and it grows linearly with the number of elements, maintaining the accuracy and the number of parameters, in the case of f elements, by more than 40%. The parameter optimization step was accelerated by means of the mini-batch BFGS method. This method allows parameter optimizations with much larger training sets than other single batch methods. A stochastic optimizer was employed that helped overcome shallow local minima in the objective function. The proposed algorithm was used to parametrize the DFTB Hamiltonian for the Th–O system, which was subsequently applied to the study of ThO 2 nanoparticles. The training set consisted of 6322 unique structures, which is barely feasible with conventional optimization methods. The optimized parameter set, LANL-ThO, displays good agreement with DFT-calculated properties such as energies, forces, and structures for both clusters and bulk ThO 2 . Benefiting from the fewer number of parameters and lower computational costs for objective function evaluations, this new approach shows its potential applications in DFTB parametrization for elements with high angular momentum, which present a challenge to conventional methods.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Energy Resilience for Mission Assurance, Agile Co-simulation for Cyber Energy System Security (ACCESS) Model Advancements for Resilience Analysis (Version 3, July 2023)

Agile Co-simulation for Cyber Energy System Security (ACCESS) is a co-simulation platform developed by Lawrence Livermore National Laboratory (LLNL). The primary high-level use-case for ACCESS is to study existing or new cyber-physical critical infrastructure systems, with a heavy emphasis on 1) systems that utilize communication networks, and 2) studies that seek to understand cyber-related system impacts. ACCESS is currently used for several energy system resilience projects at LLNL. In the Energy Resilience for Mission Assurance (ERMA) project, ACCESS is used in the Mod eling for Metric Calculation task (specifically, subtask 4.3, Communications and Cyber Modeling) to model and simulate the cyber and communication system aspects of Defense Critical Electric Infrastructure (DCEI) systems, with a focus on computing specific communication system metrics that can impact system resilience and mission performance. Simulated communication system per formance will be fed back to other ERMA system components so that mission performance can be evaluated holistically. This report describes several enhancements to the ACCESS platform that were implemented during the execution of the ERMA project in support of reslience analysis. This includes the addition of new models and subsystems, enhancements to existing models, and integration with external systems. The remainder of this report is structured as follows. In Section 2, a brief background description of the ACCESS platform is provided, including an outline of ACCESS components, example use cases, and a set of communication network resilience metrics that can be computed with ACCESS. Section 3 describes the ACCESS model enhancements for ERMA in detail. Finally, Section 4 briefly outlines future integration opportunities between ACCESS and project participant capabilities identified during the progression of the project.

29 ENERGY PLANNING, POLICY, AND ECONOMY↗

Typical Use Cases for Energy Storage in Rural Areas

Public power utilities and cooperatives play a crucial role in delivering reliable and affordable electricity to remote and sparsely populated regions. Unlike their urban counterparts, these utilities often face a unique set of challenges that can complicate their operations and service delivery. One of the primary challenges is the vast geographical area they must cover, which often results in higher transmission and distribution costs per customer. Additionally, public power utilities in rural areas often cannot afford the investments required to maintain and upgrade aging grid infrastructure to provide reliable and resilient power or withstand the impacts of recurring, severe weather events, which can cause extended outages and disrupt service delivery. Energy storage has emerged as a promising tool to help public power utilities meet these challenges. By enabling the storage of excess energy during low demand periods and providing a source of backup electricity during outages, energy storage systems can help utilities balance supply and demand more effectively. Additionally, they can help integrate a portfolio of various energy sources, reduce the need for expensive peak power purchases and provide ancillary services that stabilize the grid. This white paper describes potential use cases for energy storage in rural areas as well as documents a set of relevant example projects by project types.

24 POWER TRANSMISSION AND DISTRIBUTION↗

A novel improved model for building energy consumption prediction based on model integration

Building energy consumption prediction plays an irreplaceable role in energy planning, management, and conservation. Constantly improving the performance of prediction models is the key to ensuring the efficient operation of energy systems. Moreover, accuracy is no longer the only factor in revealing model performance, it is more important to evaluate the model from multiple perspectives, considering the characteristics of engineering applications. Based on the idea of model integration, this paper proposes a novel improved integration model (stacking model) that can be used to forecast building energy consumption. The stacking model combines advantages of various base prediction algorithms and forms them into “meta-features” to ensure that the final model can observe datasets from different spatial and structural angles. Two cases are used to demonstrate practical engineering applications of the stacking model. A comparative analysis is performed to evaluate the prediction performance of the stacking model in contrast with existing well-known prediction models including Random Forest, Gradient Boosted Decision Tree, Extreme Gradient Boosting, Support Vector Machine, and K-Nearest Neighbor. The results indicate that the stacking method achieves better performance than other models, regarding accuracy (improvement of 9.5%–31.6% for Case A and 16.2%–49.4% for Case B), generalization (improvement of 6.7%–29.5% for Case A and 7.1%-34.6% for Case B), and robustness (improvement of 1.5%–34.1% for Case A and 1.8%–19.3% for Case B). The proposed model enriches the diversity of algorithm libraries of empirical models.

32 ENERGY CONSERVATION, CONSUMPTION, AND UTILIZATI↗

System-of-systems optimization of hydrogen infrastructure for heavy-duty freight corridors: The interstate 10 case study

Medium and heavy-duty freight transportation requires hydrogen energy infrastructure that is cost-effective, operationally reliable, spatially coherent, and resilient to demand variability along major corridors. This paper presents an integrated hydrogen corridor planning framework using Oak Ridge National Laboratory's OR-AGENT that couples freight-driven, route-resolved hydrogen demand modeling with optimized station siting, sizing, and station-level techno-economic analysis. The framework is demonstrated for the Interstate 10 freight corridor and the Houston-to-Los-Angeles region. Hydrogen demand is derived from high-resolution origin–destination freight data, duty-cycle characterization, and physics-based energy consumption modeling. Candidate refueling sites are selected from existing heavy-duty diesel fueling locations and optimized subject to onboard storage and station capacity constraints. Resulting station throughputs are evaluated using established techno-economic models for electrolytic hydrogen production and dispensing infrastructure. Results show that a regional, portfolio-level aggregation, average dispensed electrolytic hydrogen cost of $6.87–$7.26/kg is currently feasible, and is strongly influenced by demand density and utilization.

Sujan, Vivek [ORNL] (ORCID:0000000269882342)↗

Improving Solution Accuracy and Convergence for Stochastic Physics Parameterizations with Colored Noise

Stochastic parameterizations are used in numerical weather prediction and climate modeling to help capture the uncertainty in the simulations and improve their statistical properties. Convergence issues can arise when time integration methods originally developed for deterministic differential equations are applied naively to stochastic problems. In previous studies, it has been demonstrated that a correction term, known in stochastic analysis as the Itô correction, can help improve solution accuracy for various deterministic numerical schemes and ensure convergence to the physically relevant solution without substantial computational overhead. The usual formulation of the Itô correction is valid only when the stochasticity is represented by white noise. In this study, a generalized formulation of the Itô correction is derived for noises of any color. The formulation is applied to a test problem described by an advection–diffusion equation forced with a spectrum of fast processes. We present numerical results for cases with both constant and spatially varying advection velocities to show that, for the same time step sizes, the introduction of the generalized Itô correction helps to substantially reduce time integration error and significantly improve the convergence rate of the numerical solutions when the forcing term in the governing equation is rough (fast varying); alternatively, for the same target accuracy, the generalized Itô correction allows for the use of significantly longer time steps and, hence, helps to reduce the computational cost of the numerical simulation.

54 ENVIRONMENTAL SCIENCES↗