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At least 1,063 records · Page 59

MusMorph, a database of standardized mouse morphology data for morphometric meta-analyses

Complex morphological traits are the product of many genes with transient or lasting developmental effects that interact in anatomical context. Mouse models are a key resource for disentangling such effects, because they offer myriad tools for manipulating the genome in a controlled environment. Unfortunately, phenotypic data are often obtained using laboratory-specific protocols, resulting in self-contained datasets that are difficult to relate to one another for larger scale analyses. To enable meta-analyses of morphological variation, particularly in the craniofacial complex and brain, we created MusMorph, a database of standardized mouse morphology data spanning numerous genotypes and developmental stages, including E10.5, E11.5, E14.5, E15.5, E18.5, and adulthood. To standardize data collection, we implemented an atlas-based phenotyping pipeline that combines techniques from image registration, deep learning, and morphometrics. Alongside stage-specific atlases, we provide aligned micro-computed tomography images, dense anatomical landmarks, and segmentations (if available) for each specimen (N = 10,056). Our workflow is open-source to encourage transparency and reproducible data collection.

59 BASIC BIOLOGICAL SCIENCES↗

GridLAB-D Technical Support Document: Residential Equivalent Thermal Parameter Model

GridLAB-D is a power distribution systems simulation and analysis tool developed by Pacific Northwest National Laboratory. Although GridLAB-D and its underlying residential load model has been used in a variety of power systems analyses, comprehensive documentation of the derivation of the residential house model has not been formally published. The purpose of this technical support document is to serve as a comprehensive resource for the thermal dynamics modeling and house definition implemented in GridLAB-D. It covers model derivation, parameter definitions, and implementation steps in the codebase.

24 POWER TRANSMISSION AND DISTRIBUTION↗

Crossing Multiple Gray Zones in the Transition from Mesoscale to Microscale Simulation over Complex Terrain

This review paper explores the field of mesoscale to microscale modeling over complex terrain as it traverses multiple so-called gray zones. In an attempt to bridge the gap between previous large-scale and small-scale modeling efforts, atmospheric simulations are being run at an unprecedented range of resolutions. The gray zone is the range of grid resolutions where particular features are neither subgrid nor fully resolved, but rather are partially resolved. The definition of a gray zone depends strongly on the feature being represented and its relationship to the model resolution. This paper explores three gray zones relevant to simulations over complex terrain: turbulence, convection, and topography. Taken together, these may be referred to as the gray continuum. The focus is on horizontal grid resolutions from ∼10 km to ∼10 m. In each case, the challenges are presented together with recent progress in the literature. A common theme is to address cross-scale interaction and scale-awareness in parameterization schemes. How numerical models are designed to cross these gray zones is critical to complex terrain applications in numerical weather prediction, wind resource forecasting, and regional climate modeling, among others.

54 ENVIRONMENTAL SCIENCES↗

Physically Realistic Estimates of Electric Water Heater Demand Response Resource

Multiple grid integration studies have examined the value of demand response, including from water heaters, to bulk power systems. Common shortcomings of these studies include physically unrealistic assumptions. For example, studies often assume that all electric water heater load can be shed for up to an hour to provide capacity or contingency service, that all electric water heater load is shiftable, and that round-trip efficiencies for shifting service are 100%. Another issue is that simply summing up estimates of individual water heaters' flexibility bounds, an attractive idea for constructing the MW-scale resources necessary for direct inclusion in grid investment and operational models, can result in significant overestimates of actual resource, because, e.g., a water heater with the ability to reduce load may not be able sustain the reduction for as long as the aggregate model suggests is possible. This presentation demonstrates the impact of estimating the flexibility of electric water heaters with physically realistic models suitable for grid service analysis. Electric water heater flexibility representations are constructed based on ResStock simulations of New England. Specifically, we examine contingency resource (related to capacity, shed, and contingency reserve services) and energy shifting resource from electric resistance and heat pump water heaters. Different estimation methods are compared; and the surrogate models' event responses are validated against events directly simulated in EnergyPlus. We also demonstrate the impact of using electric water heaters for contingency reserves and energy shifting in detailed models of possible future ISO New England power systems.

building energy modeling↗

A Four-Layer Cyber-Physical Security Model for Electric Machine Drives Considering Control Information Flow

Despite the IEEE Power Electronics Society (PELS) establishing Technical Committee 10 on Design Methodologies with a focus on the cyber-physical security of power electronics systems, a holistic design methodology for addressing security vulnerabilities remains underdeveloped. This gap largely stems from the limited integration of computer science and power/control engineering studies in this interdisciplinary field. Addressing the inadequacy of unilateral cyber or control perspectives, this article presents a novel four-layer cyber-physical security model specifically designed for electric machine drives. Central to this model is the innovative control information flow (CIF) model, residing within the control layer, which serves as a pivotal link between the cyber layer's vulnerable resources and the physical layer's state-space models. By mapping vulnerable resources to control variable space and tracing attack propagation, the CIF model facilitates accurate impact predictions based on tainted control laws. The effectiveness and validity of this proposed model are demonstrated through hardware experiments involving two typical cyber-attack scenarios, underscoring its potential as a comprehensive framework for multidisciplinary security strategies.

97 MATHEMATICS AND COMPUTING↗

Predicting Large‐Scale Systematic Missing Pipe Attributes in Water Distribution Networks

Water distribution network (WDN) models are an essential tool used by water utilities for hydraulic analysis. Unfortunately, missing data and insufficient resources often make creating and maintaining these models unfeasible. Existing methods to address missing pipe properties, like sequential imputation for missing values and reconstruction using graph metrics, are designed to accommodate random patterns of missing information and require a significant percentage of the system's attributes to be known. However, these data completeness assumptions do not always align with real‐world scenarios where large sections of the WDN model have missing data. To address this challenge, this study proposes a data‐driven approach for estimating pipe diameter when considering different spatial patterns and degrees of data completeness (i.e., 0%–90%). Using data from 16 WDNs in Kentucky, this study compares the use of machine learning (ML) using topological and geospatial features against an existing deterministic approach. Results demonstrate that WDN models with pipe diameters predicted by the proposed ML method had comparable hydraulic performance to the ground truth models. Moreover, results showed that ML method performance varies between WDNs of differing topological classification. Insights from this study help advance the ability to leverage partial data to create and maintain WDN models amid uncertainty and inadequate resources.

Poff, Jason W. [Oregon State Univ., Corvallis, OR ↗

From soil to sequence: filling the critical gap in genome-resolved metagenomics is essential to the future of soil microbial ecology

Abstract Soil microbiomes are heterogeneous, complex microbial communities. Metagenomic analysis is generating vast amounts of data, creating immense challenges in sequence assembly and analysis. Although advances in technology have resulted in the ability to easily collect large amounts of sequence data, soil samples containing thousands of unique taxa are often poorly characterized. These challenges reduce the usefulness of genome-resolved metagenomic (GRM) analysis seen in other fields of microbiology, such as the creation of high quality metagenomic assembled genomes and the adoption of genome scale modeling approaches. The absence of these resources restricts the scale of future research, limiting hypothesis generation and the predictive modeling of microbial communities. Creating publicly available databases of soil MAGs, similar to databases produced for other microbiomes, has the potential to transform scientific insights about soil microbiomes without requiring the computational resources and domain expertise for assembly and binning.

59 BASIC BIOLOGICAL SCIENCES↗

Strategies for community-sourced biocuration in bioinformatics: a case study on MIBiG 4.0

Biocuration is essential to transform molecular sequence data into standardized, machine-readable resources. Such curated datasets enable comparative analysis, predictive modeling, and data integration across bioinformatics platforms. While professional biocuration is resource-intensive and usually limited to institutional settings, community-driven approaches can mobilize large-scale annotation of specialized datasets and are more resilient to disruptions in scientific funding. Here, we present a model for community-powered curation applied to the Minimum Information about a Biosynthetic Gene Cluster (MIBiG) repository. Through a framework of workflows for metadata capture, annotation validation, and contributor coordination, the MIBiG 4.0 initiative recruited 267 scientists across 178 institutions from 33 countries, volunteering an estimated 4000 h of work. These efforts expanded the MIBiG repository by 22% and enhanced its usability in downstream molecular data analyses in comparative genomic analyses, natural product discovery, and machine learning applications. We provide strategies and actionable lessons for adopting this model, supporting the sustainability of curated bioinformatics resources central to nucleic acid research and related fields.

biocuration↗

Advanced Small Modular Reactors: Prototype Development Capabilities of 3D Spatial Interactions and Failures During Scenario Simulation

Computers have been used for 3D modeling and simulation, but only recently have computational resources been able to give realistic results in a reasonable time frame for large complex models. This report addressed the methods, techniques, and resources used to develop a prototype for using 3D modeling and simulation engine to improve risk analysis and evaluate reactor structures and components for a given scenario. The simulations done for this evaluation were focused on external events, specifically tsunami floods, for a hypothetical nuclear power facility on a coastline.

22 GENERAL STUDIES OF NUCLEAR REACTORS↗

Expansion of smallmouth bass distribution and habitat overlap with juvenile Chinook salmon in the Willamette River, Oregon

Abstract Smallmouth bass populations have expanded far beyond their native range and these predatory fish present a pervasive threat to native aquatic species throughout North America. In the western United States, smallmouth bass are now present in river and reservoir habitats where Pacific salmon are found and are considered a potential threat to salmon recovery in many locations. We conducted a study to determine if smallmouth bass are expanding their range in the mainstem Willamette River, Oregon, and developed a model to assess habitat overlap between smallmouth bass and juvenile Chinook salmon. Sampling during 2011–2022 revealed that the distribution of smallmouth bass had expanded throughout that timeframe to encompass the entire mainstem Willamette River, including important rearing habitats for juvenile Chinook salmon. The model predicted that smallmouth bass and juvenile Chinook salmon habitat overlap was substantial, highlighting the need for additional research to evaluate for potential negative impacts to salmon recovery in the basin. The model was also used to evaluate the efficacy of using flow management to reduce interactions between these two species, but the scenarios we examined suggested that this was not a viable option. These results highlight the need for continued research to assess interactions between smallmouth bass and juvenile salmon, and other native species of concern, in the Willamette River Basin. The development of the model is useful for resource managers to understand interactions between these species to prioritize locations for sampling in the future.

White, James S.↗

Gene expression analysis by arylsulfatase assays in the green alga Chlamydomonas reinhardtii

Chlamydomonas reinhardtii , a single-celled green alga, is a powerful microbial experimental system for understanding gene function. As a consequence of a high-quality genome sequence, community-wide efforts for gene model refinement and annotation, resources for strain collections and robust molecular techniques, research with this organism has significantly expanded in the past few decades. In two companion articles, we outline colorimetric and fluorescence-based methodologies for genetic reporter systems in Chlamydomonas, which can be used to investigate and delineate gene expression and regulatory mechanisms. As a result, we describe protocols for arylsulfatase activity assays using ARS2 , activity of which can be measured either quantitatively or qualitatively, and in low (individual sample) or high (96-well format) throughput.

59 BASIC BIOLOGICAL SCIENCES↗

Temporal complementarity of marine renewables with wind and solar generation: Implications for GB system benefits

Wave and tidal energy have the potential to provide benefits to power systems with high proportions of stochastic renewable generation. This is particularly applicable with wind and solar photovoltaics, as the offsetting of these renewable resources results in more reliable renewable generation. This study utilises ten metrics to quantify the temporal complementarity and supply-demand balancing requirements of the energy mix in Great Britain, to investigate the potential magnitude of these system benefits. Wave and tidal generation profiles are created using historical resource data and hydrodynamic models. The results show that the inclusion of wave and tidal generation creates a renewable energy mix which is more available under multiple conditions: throughout a year of operation; at times of peak demand; for multiple consecutive hourly time periods; and at times when wind and solar generation are not available. Three regional case studies also show that the inclusion of marine energy allows for improved regional supply-demand matching, reducing instances of energy shortage and excess and potentially relieving transmission congestion at particularly constrained locations within GB. Finally, the implications of these findings are discussed in terms of GB wholesale market operation, system balancing and system security.

16 TIDAL AND WAVE POWER↗

A decision support tool for e-waste recycling operations using the hen-and-chicks bio-inspired optimization metaheuristic

E-waste from end-of-life electrical and electronic devices is one of the fastest growing waste streams from households and businesses. E-waste recycling yields environmental sustainability and economic benefits. Due to continuous changes in e-waste types and compositions, recycling businesses face challenges to optimize their operational configuration to achieve better economic and environmental performance. To help e-waste recyclers mitigate this problem, we have developed a modular decision support tool called the Comprehensive Manufacturing Assessment Tool (CMAT) that can simulate both e-waste recycling operations and economics. This tool can give valuable insights regarding the profitability of the entire operation and different e-waste types. In addition, a new bio-inspired metaheuristic optimization algorithm, hen-and-chicks optimization (HACO), was developed to assign manpower to different workstations to maximize operational efficiencies. According to the results of our case study, laptops, desktops, and computer peripherals are the three electronic waste products that produce the most profit. Our examination of the sensitivity of material prices shows that the price of steel has the most significant influence on total profit, because it is the most widely used material in the majority of electronic devices. We have released the decision support tool as open-source software under a general public license. It could be customized for other recycling industries beyond e-waste to achieve business sustainability by making their operations more efficient.

32 ENERGY CONSERVATION, CONSUMPTION, AND UTILIZATI↗

Empirical prediction of saline water atomization pressure loss and spray phase change using local flow pressure analysis

A pressure analysis technique was developed to obtain spray spatial evaporation profile in a thermal desalination process. The technique can replace temperature-based evaporation measurement methods that are challenged by liquid-phase interference. It also provides an alternative to optical methods with high cost and complexity. Fundamental analysis was developed to determine local humidity ratios from changes in local static and dynamic pressures. The analysis was applied to data obtained from an external mixing air-assist atomizer. An empirical model was developed for the pressure loss in atomization process and was used in the analysis of humidity ratio. The results were used to develop empirical correlations for local humidity ratio in spray mediums using inlet conditions. Utilizing inlet conditions to predict evaporation profiles is an important contribution as it eliminates the need to take local spray measurements. Obtaining local data is often difficult and expensive; Our method and correlation circumvent the need for that. Finally, the correlations presented in this paper apply to saline water sprays with total dissolved salt of 0-10 wt%. The salinity-specific correlations are accurate to within ±10% of experimental data. The individual models were aggregated into a unified correlation for salinities within 0-10 wt%. The unified correlation is accurate to within ±18% of experimental data.

42 ENGINEERING↗

Unifying Energy-Management Problems for Inverter-Based Power Networks

This paper outlines a suite of energy-management problems for inverter-based power networks from the vantage point of optimal control and (non)linear optimization. The problems are categorized based on timescales dictated by the network dynamics, and organized methodologically based on the problem complexity. A growing body of literature has addressed problems in this domain, albeit, with poorly motivated assumptions and behavioral models that obscure precise device behavior. With a combination of circuit- and control-theoretic lenses, we establish appropriate dynamic models for the networked resources, illustrate how common engineering assumptions arise, uncover how problems are linked, and postulate open challenges.

(non)linear optimization↗

Can artificial intelligence and data-driven machine learning models match or even replace process-driven hydrologic models for streamflow simulation?: A case study of four watersheds with different hydro-climatic regions across the CONUS

With recent developments in computational techniques, Data-driven Machine Learning Models (DMLs) have shown great potential in simulating streamflow and capturing the rainfall-runoff relationship in given watersheds, which are traditionally fulfilled by Process-based Hydrologic Models (PHMs). There are debates on whether the DMLs can outperform and possibly replace the classical PHMs for streamflow simulation and river forecasting, but no clear conclusions have been made. This study aims to investigate whether the newer DMLs have any potential in further improving the simulation accuracy of classical PHMs, and vice versa. To do this, we compared a few popular PHMs and DMLs over four watersheds across the Continental US (CONUS) that are associated with different input, climate, and regional conditions. A total of five hydrologic models were chosen, including (1) two classical lumped models, i.e., the Sacramento Soil Moisture Accounting (SAC-SMA) and Xinanjiang (XAJ); (2) one modern distributed model, termed Coupled Routing and Excess Storage (CREST); (3) and two DMLs including an Artificial Neural Networks (ANN) and a deep learning model, termed Long Short Term Memory (LSTM). Our results demonstrated that the DMLs still significantly biased when using the baseline input scenario with the PHMs. However, the DMLs fed with delayed input scenarios had great potential and can reach high simulation accuracy. The DMLs, especially the ANN, outperformed other employed models under the rainfall-runoff relationship in which rainfall dominantly drives. Furthermore, the DMLs also showed better performance in the high-flow regime, while the PHMs had a better performance for the low-flow regime, implying both PHMs and DMLs have their own merits and are worthy of joint development. In general, our study indicated a great potential of using DMLs to simulate streamflow, but further studies are still needed to verify the transferability and scalability of DMLs in large-scale experiments, such as the Distributed Model Intercomparison Projects 1&2 conducted by National Weather Services but to compare modern DMLs and PHMs.

58 GEOSCIENCES↗