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PNNL DataHub NIAID Program Project: Modeling Host Responses to Understand Severe Human Virus Infections, Multi-Omic Viral Dataset Catalog Collection

The National Institute of Allergy and Infectious Diseases (NIAID) "Modeling Host Responses to Understand Severe Human Virus Infections" program project was a highly integrated and comprehensive systems biology research core, funded by the National Institute of Health (U19AI106772) from 2013-06-01 to 2018-05-31, investigating the complex host response to category A, B, and C priority pathogen infections. Resulting project deliverables include an extensive comprehensive collections of linked primary and secondary transformation viral experimental infection data. Here we provide a never before released comprehensive infectious disease collection of primary and secondary transformation multi-Omics data profiling a series of priority pathogen primary experimental studies for enhanced open access to viral Omics lifecycle datasets and project metadata. Using a highly integrated and multidisciplinary approach, linked primary data and metadata supporting secondary normalization datasets, provide critical information necessary for research reproducibility and long-term preservation. Enabling on-demand data access for research community consumption and developer reuse, serves to support new mechanistic insights and discoveries into host-pathogen interactions for aiding future biohazard data preparedness efforts in emergency response to global health crises involving viral infection.

59 BASIC BIOLOGICAL SCIENCES↗

Scoping Analysis of MACCS Modeling Improvements for the Study of Protective Action Recommendations

In late 2004, the U.S. Nuclear Regulatory Commission (NRC) initiated a project to analyze the relative efficacy of alternative protective action strategies in reducing consequences to the public from a spectrum of nuclear power plant core melt accidents. The study is documented in NUREG/CR-6953, “Review of NUREG-0654, Supplement 3, ‘Criteria for Protective Action Recommendations for Severe Accidents,’” Volumes 1, 2, and 3. The Protective Action Recommendations (PAR) study provided a technical basis for enhancing the protective action guidance contained in Supplement 3, “Guidance for Protective Action Strategies,” to NUREG-0654/FEMA-REP-1, Rev. 1, “Criteria for Preparation and Evaluation of Radiological Emergency Response Plans and Preparedness in Support of Nuclear Power Plants, ” dated November 2011. In the time since, a number of important changes and additions have been made to the MACCS code suite, the nuclear accident consequence analysis code used to perform the study. The purpose of this analysis is to determine whether the MACCS results used in the PAR study would be different given recent changes to the MACCS code suite and input parameter guidance. Updated parameters that were analyzed include cohorts, keyhole evacuation, shielding and exposure parameters, compass sector resolution, and a range of source terms from rapidly progressing accidents. Results indicate that using updated modeling assumptions and capabilities may lead to a decrease in predicted health consequences for those within the emergency planning zone compared to the original PAR study.

21 SPECIFIC NUCLEAR REACTORS AND ASSOCIATED PLANTS↗

Opportunities for Artificial Intelligence in Emergency Management

This article for the Domestic Preparedness Journal highlights how PNNL's in-depth landscape assessment dug deep into research articles, preprints, code repositories, and surveys at the intersection of applied artificial intelligence and emergency management.

29 ENERGY PLANNING, POLICY, AND ECONOMY↗

Community Resilience Indicator Analysis: Commonly Used Indicators from Peer-Reviewed Research (Updated for Research Published 2003-2021)

In 2017, FEMA’s National Integration Center (NIC) Technical Assistance (TA) Branch identified a need to establish a data-driven basis for prioritizing locations for TA investment and guiding local emergency management planning. To achieve this goal, FEMA tasked Argonne National Laboratory (Argonne) with identifying commonly used indicators of community resilience across the landscape of published peer-reviewed research. FEMA and Argonne completed the first Community Resilience Indicator Analysis (CRIA) in 2018 and repeated the process in 2022. The CRIA process begins with a literature review and cataloguing of published peer-reviewed assessment methodologies on social vulnerability and community resilience. The literature review findings are then filtered by inclusion criteria established by the CRIA research team to ensure the methodologies are: (1) Quantitative, (2) Data and methodology are publicly available, (3) Calculated at the county level or lower, (4) Examine generalized hazard risk (rather than a singular hazard), and (5) Focused on pre-disaster community conditions. After this, the research team identifies the commonly used indicators across these methodologies and selects the best data source for each indicator. Finally, the research team bins the data for visual display, conducts a correlation analysis and creates a composite index, the FEMA Community Resilience Index (FEMA CRI). In 2018, the CRIA identified eight resilience and vulnerability assessment methodologies and 20 commonly used indicators (indicators used in three or more of the eight methodologies). The FEMA CRI in 2018 was created from these 20 indicators and was produced for at the county level. The 2022 CRIA updated the literature review to expand the list of methodologies examined and followed the same process, resulting in an analysis of 14 methodologies published between 2003 and 2021 and 22 indicators identified as commonly used (indicators used in five or more of the 14 methodologies). In 2022, the research team produced the FEMA CRI at the county and the census tract levels. To make the CRIA data more accessible and more actionable, each individual indicator and the FEMA CRI is binned and included in FEMA’s Resilience Analysis and Planning Tool (RAPT). RAPT enables emergency managers and community partners to quickly visualize relative differences in potential resilience by county, tribe and census tract. By reviewing the data for each of these 22 indicators individually, emergency managers can gain insights for targeted outreach strategies, planning, mitigation investments and response and recovery operations. Communities, regional governments and others can use this data to better understand potential challenges to resilience. As the social science field of examining and validating indicators of resilience evolves, FEMA will update RAPT to provide emergency managers and community partners with additional data and tools to inform planning, mitigation, response and recovery. It is important to understand that the role of the emergency manager is not to change or to “improve” the data, but to plan appropriately for the community characteristics reflected in the data. These datasets are community characteristics that researchers have identified as important considerations for resilience. For example, people with disabilities may have greater challenges to be resilient to disasters. If a community has a high population of people with disabilities, the emergency manager(s) may need to create tailored preparedness outreach programs and strategies to ensure those residents have support if evacuation is necessary. Rather than label these indicators as an absolute measure of resilience, FEMA considers “potential challenges to resilience” a better frame to understand these indicators. Everyone is vulnerable to disasters. While scholars theorize that certain characteristics may make an individual or a household more socially vulnerable, the data does not reflect measures that individuals and/or communities have taken to address potential challenges, such as emergency management planning and outreach or household preparedness measures. To aid emergency managers in understanding how to use these indicators, calling them potential challenges to resilience supports a more positive and strategic application of the data in all phases of emergency management.

99 GENERAL AND MISCELLANEOUS↗

AMS INTERNATIONAL TECHNICAL EXCHANGES - IAEA-CN293-047

The IAEA Conference on the Development of Preparedness for National and International Emergency Response 2021. The purpose of the event is to foster the exchange of information and enhance global awareness on various EPR topics through the discussion of both the progress made at national and international levels and the challenges encountered, by sharing experiences, evaluating current trends, technologies and lessons in EPR

99 GENERAL AND MISCELLANEOUS↗

Agent-Based Simulation Framework for Multi-Variant Surveillance

Early detection of an emerging VOC (Variant-Of-Concern) is essential for effective preparedness for a disease like COVID-19. The spreading of an emerging VOC not only depends on the disease dynamics of itself but also depends on the state of the circulating variants and the susceptibility of the population. Resources for testing are typically quite limited, and a number of strategies have been considered for deploying them. However, it has been difficult to evaluate the performance of such strategies, especially higher order effects, and inequities, while incorporating constraints on these resources. Here, we develop an agent-based surveillance framework, Networkdetect, to understand the early warning system of an emerging VOC. Our framework allows us to incorporate various population heterogeneities and resource constraints.

Moon, Sifat [ORNL] (ORCID:0000000344968809)↗

Community Input on the Need, Scope, and Development Roadmap of a Proposed National Virtual Biosecurity for Bioenergy Crops Center (NVBBCC)

Brookhaven National Laboratory (BNL) was awarded a pilot project in FY22 under the U.S. Department of Energy (DOE) Office of Science Biopreparedness Research Virtual Environment (BRaVE) initiative, to define research priorities, needs, and requirements for a national virtual center devoted to the biosecurity of bioenergy crops. The mission of the proposed center, referred to as the National Virtual Biosecurity for Bioenergy Crop Center (NVBBCC), would be to provide the scientific basis and tools to detect, characterize, model, and mitigate biothreats to bioenergy crops. This function will be essential to ensure the projected increased US reliance over the next few decades on key plant-based energy products, such as biojet fuel. The NVBBCC is envisioned as a distributed, virtual center with multiple national laboratories at its core to maximize the use of existing unique facilities and expertise across the DOE complex. A major goal of the pilot project was to develop a roadmap for establishing NVBBCC through a series of meetings to gather community input. A total of about 150 individuals, drawn from DOE laboratories, the USDA, academia, NIH, DHS and the private sector participated in six planning meetings held in FY23. Four of the meetings were focused on specific research topics (disease detection, dispersion and disease propagation, biomolecular characterization of plant-pathogen interaction, and mitigation strategies). These four meetings were followed by a meeting that focused on computational needs to support collaborative, data-intensive research within a distributed center as well as workforce development. A final meeting focused on establishing and maintaining preparedness within NVBBCC to respond to an emerging disease within bioenergy crops and how it would collaborate and coordinate with USDA and DHS.

09 BIOMASS FUELS↗

How Cooperative Engagement Programs Strengthen Sequencing Capabilities for Biosurveillance and Outbreak Response

The threat of emerging and re-emerging infectious diseases continues to be a challenge to public and global health security. Cooperative biological engagement programs act to build partnerships and collaborations between scientists and health professionals to strengthen capabilities in biosurveillance. Biosurveillance is the systematic process of detecting, reporting, and responding to especially dangerous pathogens and pathogens of pandemic potential before they become outbreaks, epidemics, and pandemics. One important tool in biosurveillance is next generation sequencing. Expensive sequencing machines, reagents, and supplies make it difficult for countries to adopt this technology. Cooperative engagement programs help by providing funding for technical assistance to strengthen sequencing capabilities. Through workshops and training, countries are able to learn sequencing and bioinformatics, and implement these tools in their biosurveillance programs. Cooperative programs have an important role in building and sustaining collaborations among institutions and countries. One of the most important pieces in fostering these collaborations is trust. Trust provides the confidence that a successful collaboration will benefit all parties involved. With sequencing, this enables the sharing of pathogen samples and sequences. Obtaining global sequencing data helps to identify unknown etiological agents, track pathogen evolution and infer transmission networks throughout the duration of a pandemic. Having sequencing technology in place for biosurveillance generates the capacity to provide real-time data to understand and respond to pandemics. We highlight the need for these programs to continue to strengthen sequencing in biosurveillance. By working together to strengthen sequencing capabilities, trust can be formed, benefitting global health in the face of biological threats.

60 APPLIED LIFE SCIENCES↗

Preparing for the next pandemic via transfer learning from existing diseases with hierarchical multi-modal BERT: a study on COVID-19 outcome prediction

Abstract Developing prediction models for emerging infectious diseases from relatively small numbers of cases is a critical need for improving pandemic preparedness. Using COVID-19 as an exemplar, we propose a transfer learning methodology for developing predictive models from multi-modal electronic healthcare records by leveraging information from more prevalent diseases with shared clinical characteristics. Our novel hierarchical, multi-modal model ( $${\textsc {TransMED}}$$ T R A N S MED ) integrates baseline risk factors from the natural language processing of clinical notes at admission, time-series measurements of biomarkers obtained from laboratory tests, and discrete diagnostic, procedure and drug codes. We demonstrate the alignment of $${\textsc {TransMED}}$$ T R A N S MED ’s predictions with well-established clinical knowledge about COVID-19 through univariate and multivariate risk factor driven sub-cohort analysis. $${\textsc {TransMED}}$$ T R A N S MED ’s superior performance over state-of-the-art methods shows that leveraging patient data across modalities and transferring prior knowledge from similar disorders is critical for accurate prediction of patient outcomes, and this approach may serve as an important tool in the early response to future pandemics.

59 BASIC BIOLOGICAL SCIENCES↗

Draft Prototype Microreactor Transportation Safety Program

Microreactors are compact reactors capable of producing less than 50 megawatts of electrical energy. Typically, these reactors are factory-fabricated and designed to be easily transportable by truck, rail, vessel, or air. Microreactor designs often assume that the unit can be transported containing either unirradiated or irradiated fuel. The interest in microreactors is driven by several factors, including the need to generate power on at remote locations, at military installations, at facilities such as data centers, and in areas recovering from natural disasters. The U.S. Department of Defense is actively pursuing the microreactor concept to meet the increasing energy demands of military operations that require portable and dense power sources. Commercial vendors are also exploring microreactor concepts. The report Microreactor Transportation Emergency Planning Challenges (Maheras et al. 2024) outlined the emergency planning challenges associated with the transportation of microreactors by road, rail, and by barge/ship. The successful commercial deployment and redeployment of microreactors will also require the development of microreactor transportation safety programs. The elements in these safety programs are not specific to microreactors; however, the transport of microreactors may pose unique challenges in these areas. This report builds on the report Microreactor Transportation Emergency Planning Challenges (Maheras et al. 2024) and develops the elements of a prototype microreactor transportation safety program that describes the elements that should be contained vendor-developed microreactor transportation safety programs, identifying the unique elements associated with microreactor transport. This will provide vendors and their transportation contractors a basis for their transportation planning and will accelerate the commercial deployment and redeployment of microreactors by identifying those issues unique to microreactor transport. The emphasis of this report is on highway transport of microreactors. This is based on a U.S. Nuclear Regulatory Commission transportation package approval strategy of crawl-walk-run, where transport by highway is evaluated first (Coles et al. 2021, 2024, Maheras et al. 2021), then other surface modes (rail and barge/ship), and finally air transport. Evaluation of maritime transport of microreactors was recently initiated (Rigato et al. 2024, Maheras et al. 2025). The report first discusses microreactors in general and microreactor transportation safety program planning assumptions. The report then provides a description of the transportation safety planning process and provides an extensive discussion of the elements of transportation safety programs. Specific elements examined included transportation roles and responsibilities, transportation planning, transportation mode and route selection, carrier selection, transportation packaging, advance notification of shipments, public information and communications, emergency response plans and procedures, inspections, security, safe parking, shipment tracking, weather and road conditions, medical preparedness, training and exercises, and program evaluation. The report then identifies the unique elements of a transportation safety program associated with microreactor transport. These unique elements were in the areas of: the unusual nature of microreactor designs, compensatory measures, increased radiation dose rates in the vicinity of microreactors, transportation package approval versus 10 CFR 50.59, and the use of a risk-informed transportation package approval process.

22 GENERAL STUDIES OF NUCLEAR REACTORS↗

Quick Talk: Resilient Communities, Maryland

Groundswell, Inc., in partnership with the Maryland Energy Administration (MEA), Ayika Solutions, the National Renewable Energy Lab (NREL), and the Baltimore Office of Sustainability, is advancing a vision for resilient, community-centered energy systems in Maryland. This effort aligns with Groundswell's commitment to a clean energy economy that equitably benefits all communities, closing gaps in representation, wages, and access to wealth generation, savings, and local jobs within a diverse energy supply chain. Project Vision and Objectives The project emphasizes "energy resilience," defined as a community’s capacity to anticipate, adapt to, and swiftly recover from power disruptions through inclusive planning and technical solutions. The approach centers on Resilience Hubs—designated community facilities equipped to support residents before, during, and after power-related disruptions. These hubs offer emergency resources, coordinate communications, and deliver essential services while reducing carbon emissions, ultimately enhancing residents' quality of life. Additionally, Resilience Hubs foster social connections, support disaster preparedness, and provide spaces for community programming and everyday use. The goals of Resilient Communities Maryland include: Developing a replicable framework for community energy resilience, applicable beyond Maryland. Defining community-led indicators of social impact and resilience. Establishing equitable decision-making processes in project design and implementation. Informing MEA of practical, community-based resilience strategies to shape future state initiatives. Approach Groundswell and its partners prioritize collaborative engagement with local stakeholders, ensuring that solutions are responsive to each community's unique needs. By integrating feedback from residents, local organizations, and government entities, the team has developed a holistic model for resilience that balances immediate benefits, such as improved emergency response, with long-term gains in social equity and environmental sustainability. Key Outcomes This initiative has produced valuable resources and insights, including: A Community Energy Resilience Framework: Designed to guide other communities in establishing energy resilience strategies tailored to their specific needs. Case Studies: Documenting best practices and lessons learned from pilot projects to serve as models for future resilience efforts. Community-Driven Impact Metrics: Highlighting the positive social impacts that resilience initiatives can bring, such as improved social connectedness and local decision-making power. Recommendations for MEA: Offering evidence-based insights to inform policies and funding opportunities that support resilient energy infrastructure in vulnerable communities. Next Steps Groundswell's final report will detail findings, including the potential for scaling resilience hubs across Maryland and other regions, with a focus on equitable access and community-driven outcomes. This project underscores the importance of aligning energy resilience with social equity, reinforcing community agency, and building systems that withstand and recover from future challenges effectively and sustainably.

14 SOLAR ENERGY↗

A baseline structure inventory with critical attribution for the US and its territories

Leveraging high performance computing, remote sensing, geographic data science, machine learning, and computer vision, Oak Ridge National Laboratory has partnered with Federal Emergency Management Agency (FEMA) to build a baseline structure inventory covering the US and its territories to support disaster preparedness, response, and recovery. The dataset contains more than 125 million structures with critical attribution, and is ready to be used by federal agencies, local government and first responders to accelerate on-the-ground response to disasters, further identify vulnerable areas, and develop strategies to enhance the resilience of critical structures and communities. Data can be freely and openly accessed through Figshare data repository, ESRI’s Living Atlas or FEMA’s Geodata platform.

96 KNOWLEDGE MANAGEMENT AND PRESERVATION↗

The “Brookhaven Brassie” and the Response to the Three Mile Island Accident

In the mid-1970s, American civil defense authorities became increasingly concerned with the potential threat of fission reactor accidents. Research from the Defense Civil Preparedness Agency began to be aimed not just at the ever-present threat of nuclear warfare, but also peacetime emergencies as part of a "dual use" philosophy. The Brookhaven National Laboratory received funding to create a prototype radioiodine air sampling system, with multiple publications detailing the creation of the air sampler itself and a special CD V-700 survey meter that accompanied it. In late March 1979, the system found its first operational employment at the reactor accident at Three Mile Island, Pennsylvania. Despite successful use and further study, the BNL Air Sampler was not widely fielded by the federal government. However, lessons learned from its employment and development may be applicable to contemporary radiological emergency response.

98 NUCLEAR DISARMAMENT, SAFEGUARDS, AND PHYSICAL P↗

Molecular Evolution of the H5 and H7 Highly Pathogenic Avian Influenza Virus Haemagglutinin Cleavage Site Motif

ABSTRACT Avian influenza viruses are ubiquitous in the Anatinae subfamily of aquatic birds and occasionally spill over to poultry. Infection with low pathogenicity avian influenza viruses generally leads to subclinical or mild clinical disease. In contrast, highly pathogenic avian influenza viruses emerge from low pathogenic forms and can cause severe disease associated with extraordinarily high mortality rates. Here, we describe the natural history of avian influenza virus, with a focus on H5Nx and H7Nx subtypes, and the emergence of highly pathogenic forms; we review the biology of AIV; we examine cleavage of haemagglutinin by host cell enzymes with a particular emphasis on the biochemical properties of the proprotein convertases, and trypsin and trypsin‐like proteases; we describe mechanisms implicated in the functional evolution of the haemagglutinin cleavage site motif that leads to emergence of HPAIVs; and finally, we discuss the diversity of H5 and H7 haemagglutinin cleavage site sequence motifs. It is crucial to understand the molecular attributes that drive the emergence and evolution of HPAIVs with pandemic potential to inform risk assessments and mitigate the threat of HPAIVs to poultry and human populations.

Luczo, Jasmina M. [Australian Animal Health Labora↗

Transportation Fuel Resiliency: Case Study of Tampa Bay

Here, this case study presents findings from an analysis of the emergency preparation and response for Hurricane Irma, the most recent hurricane impacting the Tampa Bay region. The Tampa Bay region, in particular, is considered one of the most vulnerable areas in the United States to hurricanes and severe tropical weather. A particular vulnerability stems from how all petroleum fuel comes to the area by marine transport through Port Tampa Bay, which can be (and has been in the past) impacted by hurricanes and tropical storms. The case study discussed in this paper covers previous fuel challenges, vulnerabilities, and lessons learned by key Tampa Bay public agency fleets during the past 10 years (mainly as a result of the most recent 2017 Hurricane Irma) to explore ways to improve the area’s resilience to natural disasters. Some of the strategies for fuel-supply resiliency include maintaining emergency fuel supply, prioritizing fuel use, strategically placing the assets around the region to help with recovery, investing in backup generators (including generators powered by alternative fuels), planning for redundancies in fuel supply networks, developing more efficient communication procedures between public fleets, hurricane preparedness-planning, and upgrading street drainage systems to reduce the threat of local flooding.

33 ADVANCED PROPULSION SYSTEMS↗