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Salk Institute for Biological Studies Requirements (Analysis Report)

EPOC uses the Deep Dive process to discuss and analyze current and planned science, research, or education activities and the anticipated data output of a particular use case, site, or project to help inform the strategic planning of a campus or regional networking environment. This includes understanding future needs related to network operations, network capacity upgrades, and other technological service investments. A Deep Dive comprehensively surveys major research stakeholders’ plans and processes in order to investigate data management requirements over the next 5–10 years. Between February and March 2024, staff members from the Engagement and Performance Operations Center (EPOC) met with researchers and staff from the Salk Institute for Biological Studies (Salk) for the purpose of a Deep Dive into scientific and research drivers. The goal of this activity was to help characterize the requirements for a number of campus use cases, and to enable cyberinfrastructure support staff better to understand the needs of the researchers within the community. Material for this event included the written documentation from each of the profiled research areas, documentation about the current state of technology support, and a write-up of the discussion that took place via e-mail and video conferencing. The case studies highlighted the ongoing challenges and opportunities that Salk Institute for Biological Studies have in supporting a cross-section of established and emerging research use cases. Each case study mentioned unique challenges which were summarized into common needs.

59 BASIC BIOLOGICAL SCIENCES↗

Science-Driven Data Management for Multi-Tiered Storage (Final Report)

Scientific discovery at the exascale will not be possible without significant new research in the management, storage and retrieval over the long lifespan of the extreme amounts of data that will be produced. Our thesis is that adding application level knowledge about data to guide the actions of the storage system provides substantial benefits to the organization, storage, and access to extreme scale data, resulting in improved productivity for computational science. In this project we will demonstrate novel techniques to facilitate efficient mapping of data objects, even partitioning individual variables, from the user space onto multiple storage tiers, and enable application-guided data reductions and transformations to address capacity and bandwidth bottlenecks. Our goal is to address the associated Input/ Output (I/O) and storage challenges in the context of current and emerging storage landscapes, and expedite insights into mission critical scientific processes.

96 KNOWLEDGE MANAGEMENT AND PRESERVATION↗

Kennesaw State University Scientific Deep Dive

EPOC uses the Deep Dive process to discuss and analyze current and planned science, research, or education activities and the anticipated data output of a particular use case, site, or project to help inform the strategic planning of a campus or regional networking environment. This includes understanding future needs related to network operations, network capacity upgrades, and other technological service investments. A Deep Dive comprehensively surveys major research stakeholders’ plans and processes in order to investigate data management requirements over the next 5–10 years. Between August 2021 and October 2021, staff members from the Engagement and Performance Operations Center (EPOC) met with researchers and staff from Kennesaw State University (KSU) for the purpose of a Deep Dive into scientific and research drivers. The goal of this activity was to help characterize the requirements for a number of campus use cases, and to enable cyberinfrastructure support staff to better understand the needs of the researchers within the KSU community.

97 MATHEMATICS AND COMPUTING↗

South Plains College Requirements Analysis Report

EPOC uses the Deep Dive process to discuss and analyze current and planned science, research, or education activities and the anticipated data output of a particular use case, site, or project to help inform the strategic planning of a campus or regional networking environment. This includes understanding future needs related to network operations, network capacity upgrades, and other technological service investments. A Deep Dive comprehensively surveys major research stakeholders’ plans and processes in order to investigate data management requirements over the next 5–10 years. Between October 2021 and January 2022, staff members from the Engagement and Performance Operations Center (EPOC) met with researchers and staff from LEARN and South Plains College (SPC) for the purpose of a Deep Dive into scientific and research drivers. The goal of this activity was to help characterize the requirements for a number of campus use cases, and to enable cyberinfrastructure support staff to better understand the needs of the researchers within the community.

99 GENERAL AND MISCELLANEOUS↗

Sinclair Community College and OARnet Requirements Analysis Report

EPOC uses the Deep Dive process to discuss and analyze current and planned science, research, or education activities and the anticipated data output of a particular use case, site, or project to help inform the strategic planning of a campus or regional networking environment. This includes understanding future needs related to network operations, network capacity upgrades, and other technological service investments. A Deep Dive comprehensively surveys major research stakeholders’ plans and processes in order to investigate data management requirements over the next 5–10 years. Between October 2021 and March 2022 staff members from the Engagement and Performance Operations Center (EPOC) met with researchers and staff from Sinclair Community College (SCC) and OARnet with the purpose of performing a Deep Dive into scientific and research drivers. The goal of this activity was to help characterize the requirements for a number of campus use cases, and to enable cyberinfrastructure support staff to better understand the needs of the researchers within the community.

96 KNOWLEDGE MANAGEMENT AND PRESERVATION↗

San Diego State University Requirements Analysis Report

EPOC uses the Deep Dive process to discuss and analyze current and planned science, research, or education activities and the anticipated data output of a particular use case, site, or project to help inform the strategic planning of a campus or regional networking environment. This includes understanding future needs related to network operations, network capacity upgrades, and other technological service investments. A Deep Dive comprehensively surveys major research stakeholders’ plans and processes in order to investigate data management requirements over the next 5–10 years. Between December 2021 and April 2022 staff members from the Engagement and Performance Operations Center (EPOC) met with researchers and staff from San Diego State University (SDSU) the purpose of a Deep Dive into scientific and research drivers. The goal of this activity was to help characterize the requirements for a number of campus use cases, and to enable cyberinfrastructure support staff to better understand the needs of the researchers within the community.

96 KNOWLEDGE MANAGEMENT AND PRESERVATION↗

Arizona State University Requirements Analysis Report

EPOC uses the Deep Dive process to discuss and analyze current and planned science, research, or education activities and the anticipated data output of a particular use case, site, or project to help inform the strategic planning of a campus or regional networking environment. This includes understanding future needs related to network operations, network capacity upgrades, and other technological service investments. A Deep Dive comprehensively surveys major research stakeholders’ plans and processes in order to investigate data management requirements over the next 5–10 years. Between October 2021 and February 2022 staff members from the Engagement and Performance Operations Center (EPOC) met with researchers and staff from Arizona State University (ASU) for the purpose of a Deep Dive into scientific and research drivers. The goal of this activity was to help characterize the requirements for a number of campus use cases, and to enable cyberinfrastructure support staff to better understand the needs of the researchers within the community.

96 KNOWLEDGE MANAGEMENT AND PRESERVATION↗

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↗

An open-source data storage and visualization platform for collaborative qubit control

Developing collaborative research platforms for quantum bit control is crucial for driving innovation in the field, as they enable the exchange of ideas, data, and implementation to achieve more impactful outcomes. Furthermore, considering the high costs associated with quantum experimental setups, collaborative environments are vital for maximizing resource utilization efficiently. However, the lack of dedicated data management platforms presents a significant obstacle to progress, highlighting the necessity for essential assistive tools tailored for this purpose. Current qubit control systems are unable to handle complicated management of extensive calibration data and do not support effectively visualizing intricate quantum experiment outcomes. In this paper, we introduce Qubit Control Storage and Visualization ( QubiCSV ), a platform specifically designed to meet the demands of quantum computing research, focusing on the storage and analysis of calibration and characterization data in qubit control systems. As an open-source tool, QubiCSV facilitates efficient data management of quantum computing, providing data versioning capabilities for data storage and allowing researchers and programmers to interact with qubits in real time. The insightful visualization are developed to interpret complex quantum experiments and optimize qubit performance. QubiCSV not only streamlines the handling of qubit control system data but also improves the user experience with intuitive visualization features, making it a valuable asset for researchers in the quantum computing domain.

97 MATHEMATICS AND COMPUTING↗

AmeriFlux FLUXNET-1F US-xAE NEON Klemme Range Research Station (OAES)

This is the AmeriFlux Management Project (AMP) created FLUXNET-1F version of the carbon flux data for the site US-xAE NEON Klemme Range Research Station (OAES). This is the FLUXNET version of the carbon flux data for the site US-xAE NEON Klemme Range Research Station (OAES) produced by applying the standard ONEFlux (1F) software. Site Description - The 1,560-acre Klemme Range Research Station is a grassland site managed for livestock grazing and pasture, located in the middle of the Rolling Red Plains Resource Area. The Rolling Red Plains extends from south of the Red River to north of the Oklahoma/Kansas border consisting of approximately 9.4 million acres, which occupies a significant portion of Western Oklahoma excluding the Oklahoma Panhandle.

Network), NEON (National Ecological Observatory↗

AmeriFlux FLUXNET-1F CA-ER1 Elora Research Station

This is the AmeriFlux Management Project (AMP) created FLUXNET-1F version of the carbon flux data for the site CA-ER1 Elora Research Station. This is the FLUXNET version of the carbon flux data for the site CA-ER1 Elora Research Station produced by applying the standard ONEFlux (1F) software. Site Description - This is an agricultural site that typically grows corn. It is part of a larger research project on N2O fluxes from different fertilizer treatments. The site is relatively flat and homogenous. The site has been managed as agricultural land since the 1960’s and records exist of the previously-grown crops.

Wagner-Riddle, Claudia↗

Automated Network Services for Exascale Data Movement

The Large Hadron Collider (LHC) experiments distribute data by leveraging a diverse array of National Research and Education Networks (NRENs), where experiment data management systems treat networks as a “blackbox” resource. After the High Luminosity upgrade, the Compact Muon Solenoid (CMS) experiment alone will produce roughly 0.5 exabytes of data per year. NREN Networks are a critical part of the success of CMS and other LHC experiments. However, during data movement, NRENs are unaware of data priorities, importance, or need for quality of service, and this poses a challenge for operators to coordinate the movement of data and have predictable data flows across multi-domain networks. The overarching goal of SENSE (The Software-defined network for End-to-end Networked Science at Exascale) is to enable National Labs and universities to request and provision end-to-end intelligent network services for their application workflows leveraging SDN (Software-Defined Networking) capabilities. This work aims to allow LHC Experiments and Rucio, the data management software used by CMS Experiment, to allocate and prioritize certain data transfers over the wide area network. In this paper, we will present the current progress of the integration of SENSE, Multi-domain end-to-end SDN Orchestration with QoS (Quality of Service) capabilities, with Rucio, the data management software used by CMS Experiment.

Balcas, Justas↗

Host genetic variation drives the differentiation in the ecological role of the native Miscanthus root-associated microbiome

Microbiome recruitment is influenced by plant host, but how host plant impacts the assembly, functions, and interactions of perennial plant root microbiomes is poorly understood. Here we examined prokaryotic and fungal communities between rhizosphere soils and the root endophytic compartment in two native Miscanthus species (Miscanthus sinensis and Miscanthus floridulus) of Taiwan and further explored the roles of host plant on root-associated microbiomes. Our results suggest that host plant genetic variation, edaphic factors, and site had effects on the root endophytic and rhizosphere soil microbial community compositions in both Miscanthus sinensis and Miscanthus floridulus, with a greater effect of plant genetic variation observed for the root endophytic communities. Host plant genetic variation also exerted a stronger effect on core prokaryotic communities than on non-core prokaryotic communities in each microhabitat of two Miscanthus species. From rhizosphere soils to root endophytes, prokaryotic co-occurrence network stability increased, but fungal co-occurrence network stability decreased. Furthermore, we found root endophytic microbial communities in two Miscanthus species were more strongly driven by deterministic processes rather than stochastic processes. Root-enriched prokaryotic OTUs belong to Gammaproteobacteria, Alphaproteobacteria, Betaproteobacteria, Sphingobacteriia, and [Saprospirae] both in two Miscanthus species, while prokaryotic taxa enriched in the rhizosphere soil are widely distributed among different phyla. We provide empirical evidence that host genetic variation plays important roles in root-associated microbiome in Miscanthus. The results of this study have implications for future bioenergy crop management by providing baseline data to inform translational research to harness the plant microbiome to sustainably increase agriculture productivity.

54 ENVIRONMENTAL SCIENCES↗

A2SD: Accelerating Scientific Innovation Through Autonomous Discovery Systems

The 2025 Advancing Autonomous Scientific Discovery (A2SD) workshop convened researchers from academia, national laboratories, and industry to explore the transformative role of autonomy in scientific discovery. The workshop highlighted a convergence of artificial intelligence, robotics, and computational workflows into autonomous systems capable of accelerating the scientific process. Presentations and discussions spanned autonomous experimentation, intelligent workflow orchestration, digital twins, and agent-based systems for managing complex research ecosystems. Key challenges discussed included interoperability across heterogeneous infrastructures, near real-time data management under FAIR principles, reproducibility, and the integration of human oversight. The workshop also emphasized the need for modular software interfaces, federated learning models, and education initiatives to support a next-generation scientific workforce.

Taufer, Michela [University of Tennessee, Knoxvill↗

Editorial: Sorption processes in nuclear waste management: data knowledge management and new methodologies for data acquisition/prediction

A fundamental approach to Nuclear Waste Repository research involves the collection of experimental data in a laboratory setting, development of empirical and/or mechanistic numerical models representing those observations, and application of these models (or Reduced Order Models) into reactive transport and performance assessment models as predictive tools for informing society of impacts and risks associated with nuclear waste repository scenarios (Stevens et al., 2020). Therefore, the assimilation and interpretation of experimental data must take advantage of both new data and the rich historical data available in the literature and apply novel modeling approaches to improve predictive tools, particularly from the standpoint of uncertainty quantification, for nuclear waste repository performance assessment (Zavarin et al., 2022).

sorption↗

AmeriFlux FLUXNET-1F US-xJE NEON Jones Ecological Research Center (JERC)

This is the AmeriFlux Management Project (AMP) created FLUXNET-1F version of the carbon flux data for the site US-xJE NEON Jones Ecological Research Center (JERC). This is the FLUXNET version of the carbon flux data for the site US-xJE NEON Jones Ecological Research Center (JERC) produced by applying the standard ONEFlux (1F) software. Site Description - This terrestrial relocatable field site is located in the Joseph Jones Ecological Research Center is an 11,000-hectare reserve located within the Lower Coastal Plains and Flatwoods areas in southern Georgia. The Jones site has been managed with low intensity, dormant-season prescribed fires for the past 75 years at a frequency of every 3-4 years.

Network), NEON (National Ecological Observatory↗

Managing Software Provenance to Enhance Reproducibility in Computational Research

Scientific processes rely on software as an important tool for data acquisition, analysis, and discovery. Over the years, sustainable software development practices have made progress in being considered as an integral component of research. However, management of computation-based scientific studies is often left to individual researchers who design their computational experiments based on personal preferences and the nature of the study. Here, we believe that the quality, efficiency, and reproducibility of computation-based scientific research can be improved by explicitly creating an execution environment that allows researchers to provide a clear record of traceability. This is particularly relevant to complex computational studies in high-performance computing (HPC) environments. In this article, we review the documentation required to maintain a comprehensive record of HPC computational experiments for reproducibility. We also provide an overview of tools and practices that we have developed to perform such studies around Flash-X, a multiphysics scientific software.

97 MATHEMATICS AND COMPUTING↗