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Search indexed NASA NTRS and DOE OSTI research on propulsion, heat transfer, battery materials and energy systems. Follow report and document links to the original sources.

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At least 523 records · Page 29

Generative deep-learning reveals collective variables of Fermionic systems

Complex processes of fermionic systems ranging from protein folding to nuclear fission often follow a low-dimensional reaction path parametrized in terms of a few collective variables. In nuclear theory, variables related to the shape of the nuclear density in a mean-field picture are key to describing the large amplitude collective motion of the neutrons and protons. Exploring the adiabatic energy landscape spanned by these degrees of freedom reveals the possible reaction channels while simulating the dynamics in this reduced space yields their respective probabilities. Unfortunately, this theoretical framework breaks down whenever the systems encounters a quantum phase transition with respect to the collective variables. Here, in this study, we introduce a novel generative deep-learning algorithm designed to build reaction paths that ensure that the many-fermion wave function stays differentiable with respect to the collective variables. This approach is applicable to any fermionic system described by a coherent state. We use the case of potential energy curves in the 16 O nucleus within the Hartree-Fock theory to illustrate its main features.

73 NUCLEAR PHYSICS AND RADIATION PHYSICS↗

Identification of ancestral gnathostome Gli3 enhancers with activity in mammals

Abnormal expression of the transcriptional regulator and hedgehog (Hh) signaling pathway effector Gli3 is known to trigger congenital disease, most frequently affecting the central nervous system (CNS) and the limbs. Accurate delineation of the genomic cis-regulatory landscape controlling Gli3 transcription during embryonic development is critical for the interpretation of noncoding variants associated with congenital defects. Here, we employed a comparative genomic analysis on fish species with a slow rate of molecular evolution to identify seven previously unknown conserved noncoding elements (CNEs) in Gli3 intronic intervals (CNE15–21). Transgenic assays in zebrafish revealed that most of these elements drive activities in Gli3 expressing tissues, predominantly the fins, CNS, and the heart. Intersection of these CNEs with human disease associated SNPs identified CNE15 as a putative mammalian craniofacial enhancer, with conserved activity in vertebrates and potentially affected by mutation associated with human craniofacial morphology. Finally, comparative functional dissection of an appendage-specific CNE conserved in slowly evolving fish (elephant shark), but not in teleost (CNE14/hs1586) indicates co-option of limb specificity from other tissues prior to the divergence of amniotes and lobe-finned fish. In conclusion, these results uncover a novel subset of intronic Gli3 enhancers that arose in the common ancestor of gnathostomes and whose sequence components were likely gradually modified in other species during the process of evolutionary diversification.

59 BASIC BIOLOGICAL SCIENCES↗

MjCyc: Rediscovering the pathway-genome landscape of the first sequenced archaeon, Methanocaldococcus (Methanococcus) jannaschii

The genome of Methanocaldococcus (Methanococcus) jannaschii DSM 2661 was the first Archaeal genome to be sequenced in 1996. Subsequent sequence-based annotation cycles led to its first metabolic reconstruction in 2005. Leveraging new experimental results and function assignments, we have now re-annotated M. jannaschii, creating an updated resource with novel information and testable predictions in a pathway-genome database available at BioCyc.org. This reannotation effort has resulted in 652 function assignments with enzyme roles, accounting for a third of the total protein-coding entries for this genome. The updated resource includes 883 reactions, 540 enzymes, and 142 individual pathways. Despite notable progress in computational genomics, more than a third of the genome remains functionally uncharacterized. The publicly available MjCyc pathway-genome database holds great potential for the wider community to conduct research on the biology of methanogenic Archaea.

59 BASIC BIOLOGICAL SCIENCES↗

Strategic Energy Management Program Persistence and Cost Effectiveness An Analysis of the SEM Program Landscape

This study examines the relationship between strategic energy management (SEM) programs and their persistence and cost effectiveness, with analysis based on interview data from 24 SEM program administrators, SEM program evaluations, and other reports. The 80 interview questions focused on the topics of program design, energy savings, energy savings persistence, cost effectiveness, and customer SEM persistence. The generosity of interview respondents provided a wealth of data, resulting in a report of sufficient length to warrant inclusion of this brief guide of the report structure. The major sections are listed below with brief descriptions. Individual sections of this report are mainly stand-alone and do not require reading of other sections. As a result, there is some duplication between sections, but with differing levels of detail. Executive Summary: Presents three key conclusions of this work with a short description of potential actions to advance the understanding of each key finding. Brief Observations: Lists a large number of bulleted observations resulting from this research, arranged by the five major topic areas included in the interviews. Analysis details are provided in the Analysis of Interview Results section. Foundations for this Research: Provides an overview of SEM, SEM frameworks, SEM programs, the topics of persistence and cost effectiveness, and the focus of this research. Methodology: Details the approach and strategy of this research, providing background information relevant to the formulation of interview questions and the identification of which SEM programs to interview. Observations from Compiled Evaluations and Other Reports: Reports observations from the collection and analysis of program evaluations, annual reports, utility planning documents, and SEM-related white papers. This section, presented in bullet form, highlights challenges in data collection and ultimately a comparison of program practices as they pertain to persistence and cost effectiveness. Analysis of Interview Results: Presents detailed analysis of responses from SEM program administrators, arranged by the five major categories examined: program design, energy savings, energy savings persistence, cost effectiveness, and customer SEM persistence. Interview questions are generally grouped together into subsections when it makes sense to examine them together. SEM Programs Challenge Traditional Cost-Effectiveness Metrics: Details an analysis based on five key factors showing that applying traditional cost-effectiveness metrics to SEM programs is not straightforward. This invites the opportunity to consider whether traditional cost-effectiveness metrics are applicable to SEM programs, either individually or at large. Resolution of Research Hypotheses: Tabulates a set of hypotheses that were developed to address the fundamental nature of the research at hand. Analysis of responses to multiple questions informs an understanding of each hypothesis and can be used to better understand the SEM program environment at large.

32 ENERGY CONSERVATION, CONSUMPTION, AND UTILIZATI↗

Self-driving laboratories to autonomously navigate the protein fitness landscape

Abstract Protein engineering has nearly limitless applications across chemistry, energy and medicine, but creating new proteins with improved or novel functions remains slow, labor-intensive and inefficient. Here we present the Self-driving Autonomous Machines for Protein Landscape Exploration (SAMPLE) platform for fully autonomous protein engineering. SAMPLE is driven by an intelligent agent that learns protein sequence–function relationships, designs new proteins and sends designs to a fully automated robotic system that experimentally tests the designed proteins and provides feedback to improve the agent’s understanding of the system. We deploy four SAMPLE agents with the goal of engineering glycoside hydrolase enzymes with enhanced thermal tolerance. Despite showing individual differences in their search behavior, all four agents quickly converge on thermostable enzymes. Self-driving laboratories automate and accelerate the scientific discovery process and hold great potential for the fields of protein engineering and synthetic biology.

Rapp, Jacob T. (ORCID:0000000226835204)↗

Identifying a next-generation antimalarial trioxolane in a landscape of artemisinin partial resistance

For over two decades, artemisinin-based combination therapy (ACT) has been the standard of care for the treatment of uncomplicated falciparum malaria. However, artemisinin partial resistance (ART-R) is now prevalent in Southeast Asia and has emerged in eastern Africa, threatening ACT efficacy. Artefenomel, a synthetic 1,2,4-trioxolane, exhibits an extended pharmacokinetic exposure profile that predicts for efficacy against ART-R parasites. Unfortunately, the development of artefenomel was halted recently after almost a decade in the clinic. Here, we describe studies of an artefenomel-adjacent chemotype that combines potent in vitro activity against clinical ART-R parasites, an extended pharmacokinetic profile with single-exposure efficacy in a murine malaria model, and enhanced stability in human microsomes and hepatocytes. Overall, our studies reveal a heretofore underexplored trioxolane chemotype with the potential to address ART-R in a next-generation trioxolane development candidate.

Science & Technology - Other Topics↗

Agent-based modeling to evaluate the effects of harvesting biomass and hunting on ring-necked pheasant ( Phasianus colchicus ) populations

As the US strives to divest from fossil fuels, dedicated energy crops have increased in popularity because of their potential to serve as a renewable source of transportation fuel and biomass-generated electricity. Whereas the impacts of crop agriculture on biodiversity have been well-documented, less is known about the potential impacts that growing bioenergy crops could have on wildlife. Here we look specifically at the ring-necked pheasant (Phasianus colchicus) and how pheasant populations may be influenced by growing and harvesting bioenergy crops. We explored effects of temporal harvest strategies at the field scale on biomass yield and pheasant population size. To investigate, we developed an agent-based model (ABM) that simulates ring-necked pheasants, tractors, hunters, and vegetation classes. One such vegetation class is land that is enrolled in a Conservation Reserve Program (CRP) plan specifically targeting pheasant conservation. Using this ABM, we assessed four different landscapes—corn-dominated, CRP-dominated, grassland-dominated, and mixed landscape—under strategies that varied the time of harvest. We also used ecological valuation to compare scenario outcomes from an economic perspective. We determined that biomass yield and pheasant population size were sensitive to harvesting times. Our scenarios totaled between ~$931,000 (minimum) and $3.8 million (maximum) over all landscapes, though on average harvesting in late spring generated the most value ($2.45 million) and harvesting in fall was a close second in terms of profitability ($2.39 million).

59 BASIC BIOLOGICAL SCIENCES↗

A Community Roadmap for Scientific Workflows Research and Development

The landscape of workflow systems for scientific applications is notoriously convoluted with hundreds of seemingly equivalent workflow systems, many isolated research claims, and a steep learning curve. To address some of these challenges and lay the groundwork for transforming workflows research and development, the WorkflowsRI and ExaWorks projects partnered to bring the international workflows community together. This paper reports on discussions and findings from two virtual “Workflows Community Summits” (January and April, 2021). The overarching goals of these workshops were to develop a view of the state of the art, identify crucial research challenges in the workflows community, articulate a vision for potential community efforts, and discuss technical approaches for realizing this vision. To this end, participants identified six broad themes: FAIR computational workflows; AI workflows; exascale challenges; APIs, interoperability, reuse, and standards; training and education; and building a workflows community. We summarize discussions and recommendations for each of these themes.

Ferreira Da Silva, Rafael↗

Expanding Configurational Complexity through Dipole Dilution in Pseudohalide Argyrodite Ion Conductors

The advantageous properties of (pseudo)halide argyrodite ion conductors of the formula Li 6 PS 5 X (X = Cl – , Br – , I – , CN – ) have motivated extensive studies of their structure-transport relationships, particularly as they pertain to the role of atomic site disorder. The argyrodite structure can accommodate additional configurational complexity to promote ion transport via extended three-anion site mixing and the potential for orientational disorder of molecular anions. In this work, we explore a ternary anion system including the cyanide anion, expanding site disorder and introducing dipolar orientations as an additional degree of freedom. We prepared the series Li 6 PS 5 (CN) 1–x Br x , in which the dipolar cyanide anions are systematically diluted with bromide. We find that anion disorder, as determined by synchrotron and neutron diffraction and quantified by configurational entropy (S config ), is correlated with lowered activation barriers and increased lithium ion conductivity. We propose that S config describes the electrostatic heterogeneity of the Li environments, flattening the energetic landscape for ion transport. While anion substitution strongly impacts the activation barrier for transport, the temperature-independent Arrhenius prefactor does not follow the same trend. Through heat-capacity measurements of attempt frequency and deconvolution of terms within the prefactor, we rationalize the apparent decoupling of activation energy and prefactor to strong cyanide-lithium interactions that increase the entropy of migration. Together, these results expand the structure–property relationships in the argyrodite family to encompass multiple facets of disorder and the subsequent impact on lithium ion transport.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗

Linking Hydrology and Dissolved Organic Matter Characteristics in a Subtropical Wetland: A Long-Term Study of the Florida Everglades

Dissolved organic matter (DOM) acts as an important biogeochemical component of aquatic ecosystems that controls nutrient cycling, influences water quality, and links terrestrial and oceanic carbon pools, yet long-term studies of how changing environmental drivers alter its abundance and composition are rare. Using a ten-year, spatially explicit dataset from Everglades National Park (ENP), a globally significant wetland, we investigated the relationships between DOM quality/quantity and hydrologic/climatic drivers along two contrasting marsh-estuarine transects based on generalized linear modeling and a cumulative sums analysis. Analyses revealed distinct spatial, seasonal, and interannual patterns in variability of DOC and optical properties. Landscape-scale seasonal patterns showed an enrichment in microbial-like and protein-like DOM during the dry season relative to the wet season. We found that, while some compositional constituents varied with the solar calendar, responsive to temperature and photoperiod, others varied with the hydrologic calendar. Independent water level and discharge effects indicated strong hydrologic control on DOM quality that differed between the two transects, evidencing differences in their connectivity to areas of high agricultural activity. Across all sites, a significant long-term increasing trend in the fluorescence index was observed, associated with a positive correlation with precipitation and also potential changes in agricultural inputs, with other features associated with drought and hurricanes. Lastly, the cumulative sums analysis revealed differences between the two transects in the sensitivity of DOM composition to decreased water levels associated with 30-year climate scenarios, with the less hydrologically dynamic transect exhibiting greater potential sensitivity.

54 ENVIRONMENTAL SCIENCES↗

Transcriptome and DNA methylome divergence of inflorescence development between 2 ecotypes in Panicum hallii

The morphological diversity of the inflorescence determines flower and seed production, which is critical for plant adaptation. Hall's panicgrass (Panicum hallii, P. hallii) is a wild perennial grass that has been developed as a model to study perennial grass biology and adaptive evolution. Highly divergent inflorescences have evolved between the 2 major ecotypes in P. hallii, the upland ecotype (P. hallii var hallii, HAL2 genotype) with compact inflorescence and large seed and the lowland ecotype (P. hallii var filipes, FIL2 genotype) with an open inflorescence and small seed. Here we conducted a comparative analysis of the transcriptome and DNA methylome, an epigenetic mark that influences gene expression regulation, across different stages of inflorescence development using genomic references for each ecotype. Global transcriptome analysis of differentially expressed genes (DEGs) and co-expression modules underlying the inflorescence divergence revealed the potential role of cytokinin signaling in heterochronic changes. Comparing DNA methylome profiles revealed a remarkable level of differential DNA methylation associated with the evolution of P. hallii inflorescence. We found that a large proportion of differentially methylated regions (DMRs) were located in the flanking regulatory regions of genes. Intriguingly, we observed a substantial bias of CHH hypermethylation in the promoters of FIL2 genes. The integration of DEGs, DMRs, and $K_a$/$K_s$ ratio results characterized the evolutionary features of DMR-associated DEGs that contribute to the divergence of the P. hallii inflorescence. This study provides insights into the transcriptome and epigenetic landscape of inflorescence divergence in P. hallii and a genomic resource for perennial grass biology.

59 BASIC BIOLOGICAL SCIENCES↗

Responsibly Harnessing the Power of AI

Artificial Intelligence (AI) based applications are on the cusp of offering the public and private sectors tools of tremendous potential that will likely transform the world in much the same way that previous technological revolutions have. To harness these tools, a vast and rapidly increasing assortment of ethical AI guidelines and principles are being developed to manage the myriad of risks these tools pose. Documents, frameworks, standards, and regulations have been developed by private industry, research institutions, governments and nongovernmental organizations, international standards bodies and more. This work details representative approaches to ethically developing, managing, and operating current AI technologies. The various approaches are analyzed for commonality, divergence, and implementation strategy to help develop approaches for managing AI tools in the nuclear landscape. This work will support the creation of a common vocabulary and a deeper understanding of the ethical/ responsible AI landscape and advance the considerations required for structured frameworks in the international safeguards domain.

98 NUCLEAR DISARMAMENT, SAFEGUARDS, AND PHYSICAL P↗

Charge order landscape and competition with superconductivity in kagome metals

In the kagome metals AV 3 Sb 5 (A = K, Rb, Cs), three-dimensional charge order is the primary instability that sets the stage for other collective orders to emerge, including unidirectional stripe order, orbital flux order, electronic nematicity and superconductivity. In this report we use high-resolution angle-resolved photoemission spectroscopy to determine the microscopic structure of three-dimensional charge order in AV 3 Sb 5 and its interplay with superconductivity. Our approach is based on identifying an unusual splitting of kagome bands induced by three-dimensional charge order, which provides a sensitive way to refine the spatial charge patterns in neighbouring kagome planes. Here we found a marked dependence of the three-dimensional charge order structure on composition and doping. The observed difference between CsV 3 Sb 5 and the other compounds potentially underpins the double-dome superconductivity in CsV 3 (Sb,Sn) 5 and the suppression of T c in KV 3 Sb 5 and RbV 3 Sb 5 . Our results provide fresh insights into the rich phase diagram of AV 3 Sb 5 .

75 CONDENSED MATTER PHYSICS, SUPERCONDUCTIVITY AND↗

Integrating Marine Hydrokinetic and Offshore Wind Energy: A Review of Technologies, Deployment, and Challenges

Together, offshore wind (OSW) and marine hydrokinetic (MHK) technologies have vast potential to expand the world’s access to abundant energy resource. With more than 60 GW of offshore wind energy capacity and 527 MW of ocean energy deployed globally by 2023, there is a significant amount of available resources; however, technical and non-technical challenges prevent the combined large-scale deployment of these technologies. There is still a lack of research that provides a parallel review of both MHK and OSW technologies in order to better understand their synergistic working principles. This paper aimed to address that research gap by presenting a comprehensive side-by-side review of the worldwide technological landscape, global deployment trends, integration strategies, and modeling approaches for MHK and OSW. A particular focus has been given on analyzing existing modeling and simulation techniques, assessing integration and control strategies, and comparing technologies based on water depth. Furthermore, this study provides important insights into the readiness levels of both technologies by highlighting ongoing international projects. By addressing these issues, this review will give researchers and industry stakeholders an outline for assessing the maturity of OSW and MHK systems and facilitating their transition to large-scale, sustainable deployment.

16 - TIDAL AND WAVE POWER↗

Idaho National Laboratory Site Natural Resources: Wildland Fire Recovery Framework

As pressures from invasive species, climate change, and anthropogenic impacts increase across the landscape in the western U.S., managing wildland fire recovery to promote healthy sagebrush steppe becomes an increasingly important stewardship responsibility. The Idaho National Laboratory (INL) has developed and implemented wildland fire recovery plans to hasten desirable vegetation re-establishment on several individual fires, but lacks an overarching wildland fire recovery strategy, or framework. The intent of this document is to develop the technical approach and scientific basis for wildland fire recovery at the INL Site and to evaluate the tools available to support it in a comprehensive and broadly applicable format. This wildland fire recovery framework will outline the process of assessing the potential impacts of wildland fire on natural resources, present a range of post-fire recovery options, outline an approach for post-fire monitoring, and provide a template for post-fire recovery plans designed to addresses the specific conditions of each wildland fire. There are numerous benefits to developing a wildland fire recovery framework for the INL Site. The first is streamlining the development of post-fire recovery plans for individual fires. A second benefit is more closely aligning INL’s post-fire planning processes with those of other federal agencies. The development of an INL Site fire recovery framework will also allow resource professionals to consider a broader set of recovery tools than they have before because all proposed tools included in the framework were vetted through the process of scoping and stakeholder review. Finally, this framework is a publicly available document that can be used as a basis for communicating and discussing post-fire natural resource recovery objectives with agency collaborators, conservation partners, and other stakeholders. Through the proactive land stewardship principles outlined in this framework, current INL sustainability initiatives can be enhanced, and future INL mission flexibility will be maintained.

99 GENERAL AND MISCELLANEOUS↗

Detector Materials Scoping Study: Research and Development Recommendations

Radiation detection materials have a unique role in many nuclear security missions. The variety of different applications requires the use of different materials whose characteristics are determined by the specific application requirements. While baseline capabilities have been established to use radiation detection in these applications, the potential to greatly advance those capabilities still exists through the development of superior radiation detection materials and/or the development of new materials that enable new technologies to be implemented more effectively. In 2024 the Defense Nuclear Nonproliferation Research and Development (DNN R&D) Near Field Detection Portfolio charged a detector materials scoping study, composed of a group of radiation-detection materials subject matter experts, to produce a community-wide consensus view of the current state of radiation materials research and to set recommendations for expanded investment over a ten-year time frame. This scoping study sought to understand and document the landscape of how radiation detection materials are used, what characteristics drive the selection of various materials, and what developments are needed to drive the state of the art. To respond to this charge, the scoping study created three working groups, each focusing on a different topical area in radiation detection materials research - Semiconductor Materials, Inorganic Scintillators and Organic Scintillators - with the task to identify the current state of the art in materials research and to provide mission-relevant research and development recommendations. Each working group was chaired by two members of the project team with widely recognized expertise in the field. Solicitations were sent out to experts at the DOE national laboratories, industry, academia and federal government agencies to participate in these working groups. The working groups met at regular intervals throughout 2024 and early 2025, each delivering a technical roadmap designed to enable the pursuit of R&D more intensely on high-impact materials challenges and detector solutions that are deemed as the greatest strategic value to DNN R&D and its stakeholders. The roadmap is also intended to help communicate recommended programmatic priorities within DNN R&D and across the nonproliferation and research communities.

36 MATERIALS SCIENCE↗

Integrating very-high-resolution UAS data and airborne imaging spectroscopy to map the fractional composition of Arctic plant functional types in Western Alaska

Widespread changes in vegetation cover and composition are driving strong impacts on Arctic ecosystem functioning and global climate feedbacks. An accurate characterization of tundra vegetation composition is required to understand how the Arctic will respond to future climate change. However, quantifying tundra vegetation composition over large areas is challenging as commonly-used satellite observations are too coarse, spatially and spectrally, to differentiate low-lying tundra vegetation types. Recent airborne and spaceborne imaging spectroscopy platforms provide better data to characterize vegetation composition. Yet, our ability to characterize vegetation composition with imaging spectroscopy remains largely unexplored in the Arctic, particularly due to a lack of ground observations needed to train and test classification models. To address this problem, we collected very-high-resolution (VHR, ~5 cm) unoccupied aerial system (UAS) imagery at three low-Arctic tundra sites located on the Seward Peninsula, western Alaska. In this paper, we examine the feasibility of integrating imagery from the UAS and the hyperspectral Airborne Visible/Infrared Imaging Spectrometer, Next Generation (AVIRIS-NG) airborne instrument to map the fractional composition of 12 key Arctic plant functional types (PFTs). To this end, we first mapped the 12 PFTs from our VHR UAS imagery using random forest classification. We then used these UAS-derived PFT maps as ground truth to develop partial least squares regression (PLSR) models to predict the fractional cover (FCover) of each PFT from AVIRIS-NG imagery. Further, we evaluated the performance of our PLSR models using reserved UAS samples, as well as by mapping PFT FCover and dominant PFT for large tundra landscapes. Our results show that 1) Arctic PFTs can be effectively mapped using VHR UAS imagery, with overall accuracy between 86% and 92%, 2) when the UAS mapped PFTs were used to inform PLSR scaling models, the FCover of the 12 PFTs could be effectively estimated from AVIRIS-NG imagery with a mean absolute error (MAE) <0.13, and 3) our PLSR models outperformed traditional, fully constrained least-squares (FCLS) linear mixture analysis and produced high-quality, spatially contiguous PFT FCover and PFT maps that captured vegetation spatial patterns with similar accuracy to those developed from UAS imagery. The developed PLSR models have the potential to be broadly applied for quantifying vegetation composition with AVIRIS-NG images to help monitor tundra vegetation dynamics and improve process-based modeling of tundra ecosystems.

54 ENVIRONMENTAL SCIENCES↗

Structure of an RNA G-quadruplex from the West Nile virus genome

Potential G-quadruplex sites have been identified in the genomes of DNA and RNA viruses and proposed as regulatory elements. The genus Orthoflavivirus contains arthropod-transmitted, positive-sense, single-stranded RNA viruses that cause significant human disease globally. Computational studies have identified multiple potential G-quadruplex sites that are conserved across members of this genus. Subsequent biophysical studies established that some G-quadruplexes predicted in Zika and tickborne encephalitis virus genomes can form and known quadruplex binders reduced viral yields from cells infected with these viruses. The susceptibility of RNA to degradation and the variability of loop regions have made structure determination challenging. Despite these difficulties, we report a high-resolution structure of the NS5-B quadruplex from the West Nile virus genome. Analysis reveals two stacked tetrads that are further stabilized by a stacked triad and transient noncanonical base pairing. This structure expands the landscape of solved RNA quadruplex structures and demonstrates the diversity and complexity of biological quadruplexes. We anticipate that the availability of this structure will assist in solving further viral RNA quadruplexes and provides a model for a conserved antiviral target in Orthoflavivirus genomes.

60 APPLIED LIFE SCIENCES↗