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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 163 records · Page 9
All sourcesNASA NTRSDOE OSTI
DOE OSTI2019

Inference and analysis of population-specific fine-scale recombination maps across 26 diverse human populations

Fine-scale rates of meiotic recombination vary by orders of magnitude across the genome and differ between species and even populations. Studying cross-population differences has been stymied by the confounding effects of demographic history. To address this problem, we developed a demography-aware method to infer fine-scale recombination rates and applied it to 26 diverse human populations, inferring population-specific recombination maps. These maps recapitulate many aspects of the history of these populations including signatures of the trans-Atlantic slave trade and the Iberian colonization of the Americas. We also investigated modulators of the local recombination rate, finding further evidence that Polycomb group proteins and the trimethylation of H3K27 elevate recombination rates. Further differences in the recombination landscape across the genome and between populations are driven by variation in the gene that encodes the DNA binding protein PRDM9, and we quantify the weak effect of meiotic drive acting to remove its binding sites.

Science & Technology - Other Topics↗
NASA NTRSDate not supplied

Modeling of Cavity Residence Time via Modeled Lagrangian Particle Tracking

One of the critical components in a scramjet is the cavity flame holder. In evaluating the sizing of this component, the residence time of the fuel in the cavity is a common parameter used. However, to obtain the residence time via CFD is an expensive undertaking. One method is to perform an LES simulation of the cavity and use Lagrangian particle tracking to obtain both the mean and probability density function of the time that the particles remain in the cavity. While this method affords a significant amount of information, it is very costly in CPU run time. A simpler method involves performing a time accurate RANS simulation of the cavity, and when converged, overlay a traceable scalar in the cavity region, and then record the decay of this scalar’s flux at a downstream location. The time scale of the decay rate can then be estimated and a residence time inferred. This method is less computationally expensive than the LES approach, but still requires a time-accurate solution while only providing a mean cavity residence time evaluation. In this paper a method of determining the mean cavity residence time as well as the Probability Density Function (PDF) of the residence time is proposed and demonstrated. This method is based on Lagrangian particle tracking modeled by the Generalized Langevin Equation and is implemented as a post-processing step for a steady RANS solution. Computational cost is on the order of minutes and the results are in agreement with values obtained by the LES and scalar decay methods.

Langevin↗
NASA NTRS1989

Tropical oceanic rainfall - Estimation from SMMR and SSM/I

A method of inferring rainfall over oceans with Nimbus-7 SMMR data (Prabhakara et al., 1986) is improved by including data from the DMSP Special Sensor Microwave Imager (SSM/I). The microwave observations at low frequencies are compared with the SSM/I measurements at 85 GHz. The process used to analyze the microwave data and the retrieval method are described. A map of the monthly mean rainfall rate for July 1987 over the North and South Pacific Oceans is obtained using the SSM/I data.

Prabhakara, C.↗
DOE OSTI2021

Grandparent Inference from Genetic Data: The Potential for Parentage-Based Tagging Programs to Identify Offspring of Hatchery Strays

Abstract Fisheries managers routinely use hatcheries to increase angling opportunity. Many hatcheries operate as segregated programs where hatchery-origin fish are not intended to spawn with natural-origin conspecifics in order to prevent potential negative effects on the natural-origin population. Currently available techniques to monitor the frequency with which hatchery-origin strays successfully spawn in the wild rely on either genetic differentiation between the hatchery- and natural-origin fish or extensive sampling of fish on the spawning grounds. We present a method to infer grandparent–grandchild trios by using only genotypes from two putative grandparents and one putative grandchild. We developed estimators of false-positive and false-negative error rates and showed that genetic panels containing 500–700 single-nucleotide polymorphisms or 200–300 microhaplotypes are expected to allow application of this technique for monitoring segregated hatchery programs. We discuss the ease with which this technique can be implemented by pre-existing parentage-based tagging programs and provide an R package that applies the method.

Delomas, Thomas A. (ORCID:000000015154759X)↗
NASA NTRS1991

The analysis of apparent optical depth profiles for interstellar absorption lines

Attention is given to the apparent optical depth method, a procedure for analyzing interstellar absorption lines. Observed absorption-line profiles are converted into profiles of apparent optical depth, and apparent column density per unit velocity. By comparing the latter for a given interstellar species having two or more absorption lines which differ in the product, the presence or absence of unresolved saturated structure in the profiles can be directly inferred. The method is illustrated using absorption-line data from the IUE satellite for the highly ionized gas toward HD 64760. Additional illustrations and a study of the method's accuracy are provided through a series of numerical simulations of multicomponent interstellar absorption situations. The method is compared to the standard growth curve method for deriving interstellar column densities. The principal value of the apparent optical depth method is that the absorption-line data are directly converted into a form that provides for direct scientific interpretations of the physical conditions in the interstellar absorbing medium as a function of velocity.

Savage, Blair D.↗
DOE OSTI2025

Development of a forced advection sampling technique (FAST) for quantification of methane emissions from orphaned wells

Abstract. Orphaned wells, meaning unplugged and non-producing wells lacking responsible owners, pose a significant and undersampled environmental challenge due to their vast number and unknown associated emissions. We propose, develop and test an alternative method for estimating emissions from orphaned wells using a forced advection sampling technique (FAST) that can overcome many of the limitations in current methods (cost, accuracy, safety). In contrast to existing ambient Gaussian plume methods, our approach uses a fan-generated flow to force advection between the emission source and a point methane (CH4) sensor. The fan flow field is characterized using a colocated sonic anemometer to measure the 3D wind profile generated by the fan. Using time-series measurements of CH4 concentration and wind, a simple estimate of the CH4 emission rate of the source can be inferred. The method was calibrated using outdoor controlled-release experiments and then tested on four orphaned wells in Lufkin, TX, and Osage County, OK. Our results suggest that the FAST method can provide a low-cost, portable, fast and safe alternative to existing methods with reasonable estimates of orphaned well emissions over a range of leak rates below 40 g h−1 and within certain geometric and atmospheric constraints.

Dubey, Mohit L↗
NASA NTRS1990

Determination of cloud optical depth with the multiple field of view sun photometer

An approach to determining cloud optical depth is presented which utilizes a multiple-field-of-view sun photometer, along with modeled behavior of transmittance ratios as a function of the field of view, to infer the optical depth. The data used in the analysis were collected during the FIRE Stratocumulus IFO, which took place from July 15 to 17, 1987. Values which were taken within an hour of local solar noon are presented and compared with the values computed for mu sub 0 = 1.0. The zenith angle for the measurements was between 11 and 18 deg. It is found that this method of inferring the optical depth indicates most clouds with optical depths within these limits. The measured curves have a slightly different shape than do the modeled ratios.

Hein, Paul F.↗
DOE OSTI2023

Adaptive sampling for accelerating neutron diffraction-based strain mapping *

Abstract Neutron diffraction is a useful technique for mapping residual strains in dense metal objects. The technique works by placing an object in the path of a neutron beam, measuring the diffracted signals and inferring the local lattice strain values from the measurement. In order to map the strains across the entire object, the object is stepped one position at a time in the path of the neutron beam, typically in raster order, and at each position a strain value is estimated. Typical dwell times at neutron diffraction instruments result in an overall measurement that can take several hours to map an object that is several tens of centimeters in each dimension at a resolution of a few millimeters, during which the end users do not have an estimate of the global strain features and are at risk of incomplete information in case of instruments outages. In this paper, we propose an object adaptive sampling strategy to measure the significant points first. We start with a small initial uniform set of measurement points across the object to be mapped, compute the strain in those positions and use a machine learning technique to predict the next position to measure in the object. Specifically, we use a Bayesian optimization based on a Gaussian process regression method to infer the underlying strain field from a sparse set of measurements and predict the next most informative positions to measure based on estimates of the mean and variance in the strain fields estimated from the previously measured points. We demonstrate our real-time measure-infer-predict workflow on additively manufactured steel parts—demonstrating that we can get an accurate strain estimate even with 30%–40% of the typical number of measurements—leading the path to faster strain mapping with useful real-time feedback. We emphasize that the proposed method is general and can be used for fast mapping of other material properties such as phase fractions from time-consuming point-wise neutron measurements.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗
DOE OSTI2023

Variational Monte Carlo calculations of n + H 3 scattering

A paramount goal in nuclear physics is to unify ab initio treatments of bound and unbound states. The position-space quantum Monte Carlo (QMC) methods have a long history of successful bound-state calculations in light systems but have seen minimal implementation in unbound systems. Here, we introduce a numerical method to improve the efficiency and accuracy of unbound-state calculations in QMC. As an initial application, we compute scattering observables for the smallest system available to probe three-body forces, the neutron-triton system, using variational Monte Carlo (VMC) wave functions. The method involves inferring long-range amplitudes in the wave function from integrals over the short-range region where all the particles interact. This approach using integral relations is well established in the literature; here, we develop it for the QMC framework. We validate our approach with a consistency check between short-range spectroscopic overlap functions computed from direct evaluation and from the integral relations; scattering amplitudes are long-range asymptotics of those overlaps. Comparison against published benchmark calculations using the same potential demonstrates that when applied to the current VMC wave functions, the integral method produces more accurate scattering observables than direct evaluation from the same variational wave function. However, it still differs noticeably from the exact results. Using additional interactions, we then present phase shifts and mixing parameters for the n + 3 H system. In particular, we present one of the first applications of the Norfolk family of local coordinate-space chiral potentials in unbound systems of A > 2. The Norfolk results accurately describe s-wave scattering but predict p-wave cross sections too large. Compared with previous QMC scattering calculations, the integral method avoids difficulties associated with the precise computation of energy differences and with convergence outside the interaction region, which is particularly severe in the variational calculation. Application of the integral method here paves the way for its use in Green's function Monte Carlo (GFMC) calculations. In GFMC, the wave functions are more accurate, but the high-precision convergence of their tails is slow, and there are additional difficulties in reading out amplitudes. Here, the integral methods will address both of those remaining problems.

73 NUCLEAR PHYSICS AND RADIATION PHYSICS↗
DOE OSTI2019

HALA: Handy Accelerated Linear Algebra

Accelerated linear algebra libraries often come with C-style of interfaces or even older Fortran77 standards, which makes it difficult to use within generic template programming environment of modern C++. For example, the BLAS and derived standards such as cuBLAS do not accept overloads and a different functions have to be called for each input type, thus it is very challenging to write a single template that handles multiple precision modes and works well with different C++ containers. HALA offers a series of templates that wrap around the BLAS/cuBLAS and other similar methods, automatically infer the relevant types and call the appropriate back-end. The templates work out-of-the-box with all C++ standard vector-like containers and can be easily extended (with template specializations) to handle user-provided containers. The HALA API is also overloaded to handle both GPU and CPU cases with a single "engine" class, thus a single high-level algorithms can utilize both CPU or GPU backends, i.e., the HALA API is unified and handles the variations between cuBLAS and BLAS. In addition to BLAS and cuBLAS, wrapper templates are provided for subset of LAPACK, cuSparse, and Cholmod methods. Work is in progress to complete as many of these standards as possible. HALA also includes a module for low-level extended register vectorization for complex number arithmetic and several simple solvers that build on the basic linear algebra capabilities. A single unified C++ API will benefit fast prototyping and easily writing code that is portable across GPU/CPU platforms as well as precision types and user containers. Note that HALA does not provide any accelerated algorithms, it simply serves as a "handy" front-end to other standards.

Stoyanov, MiroslavK.↗
DOE OSTI2025

Compactly‐Supported Nonstationary Kernels for Computing Exact Gaussian Processes on Big Data

The Gaussian process (GP) is a widely used method for analyzing large-scale data sets, including spatio-temporal measurements of nonlinear processes that are now commonplace in the environmental sciences. Traditional implementations of GPs involve stationary kernels (also termed covariance functions) that limit their flexibility, and exact methods for inference that prevent application to data sets with more than about 10,000 points. Modern approaches to address stationarity assumptions generally fail to accommodate large data sets, while all attempts to address scalability focus on approximating the Gaussian likelihood, which can involve subjectivity and lead to inaccuracies. In this work, we explicitly derive an alternative kernel that can discover and encode both sparsity and nonstationarity. We embed the kernel within a fully Bayesian GP model and leverage high-performance computing resources to enable the analysis of massive data sets. We demonstrate the favorable performance of our novel kernel relative to existing exact and approximate GP methods across a variety of synthetic data examples. Furthermore, we conduct space–time prediction based on more than 1 million measurements of daily maximum temperature and verify that our results outperform state-of-the-art methods in the Earth sciences. More broadly, having access to exact GPs that use ultra-scalable, sparsity-discovering, nonstationary kernels allows GP methods to truly compete with a wide variety of machine learning methods.

Gaussian processes↗
DOE OSTI2018

Multimodal Nondestructive Dry Cask Basket Structure and Spent Fuel Evaluation

This NEUP-IRP assembled a team from diverse institutions and a diverse set of expertise to examine the problem of assessing the structural health of dry nuclear fuel storage casks, specifically the TN-32 design. With no physical access designed into these storage casks and the high cost and risk associated with opening casks for direct inspection, the technical difficulty of structural assessment of the basket structure and fuel assemblies is high. In response to this challenge, this IRP brought together experts in both traditional and novel NDE methodologies: active acoustics (University of Mississippi), emissions tomography (University of Florida), muon tomography (Oregon State University), and passive-active ultrasonics (University of South Carolina). Further, our industry partners in the Electric Power Research Institute (EPRI) and AREVA provided invaluable insight into technical design details for the cask, practical knowledge of operating parameters at a storage facility, and key relationships that enabled activities unforeseen at the time of the proposed work but were critical in guiding the path of the research. The team decided early in the project that we had a collective goal of laying the technical ground work for practical solutions that could be implemented in the field with reasonable cost, time, and reliability. A fortunate opportunity arose early in this IRP project to obtain access to a new TN-32 cask at Columbiana High Tech. Both acoustics teams were given access for testing concepts in the first year of the project. This ended up providing critical guidance in the design of subsequent laboratory experiments. Specifically, it became clear that the only reliable acoustic pathways to the interior were through the trunnions, base plate, and top ring of the cask. Based on these field tests and discussions about what would be of practical interest, the team as a whole decided a realistic goal was to detect catastrophic failure of a single fuel assembly, or one that was missing. It is clear from this work that the active acoustics / resonance and muon tomography methodologies would be capable of detecting interior structural integrity problems at this level. The other two areas of investigation (emissions tomography and passive/active ultrasonics) would need more testing to determine a successful implementation, but each may also have other applications such as long term monitoring and monitoring during transportation. This IRP project resulted in technical advances with applications that extend beyond the problem at hand, supported the training of 10 graduate students + 1 post doc, 21 publications, and 13 conference presentations. The remainder of this summary highlights significant activities and achievements in each of the methodologies and a brief discussion on how they can be combined to leverage strengths. Active Acoustics The active acoustics team at UM used both linear and non-linear structural resonance methods to infer information about the internal structure of a cask. Significant activities were a set of four field test measurements on a full scale TN-32 cask at the Columbiana Hi Tech facility in Greensboro, NC and the design and fabrication of a 1/6th scale model TN-32 cask for laboratory measurements. A significant set of acoustic data has been acquired on both the full scale and laboratory scale casks. It was determined early in the project that mechanical resonance techniques were not going to be sensitive to small scale (centimeter) cracks and structural defects in the basket structure or fuel assemblies. We were able to ascertain that both the energy and complexity of the resonance spectra were sensitive to “bulk state” of the fuel assemblies – an intact assembly versus a severely degraded assembly. By developing a novel combination of metrics, we are able to measure a statistically significant shift due to one out of the 32 fuel assemblies being either missing or degraded to a point of complete loss of structural coherence (i.e. “rubble”). We believe this combination of resonance metrics is new to the field and will have applications beyond the fuel storage problem. Emissions Tomography The Emissions Tomography team at the University of Florida explored the concept of using scattering of radiation emissions from the stored fuel as method of evaluating the internal structural health of the cask. Due to the need for emissive fuel assemblies and the difficulties of gaining access to storage facilities, this team primarily relied on simulations to inform feasibility. A key question was the flux estimates of neutrons with a small enough number of scattering events to retain spatial information. Some key conclusions from the transmission component of this work are that the number of scattering events falls rapidly with energy – setting a 11MeV threshold, the average number of scattering events is 8∓4. Rough estimates of scanning times using an ideal detector array would be 1 week. The team also explored the case of significant structural failure resulting in a shift of the source material (fuel). The result is that a +/- 2% mass shift results in a detectable (5.13%) shift in the correlated 2 neutron emission counts and thus may be a candidate as an initial survey. Finally, simulations for predicting the azimuthal dependence of the flux based on specific loading patterns were conducted. Due to self-shielding effects of the assemblies, a periodic pattern results and could potentially be used to identify missing or severely degraded assemblies. This work forms a basis for proper detector placement with the goal of optimizing sensitivity. Muon Tomography Muon tomography (MT) is a relatively novel method of interrogating interior structure on a large scale. One of the advantages of this technique is that the exciting energy source (cosmic muons) is ubiquitous and relatively stable in time. Challenging aspects are relatively low flux rates and appropriate detector technologies. The efforts of the muon group at Oregon State University focused on two areas: (1) simulation of various combinations of muon scattering events and detection schemes to assess sensitivities and time scales for image construction and (2) building a prototype muon detection system applicable to the dry storage cask problem as well as many other similar systems. Significant accomplishments in this area are: (1) demonstration that MT is a viable method for detecting missing or severely degraded rod assemblies, (2) a scintillation based detector with 4 panels and 32 channels of position data each were constructed, tested, and calibrated. Testing of the panels using natural muon background and no scattering objects yielded largely expected results – a straight line path for the muon through the four panels. However some anomalies (paths deviating from a line) were also detected. A redesign of the board improved the signal which greatly improved the muon tracking through the panels. Testing with lead bricks as scattering bodies showed a reduction in the coincidence rate with increasing bricks indicating increased scattering events. A refinement of the scintillator detector design resulted in a spatial image resolution of around 2 cm based on lead brick spacing tests lasting 24 hours. Passive/Active Ultrasonics This team at the University of South Carolina investigated the feasibility of combining passive ultrasonics, in which an elastic pulse is generated by a degradation process (such as a crack extending), and active ultrasonics, in which a known excitation is introduced into the structure and detected by an array of transducers. Significant accomplishments in this area include the development of elastic wave propagation simulation in relevant materials, development of diagnostic algorithms, and laboratory testing and validation using laser doppler vibrometry. This group demonstrated the applicability of various non-contact vibration detection methodologies such as air-coupled ultrasonic transducers and scanning laser doppler vibrometry. While passive acoustic emissions monitoring will likely have a role during the transportation of a fuel storage cask, the level of detailed information about the defect generating the event which can be ascertained from the detections in a complex structure remains for future work. Thermography The EPRI team contributed early in the project a series of thermography measurements in which various levels of water pooled in a mock-up canister were analyzed using commercially available infrared imaging technologies. While large levels of water (100 L, ~10 cm deep) were observable in the thermograms, more realistic levels of pooled water (1 L) were not detectable whether localized or distributed.

11 NUCLEAR FUEL CYCLE AND FUEL MATERIALS↗
DOE OSTI2020

Anelasticity and Phase Transition During Ramp-Release in Tin

This study examines the qualitative features of an anelasticity model associated with the bowing of dislocations in the presence of phase transition. A simple physically plausible mechanism is introduced to describe the interaction of anelasticity and the transformation. Varying the anelastic parameters results in strong differences in the deviatoric stress response. The model is applied to study the behavior of tin (Sn) and compared to data from ramp driven compression-release experiments. Tin exhibits a complex phase diagram within a relatively accessible range of temperature and pressures and the characterization of its phases is considered an open problem with significant scientific merit. The coupling between anelasticity, plasticity, and phase transformation contributes to release wave features traditionally associated with the phase transition effect alone suggesting the importance of accounting for the effects jointly. Posterior distributions of the plastic and anelastic parameters are computed using Bayesian-inference-based methods, further highlighting the importance of anelasticity in this regime.

36 MATERIALS SCIENCE↗
DOE OSTI2021

A fast multi-fidelity method with uncertainty quantification for complex data correlations: Application to vortex-induced vibrations of marine risers

Here we develop a fast multi-fidelity modeling method for very complex correlations between high- and low-fidelity data by working in modal space to extract the proper correlation function. We apply this method to infer the amplitude of motion of a flexible marine riser in cross-flow, subject to vortex-induced vibrations (VIV). VIV are driven by an absolute instability in the flow, which imposes a frequency (Strouhal) law that requires a matching with the impedance of the structure; this matching is easily achieved because of the rapid parametric variation of the added mass force. As a result, the wavenumber of the riser spatial response is within narrow bands of uncertainty. Hence, an error in wavenumber prediction can cause significant phase-related errors in the shape of the amplitude of response along the riser, rendering correlation between low- and high-fidelity data very complex. Working in modal space as outlined herein, dense data from low-fidelity data, provided by the semi-empirical computer code VIVA, can correlate in modal space with few high-fidelity data, obtained from experiments or fully-resolved CFD simulations, to correct both phase and amplitude and provide predictions that agree very well overall with the correct shape of the amplitude response. We also quantify the uncertainty in the prediction using Bayesian modeling and exploit this uncertainty to formulate an active learning strategy for the best possible location of the sensors providing the high fidelity measurements.

42 ENGINEERING↗
DOE OSTI2023

On the influence of over-parameterization in manifold based surrogates and deep neural operators

Constructing accurate and generalizable approximators (surrogate models) for complex physico-chemical processes exhibiting highly non-smooth dynamics is challenging. The main question is what type of surrogate models we should construct and should these models be under-parameterized or over-parameterized. In this work, we propose new developments and perform comparisons for two promising approaches: manifold-based polynomial chaos expansion (m-PCE) and the deep neural operator (DeepONet), and we examine the effect of over-parameterization on generalization. While m-PCE enables the construction of a mapping by first identifying low-dimensional embeddings of the input functions, parameters, and quantities of interest (QoIs), a neural operator learns the nonlinear mapping via the use of deep neural networks. Here, we demonstrate the performance of these methods in terms of generalization accuracy by solving the 2D time-dependent Brusselator reaction-diffusion system with uncertainty sources, modeling an autocatalytic chemical reaction between two species. We first propose an extension of the m-PCE by constructing a mapping between latent spaces formed by two separate embeddings of the input functions and the output QoIs. To further enhance the accuracy of the DeepONet, we introduce weight self-adaptivity in the loss function. We demonstrate that the performance of m-PCE and DeepONet is comparable for cases of relatively smooth input-output mappings. However, when highly non-smooth dynamics is considered, DeepONet shows higher approximation accuracy. We also find that for m-PCE, modest over-parameterization leads to better generalization, both within and outside of distribution, whereas aggressive over-parameterization leads to over-fitting. In contrast, an even highly over-parameterized DeepONet leads to better generalization for both smooth and non-smooth dynamics. Furthermore, we compare the performance of the above models with another recently proposed operator learning model, the Fourier Neural Operator, and show that its over-parameterization also leads to better generalization. Taken together, our studies show that m-PCE can provide very good accuracy at very low training cost, whereas a highly over-parameterized DeepONet can provide better accuracy and robustness to noise but at higher training cost. In both methods, the inference cost is negligible.

97 MATHEMATICS AND COMPUTING↗
DOE OSTI2025

A survey on degradation modeling, prognosis, and prognostics-driven maintenance in wind energy systems

Wind energy generation proliferated over the past decades, introducing unique challenges and opportunities for failure prediction, operation and maintenance. Decision-makers are continuously looking into new methods to infer failure mechanisms and behaviors of wind turbine components to detect and intervene in the failures before they happen. Evidently, degradation modeling and prognosis become engaging topics for researchers and practitioners to prevent catastrophic failures. Prognostics-driven approaches predict the time of failure for the components (e.g., predicting remaining useful life), which provides significant insights for scheduling of operations and maintenance activities. Integrating these prognostics-driven insights into wind farm operations and maintenance presents a substantial challenge, demanding careful consideration of numerous factors such as accessibility, crew routing, and spare part logistics. This study provides state-of-the-art review for degradation modeling, prognosis, and prognostics-driven maintenance techniques for wind energy systems. The discussed techniques align with the United Nations' sustainable development goals, in particular Goal 7 (Affordable and Clean Energy), by enhancing effectiveness and sustainability of wind energy operations. This work also showcases open research questions related to degradation modeling, prognosis, and prognostics-driven maintenance.

Altinpulluk, Nur Banu↗
DOE OSTI2024

An ontology-based knowledge graph for representing interactions involving RNA molecules

The "RNA world" represents a novel frontier for the study of fundamental biological processes and human diseases and is paving the way for the development of new drugs tailored to each patient's biomolecular characteristics. Although scientific data about coding and non-coding RNA molecules are constantly produced and available from public repositories, they are scattered across different databases and a centralized, uniform, and semantically consistent representation of the "RNA world" is still lacking. We propose RNA-KG, a knowledge graph (KG) encompassing biological knowledge about RNAs gathered from more than 60 public databases, integrating functional relationships with genes, proteins, and chemicals and ontologically grounded biomedical concepts. To develop RNA-KG, we first identified, pre-processed, and characterized each data source; next, we built a meta-graph that provides an ontological description of the KG by representing all the bio-molecular entities and medical concepts of interest in this domain, as well as the types of interactions connecting them. Finally, we leveraged an instance-based semantically abstracted knowledge model to specify the ontological alignment according to which RNA-KG was generated. RNA-KG can be downloaded in different formats and also queried by a SPARQL endpoint. A thorough topological analysis of the resulting heterogeneous graph provides further insights into the characteristics of the "RNA world". RNA-KG can be both directly explored and visualized, and/or analyzed by applying computational methods to infer bio-medical knowledge from its heterogeneous nodes and edges. The resource can be easily updated with new experimental data, and specific views of the overall KG can be extracted according to the bio-medical problem to be studied.

59 BASIC BIOLOGICAL SCIENCES↗