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At least 1,045 records · Page 58

Multi-Agent Control Approach to the Stability of Linear Deployable Systems

Collisions and undesired dynamic responses may occur during the expansion phase of deployable elements on a spacecraft. This problem is more pronounced in large and complex deployable elements where characterization of transient dynamics using testing and simulation can be challenging. This paper introduces a multi-agent control theory approach to address the problem of collisions and transient behavior in deployable lattice systems. We introduce the graph theoretic and relative error vector-based state-space structures to represent the geometry of a lattice-based deploy system. We show that under the assumption of almost-strict dissipativity, the closed-loop feedback gains of the relative error dynamics are the spring and damper constants in the structure. Moreover, we introduce the control perspective of shaping transient dynamics using eigenstructure assignment and balanced coordinate transformation.

Pablos, Juan L. de↗

Petrology and Cosmochemistry of a Suite of R Chondrites

Chondrites are among the most primitive surviving materials from the early solar system. They are divided into groups based on chemical types defined by mineralogy, bulk composition, and oxygen isotope compositions. Chondrites range in petrographic grade from type 1 to type 7. Type 3 chondrites are the most primitive and are little changed from the nebular solids accreted to form asteroids. They are composed of chondrules, fine-grained matrix, metal and sulfide, plus or minus Ca-Al-rich inclusions. With increasing aqueous alteration at low temperatures, members of some chondrite classes transformed from type 3 towards type 1. With increasing thermal metamorphism and low fluid content, members of other classes changed from type 3 towards type 7. Rumuruti (R) chondrites are a rare group (0.1% of falls) similar to ordinary chondrites in some properties but different in others. They are characterized by low chondrule/matrix modal abundance ratios, high oxidation state, small mean chondrule size, abundant sulfides and low metal contents. R chondrites vary in petrologic type from 3 to 6. They are important objects to study because some of them have undergone metamorphism at high temperatures in the presence of aqueous fluids. In contrast, CM and CI chondrites were heated to low temperatures in the presence of aqueous fluids leading to alteration; they contain low-T hydrous phases (phyllosilicates) and little or no remaining metal. Ordinary chondrites were heated to high temperatures in a low-fluid environment resulting in anhydrous metamorphic rocks. R6 chondrites are highly metamorphosed and some contain the high-T hydrous phases mica and amphibole. R chondrites are thus unique and give us an opportunity to examine whether there are compositional effects caused by high-T, highfluid metamorphism of nebular materials.

Torrano, Z. A.↗

Radiometric calibration of IR Fourier transform spectrometers - Solution to a problem with the High-Resolution Interferometer Sounder

A calibrated Fourier transform spectrometer, known as the High-Resolution Interferometer Sounder (HIS), has been flown on the NASA U-2 research aircraft to measure the infrared emission spectrum of the earth. The primary use - atmospheric temperature and humidity sounding - requires high radiometric precision and accuracy (of the order of 0.1 and 1 C, respectively). To meet these requirements, the HIS instruments, the HIS instrument performs inflight radiometric calibration, using observations of hot and cold blackbody reference sources as the basis for two-point calibrations at each wavenumber. Initially, laboratory tests revealed a calibration problem with brightness temperature errors as large as 15 C between 600 and 900/cm. The symptom of the problem, which occurred in one of the three spectral bands of HIS, was a source-dependent phase response. Minor changes to the calibration equations completely eliminated the anomalous errors. The new analysis properly accounts for the situation in which the phase response for radiance from the instrument itself differs from that for radiance from an external source. The mechanism responsible for the dual phase response of the HIS instrument is identified as emission from the interferometer beam splitter.

Revercomb, Henry E.↗

A Study of the 20 Day Superorbital Modulation in the High-Mass X-Ray Binary IGR J16493-4348

We report on Nuclear Spectroscopic Telescope Array (NuSTAR), Neil Gehrels Swift Observatory(Swift) X-ray Telescope (XRT), and Swift Burst Alert Telescope (BAT) observations of IGR J16493-4348, a wind-fed supergiant X-ray binary showing significant superorbital variability. From a discrete Fourier transform of the BAT light curve,we refine its superorbital period to be 20.058±0.007 days. The BAT dynamic power spectrum and a fractional root mean square analysis both show strong variations in the amplitude of the superorbital modulation, but no observed changes in the period are found. The superorbital modulation is significantly weaker between MJD 55,700 and MJD 56,300. The joint NuSTAR and XRT observations, which were performed near the minimum and maximum of one cycle of the 20 day superorbital modulation, show that the flux increases by more than a factor of two between superorbital minimum and maximum. We find no significant changes in the 3-50 keV pulse profiles between superorbital minimum and maximum, which suggests a similar accretion regime. Modeling the pulse-phase-averaged spectra we find a possible Fe Kα emission line at 6.4 keV at superorbital maximum. This feature is not significant at superorbital minimum. While we do not observe any significant differences between the pulse-phase-averaged spectral continua apart from the overall flux change, we find that the hardness ratio near the broad main peak of the pulse profile increases from superorbital minimum to maximum. This suggests the spectral shape hardens with increasing luminosity. We discuss different mechanisms that might drive the observed superorbital modulation.

Coley, Joel B.↗

NASA’s Progress Toward Commercial Space Communications—SATCOM Demonstrations and Wideband Multilingual Terminal Development

The National Aeronautics and Space Administration (NASA) Space Communications and Navigation (SCaN) Program is continuing to forge a path toward programmatic and operational transformation enabling commercialization of communications and navigation services to the greatest extent possible for near Earth users. National Space Policy is driving government agencies to incorporate commercial offerings and services to the maximum extent possible. As such, NASA has no plans to build or deploy Tracking and Data Relay Satellites, but will seek to fill NASA mission space-relay capability needs using commercial satellite communications (SATCOM) providers and services. The goal is to support an approach that is both flexible to commercial service constructs and provides continuity of support with current assets as long as required. Progress toward commercialization is advancing in two key areas: (1) awards have been made for demonstrations of SATCOM services, and (2) development of wideband and multilingual user terminals has advanced to the flight demonstration phase. The Communications Services Project (CSP) at Glenn Research Center (GRC), has awarded Funded Space Act Agreements (FSAA) to six industry vendors. Inmarsat Government Inc., Kuiper Government Solutions (KGS) LLC, SES Government Solutions, Space Exploration Technologies, Telesat U.S. Services LLC, and Viasat Incorporated received a combined $278.5 million to complete technology development and in-space demonstrations over the next several years. The end-to-end service capabilities being targeted are based on existing NASA mission operational needs. Accordingly, each company has proposed a technical approach to lower costs, increase flexibility, and improve performance for a broad range of missions. In the current market, industry vendors operate at a range of different frequencies and use variable, sometime proprietary, coding and modulations schemes. As NASA strives for a network comprised of services provided by multiple distinct suppliers, interoperability is a fitting solution to unify the network. Wideband and multi-lingual user terminals are being developed to bridge differences in industry services. Building on ground demonstrations completed in 2021, the Johns Hopkins Applied Physics Lab (APL) will be flight testing a multi-lingual wideband terminal (payload) and demonstrating connectivity to both government and commercial relay services. This paper provides a discussion of the progress toward NASA’s commercial space communications goals and consideration of key challenges and next steps.

space communications↗

Normal human mammary epithelial cells spontaneously escape senescence and acquire genomic changes

Senescence and genomic integrity are thought to be important barriers in the development of malignant lesions. Human fibroblasts undergo a limited number of cell divisions before entering an irreversible arrest, called senescence. Here we show that human mammary epithelial cells (HMECs) do not conform to this paradigm of senescence. In contrast to fibroblasts, HMECs exhibit an initial growth phase that is followed by a transient growth plateau (termed selection or M0; refs 3-5), from which proliferative cells emerge to undergo further population doublings (approximately 20-70), before entering a second growth plateau (previously termed senescence or M1; refs 4-6). We find that the first growth plateau exhibits characteristics of senescence but is not an insurmountable barrier to further growth. HMECs emerge from senescence, exhibit eroding telomeric sequences and ultimately enter telomere-based crisis to generate the types of chromosomal abnormalities seen in the earliest lesions of breast cancer. Growth past senescent barriers may be a pivotal event in the earliest steps of carcinogenesis, providing many genetic changes that predicate oncogenic evolution. The differences between epithelial cells and fibroblasts provide new insights into the mechanistic basis of neoplastic transformation.

NASA Discipline Radiation Health↗

Linear Transformer Drivers for Z-pinch Based Propulsion

The MSFC/UAH team has been developing of a novel power management and distribution system called a Linear Transformer Driver (LTD). LTD's hold the promise of dramatically reducing the required mass to drive a z-pinch by replacing the capacitor banks which constitute half the mass of the entire system. The MSFC?UAH tea, is developing this technology in hope of integrating it with the Pulsed Fission Fusion (PuFF) propulsion concept. High-Voltage pulsed power systems used for Z-Pinch experimentation have in the past largely been based on Marx Generators. Marx generators deliver the voltage and current required for the Z-Pinch, but suffer from two significant drawbacks when applied to a flight system: they are very massive, consisting of high-voltage capacitor banks insulated in oil-filled tanks and they do not lend themselves to rapid pulsing. The overall goal of Phase 2 is to demonstrate the construction of a higher voltage stack from a number of cavities each of the design proven in Phase 1 and to characterize and understand the techniques for designing the stack. The overall goal of Phase 3 is to demonstrate the feasibility of constructing a higher energy cavity from a number of smaller LTD stacks, to characterize and understand the way in which the constituent stacks combine, and to extend this demonstration LTD to serve as the basis for a 64 kJ pulse generator for Z-Pinch experiments.

Adams, Robert↗

Tailored Excitation for Multivariable Stability-Margin Measurement Applied to the X-31A Nonlinear Simulation

Safety and productivity of the initial flight test phase of a new vehicle have been enhanced by developing the ability to measure the stability margins of the combined control system and vehicle in flight. One shortcoming of performing this analysis is the long duration of the excitation signal required to provide results over a wide frequency range. For flight regimes such as high angle of attack or hypersonic flight, the ability to maintain flight condition for this time duration is difficult. Significantly reducing the required duration of the excitation input is possible by tailoring the input to excite only the frequency range where the lowest stability margin is expected. For a multiple-input/multiple-output system, the inputs can be simultaneously applied to the control effectors by creating each excitation input with a unique set of frequency components. Chirp-Z transformation algorithms can be used to match the analysis of the results to the specific frequencies used in the excitation input. This report discusses the application of a tailored excitation input to a high-fidelity X-31A linear model and nonlinear simulation. Depending on the frequency range, the results indicate the potential to significantly reduce the time required for stability measurement.

Bosworth, John T.↗

NASA's Progress Toward Commercial Space Communications — SATCOM Demonstrations and Wideband Multilingual Terminal Development

The National Aeronautics and Space Administration (NASA) Space Communications and Navigation (SCaN) Program is continuing to forge a path toward programmatic and operational transformation enabling commercialization of communications and navigation services to the greatest extent possible for near Earth users. U.S. National Space Policy is driving government agencies to incorporate commercial offerings and services to the maximum extent possible. As such, NASA has no plans to build or deploy additional Tracking and Data Relay Satellites (TDRS), but will seek to fill NASA mission space-relay capability needs using commercial satellite communications (SATCOM) providers and services. The goal is to support an approach that is both flexible to commercial service constructs and provides continuity of support with current assets as long as required. Progress toward commercial services is advancing in two key areas: (1) awards have been made for demonstrations of SATCOM services, and (2) development of wideband and multilingual user terminals has advanced to the flight demonstration phase. The Communications Services Project (CSP) at Glenn Research Center (GRC), has awarded Funded Space Act Agreements (FSAA) to six industry vendors. Inmarsat Government Inc., Kuiper Government Solutions (KGS) LLC, SES Government Solutions, Space Exploration Technologies, Telesat U.S. Services LLC, and Viasat Incorporated will receive a combined $278.5 million to complete technology development and in-space demonstrations over the next several years. The end-to-end service capabilities being targeted are based on existing NASA mission operational needs. Accordingly, each company has proposed a technical approach to lower costs, increase flexibility, and improve performance for a broad range of missions. In the current market, industry vendors operate at a range of different frequencies and use variable, sometimes proprietary, coding and modulations schemes. As NASA strives for a network comprised of services provided by multiple distinct suppliers, interoperability is a fitting solution to unify the network. Wideband and multi-lingual user terminals are being developed to bridge differences in industry services. Building on ground demonstrations completed in 2021, the Johns Hopkins Applied Physics Lab (APL) will be flight testing a multi-lingual wideband terminal (payload) and demonstrating connectivity to both government and commercial relay services. This paper provides a discussion of the progress toward NASA’s commercial space communications goals and consideration of key challenges and next steps.

commercialization↗

Human responses to upright tilt: a window on central autonomic integration

1. We examined interactions between haemodynamic and autonomic neural oscillations during passive upright tilt, to gain better insight into human autonomic regulatory mechanisms. 2. We recorded the electrocardiogram, finger photoplethysmographic arterial pressure, respiration and peroneal nerve muscle sympathetic activity in nine healthy young adults. Subjects breathed in time with a metronome at 12 breaths min-1 (0.2 Hz) for 5 min each, in supine, and 20, 40, 60, 70 and 80 deg head-up positions. We performed fast Fourier transform (and autoregressive) power spectral analyses and integrated low-frequency (0.05-0.15 Hz) and respiratory-frequency (0. 15-0.5 Hz) spectral powers. 3. Integrated areas of muscle sympathetic bursts and their low- and respiratory-frequency spectral powers increased directly and significantly with the tilt angle. The centre frequency of low-frequency sympathetic oscillations was constant before and during tilt. Sympathetic bursts occurred more commonly during expiration than inspiration at low tilt angles, but occurred equally in expiration and inspiration at high tilt angles. 4. Systolic and diastolic pressures and their low- and respiratory-frequency spectral powers increased, and R-R intervals and their respiratory-frequency spectral power decreased progressively with the tilt angle. Low-frequency R-R interval spectral power did not change. 5. The cross-spectral phase angle between systolic pressures and R-R intervals remained constant and consistently negative at the low frequency, but shifted progressively from positive to negative at the respiratory frequency during tilt. The arterial baroreflex modulus, calculated from low-frequency cross-spectra, decreased at high tilt angles. 6. Our results document changes of baroreflex responses during upright tilt, which may reflect leftward movement of subjects on their arterial pressure sympathetic and vagal response relations. The intensity, but not the centre frequency of low-frequency cardiovascular rhythms, is modulated by the level of arterial baroreceptor input. Tilt reduces respiratory gating of sympathetic and vagal motoneurone responsiveness to stimulatory inputs for different reasons; during tilt, sympathetic stimulation increases to a level that overwhelms the respiratory gate, and vagal stimulation decreases to a level below that necessary for maximal respiratory gating to occur.

Non-NASA Center↗

Seasonal Variations of Water Vapor in the Lower Stratosphere Inferred from ATMOS/ATLAS-3 Measurements of H2O and CH4

Stratospheric measurements of H2O and CH4 by the Atmospheric Trace Molecule Spectroscopy (ATMOS) Fourier transform spectrometer on the ATLAS-3 shuttle flight in November 1994 have been examined to investigate the altitude and geographic variability of H2O and the quantity H = (H2O + 2CH4) in the tropics and at mid-latitudes (8 to 49 deg N) in the northern hemisphere. The measurements indicate an average value of 7.24 +/- 0.44 ppmv for H between altitudes of about 18 to 35 km, corresponding to an annual average water vapor mixing ratio of 3.85 +/- 0.29 ppmv entering the stratosphere. The H2O vertical distribution in the tropics exhibits a wave-like structure in the 16- to 25-km altitude range, suggestive of seasonal variations in the water vapor transported from the troposphere to the stratosphere. The hygropause appears to be nearly coincident with the tropopause at the time of observations. This is consistent with the phase of the seasonal cycle of H2O in the lower stratosphere, since the ATMOS observations were made in November when the H2O content of air injected into the stratosphere from the troposphere is decreasing from its seasonal peak in July-August.

Abbas, M. M.↗

Containerless drop tube solidification and grain refinement of NiAl3

The possibility of undercooling Ni-Al alloys below the liquidus in order to produce a single phase peritectic structure by containerless drop tube solidification was studied. Containerless process is a technique for both high purity contamination free studies as well as for investigating the undercooling and rapid solidification of alloys by suppression of heterogeneous nucleation on container walls. In order to achieve large undercoolings one must avoid heterogeneous nucleation of crystallization. It was shown that the Marshall Space Flight Center drop tubes ae unique facilities for containerless solidification experiments and large undercoolings are possible with some alloys. The original goal of undercooling the liquid metal well below the liquidus to the peritectic temperature during containerless free to form primarily NiAl3 was achieved. The microstructures were interesting from another point of view. The microstructure from small diameter samples is greatly refined. Small dendrite arm spacings such as these could greatly facilitate the annealing and solid state transformation of the alloy to nearly 10% NiAl3 by reducing the distance over which diffusion needs to occur. This could minimize annealing time and might make it economically feasible to produce NiAl3 alloy.

Ethridge, E. C.↗

The gabbro-eclogite phase transition and the elevation of mountain belts on Venus

The hypothesis is explored that the crust-mantle boundary of Venus is not in phase equilibrium but rather is rate-limited by the temperature-dependent volume diffusion of the slowest ionic species. The 1D thermal evolution problem is solved assuming that the mountains formed by uniform horizontal shortening of the crust and the lithospheric mantle at a constant rate. The time-dependent density structure and surface elevation are calculated by assuming a temperature-dependent reaction rate and local Airy isostatic compensation. For a horizontal strain rate of 10 exp -15/s or greater, the temperature increase at the base of the crust during mountain formation is modest to negligible, the deepening lower crust is metastable, and the surface elevation increases as the crust thickens. For strain rates less than 10 exp -16/s, crustal temperature increases with time because of internal heat production and the lower crust is more readily transformed to the dense eclogite assemblage. For such models, a maximum elevation is reached during crustal shortening.

Namiki, Noriyuki↗

Cold, warm, and hot gas in the late-stage merger NGC 7252

We present the first observations of the neutral hydrogen distribution and x-ray emission in the prototypical merger remnant NGC 7252, the 'Atoms-for-Peace' galaxy. These data are supplemented by accurate B and R surface photometry, reaching a limit of mu(sub B) = 26.5 mag/sq arcsec, and images taken through a narrow-band H alpha filter. We find all of the 2 x 10(exp 9)/sq h solar mass of atomic gas to be restricted to the outer, tidal regions of this system (H(sub zero) = 100 h km/s/Mpc). By contrast, the molecular gas traced by the (12)CO(1 approaches zero) map of Wang et al. (1992) is confined to an inner rotating disk of radius 7 seconds and has an H alpha counterpart. The gap between the atomic and molecular gas distributions is filled in by diffuse H alpha emission and perhaps by x-ray emission. The velocity field of the atomic gas in the tidal tails indicates that they are swinging through space in the same sense as the rotation of the inner gas disk. The H I at the apparent base of the northwestern tail seems to be falling back toward the main body of the galaxy, yet there is no H I associated with this main stellar body: This suggests ongoing efficient conversion of the atomic gas into other phases in this region. The H alpha velocity anomalies previously found in the remnant body may be produced in part by the combination of tail-related, noncircular motions and the inner gas-disk rotation. Both tidal tails have bluer B-R colors than the main body of the remnant, with the bluest regions coinciding with peaks in the gas column density. Each tail contains one giant H II region near the end of its optical light distribution. These H II regions are associated with large concentrations of gas and stars that approach the sizes and gas contents of dwarf galaxies. The H I extends beyond the end of the optical tails and reaches projected distances of 62/h kpc east and 120/h kpc northwest from the center. We discuss the possible relevance of these data to : (1) the transformation of merged spirals into ellipticls; (2) the generation of ripples by returning tidal material; and (3) the formation of bound stellar systems from tidally torn material.

Hibbard, J. E.↗

Capabilities of the Materials Contamination Team at Marshall Space Flight Center

The Materials Contamination Team at the Marshall Space Flight Center (MSFC) has been recognized for its contributions supporting the National Aeronautics and Space Administration (NASA) spacecraft development programs. These programs include the Reusable Solid Rocket Motor (RSRM), Chandra X-Ray Observatory, and the International Space Station (ISS). The Environmental Effects Group, with the Materials Contamination Team and the Space Environmental Effects Team has been an integral part of NASA's success by the testing, evaluation, and qualification of materials, hardware, and processes. This paper focuses on the capabilities of the Materials Contamination Team. The Materials Contamination Team's realm of responsibility includes establishing contamination control during all phases of hardware development, including design, manufacturing, assembly, test, transportation, launch site processing, on-orbit exposure, return, and refurbishment. The team continues its mission of reducing the risk of equipment failure due to molecular or particulate contamination. Contamination is a concern in the Space Shuttle with sensitive bond-lines and reactive fluid (liquid oxygen) compatibility as well as for spacecraft with sensitive optics, such as Hubble Space Telescope and Chandra X-ray Observatory. The Materials Contamination Team has a variety of facilities and instrumentation capable of contaminant detection, identification, and monitoring. The team addresses material applications dealing with environments, including production facilities, clean rooms, and on-orbit exposure. The optically stimulated electron emission (OSEE) system, the Ultraviolet (UV) fluorescence (UVF) surface contamination detection, and the Surface Optics Corporation 400 (SOC 400) portable hand-held Fourier Transform Infrared (FTIR) spectrometer are state-of-the-art tools for in-process molecular contamination detection. The team of engineers and technicians also develop contamination calibration standards and evaluate new surface cleanliness inspection technologies. The team utilizes facilities for on-orbit simulation testing of materials for outgassing and molecular film deposition characteristics in the presence of space environmental effects, such as Atomic Oxygen (AO) and UV radiation exposure. The Materials Contamination Team maintains databases for process materials as well as outgassing and optical compatibility test results for specific environments.

Burns, Howard↗

INCREASING THE TRANSPARENCY AND REPRODUCIBILITY OF SPACE RADIATION SCIENCE: THE RADIATION BIOLOGY ONTOLOGY

Among the primary objectives of the Open/Open-Source Science paradigm are making scientific investigation data transparent and results reproducible [1], objectives shared by the FAIR principles [2]. To accomplish this, the conceptual framework that includes all the investigation objects needs to be accurately captured and communicated to all data consumers. A large part of this requires using metadata standards to annotate data collected. These standards should be readily accessible, informed by scientific community consensus and sufficiently specific to encompass all of the important aspects of the investigation. Starting in 2020 we have been co-leading an open consortium to develop a new metadata standard, the Radiation Biology Ontology (RBO), through the Open Biological and Biomedical Ontologies (OBO) Foundry [3]. We began by transforming many of the terms from the National Council on Radiation Protection and Measurement into concepts that can be formally related to existing OBO Foundry classes or attributes. We then identified and imported into the RBO existing OBO Foundry classes that have obvious relevance for radiation biomedicine (for example, concepts from the Environment Ontology that describe radiative processes, and concepts from the Gene Ontology dealing with molecular and cellular responses to radiation). Finally, we scrutinized datasets from investigations of radiation effects held in NASA GeneLab and LSDA repositories and added additional classes, instances, and attributes into the RBO that should be used to annotate these data. We developed the RBO using the open-source tools of GitHub and publish the RBO periodically through the NIH/NCBI BioPortal website, so systems worldwide can leverage the knowledge it contains [4]. This initial phase of concept modeling has yielded an RBO that at present has more than 300 declared concepts, with more than 3500 additional concepts imported from other OBO Foundry ontologies. While this first phase has focused on concepts for annotating samples, environments, exposures, and measurements, the next phase will center on supporting annotation of results and findings, such as concept models of molecular, cellular and tissue effects. The value of the RBO will be determined in part by our ability to engage the community in its development, and we have established a Radiobiology Informatics Consortium with unrestricted membership as the owner of the RBO in order to encourage investigators, system owners and other to join in this effort. Anyone can report issues or request new concept modeling or other features directly on GitHub. By using the BioPortal application programming interface, systems can pose dynamic queries to the latest version of the RBO for information on individual classes or entire hierarchies; this design eliminates the need for systems to be updated in order to use newer versions of the RBO. We hope to contribute to the advancement of open radiobiological science through the continued, open development of the RBO, that will provide more precise, machine-interpretable descriptions of investigations, as well as support data meta-analysis through machine learning or other artificial intelligence methods. REFERENCES [1] Open science in space. Nature Medicine, 2021. 27(9): p. 1485-1485. [2] Wilkinson, M.D., et al., The FAIR Guiding Principles for scientific data management and stewardship. Sci Data, 2016. 3: p. 160018. [3] Smith, B., et al., The OBO Foundry: coordinated evolution of ontologies to support biomedical data integration. Nat Biotechnol, 2007. 25(11): p. 1251-5. [4] Whetzel, P.L., et al., BioPortal: enhanced functionality via new Web services from the National Center for Biomedical Ontology to access and use ontologies in software applications. Nucleic Acids Res, 2011. 39(Web Server issue): p. W541-5.

informatics↗

INCREASING THE TRANSPARENCY AND REPRODUCIBILITY OF SPACE RADIATION SCIENCE: THE RADIATION BIOLOGY ONTOLOGY

Among the primary objectives of the Open/Open-Source Science paradigm are making scientific investigation data transparent and results reproducible [1], objectives shared by the FAIR principles [2]. To accomplish this, the conceptual framework that includes all the investigation objects needs to be accurately captured and communicated to all data consumers. A large part of this requires using metadata standards to annotate data collected. These standards should be readily accessible, informed by scientific community consensus and sufficiently specific to encompass all of the important aspects of the investigation. Starting in 2020 we have been co-leading an open consortium to develop a new metadata standard, the Radiation Biology Ontology (RBO), through the Open Biological and Biomedical Ontologies (OBO) Foundry [3]. We began by transforming many of the terms from the National Council on Radiation Protection and Measurement into concepts that can be formally related to existing OBO Foundry classes or attributes. We then identified and imported into the RBO existing OBO Foundry classes that have obvious relevance for radiation biomedicine (for example, concepts from the Environment Ontology that describe radiative processes, and concepts from the Gene Ontology dealing with molecular and cellular responses to radiation). Finally, we scrutinized datasets from investigations of radiation effects held in NASA GeneLab and LSDA repositories and added additional classes, instances, and attributes into the RBO that should be used to annotate these data. We developed the RBO using the open-source tools of GitHub and publish the RBO periodically through the NIH/NCBI BioPortal website, so systems worldwide can leverage the knowledge it contains [4]. This initial phase of concept modeling has yielded an RBO that at present has more than 300 declared concepts, with more than 3500 additional concepts imported from other OBO Foundry ontologies. While this first phase has focused on concepts for annotating samples, environments, exposures, and measurements, the next phase will center on supporting annotation of results and findings, such as concept models of molecular, cellular and tissue effects. The value of the RBO will be determined in part by our ability to engage the community in its development, and we have established a Radiobiology Informatics Consortium with unrestricted membership as the owner of the RBO in order to encourage investigators, system owners and other to join in this effort. Anyone can report issues or request new concept modeling or other features directly on GitHub. By using the BioPortal application programming interface, systems can pose dynamic queries to the latest version of the RBO for information on individual classes or entire hierarchies; this design eliminates the need for systems to be updated in order to use newer versions of the RBO. We hope to contribute to the advancement of open radiobiological science through the continued, open development of the RBO, that will provide more precise, machine-interpretable descriptions of investigations, as well as support data meta-analysis through machine learning or other artificial intelligence methods.

knowledge↗

On Holo-Hilbert Spectral Analysis: A Full Informational Spectral Representation for Nonlinear and Non-Stationary Data

The Holo-Hilbert spectral analysis (HHSA) method is introduced to cure the deficiencies of traditional spectral analysis and to give a full informational representation of nonlinear and non-stationary data. It uses a nested empirical mode decomposition and Hilbert-Huang transform (HHT) approach to identify intrinsic amplitude and frequency modulations often present in nonlinear systems. Comparisons are first made with traditional spectrum analysis, which usually achieved its results through convolutional integral transforms based on additive expansions of an a priori determined basis, mostly under linear and stationary assumptions. Thus, for non-stationary processes, the best one could do historically was to use the time- frequency representations, in which the amplitude (or energy density) variation is still represented in terms of time. For nonlinear processes, the data can have both amplitude and frequency modulations (intra-mode and inter-mode) generated by two different mechanisms: linear additive or nonlinear multiplicative processes. As all existing spectral analysis methods are based on additive expansions, either a priori or adaptive, none of them could possibly represent the multiplicative processes. While the earlier adaptive HHT spectral analysis approach could accommodate the intra-wave nonlinearity quite remarkably, it remained that any inter-wave nonlinear multiplicative mechanisms that include cross-scale coupling and phase-lock modulations were left untreated. To resolve the multiplicative processes issue, additional dimensions in the spectrum result are needed to account for the variations in both the amplitude and frequency modulations simultaneously. HHSA accommodates all the processes: additive and multiplicative, intra-mode and inter-mode, stationary and nonstationary, linear and nonlinear interactions. The Holo prefix in HHSA denotes a multiple dimensional representation with both additive and multiplicative capabilities.

Huang, Norden E.↗