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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 91 records · Page 5

EMMA: a new method for computing multiple sequence alignments given a constraint subset alignment

Abstract Background Adding sequences into an existing (possibly user-provided) alignment has multiple applications, including updating a large alignment with new data, adding sequences into a constraint alignment constructed using biological knowledge, or computing alignments in the presence of sequence length heterogeneity. Although this is a natural problem, only a few tools have been developed to use this information with high fidelity. Results We present EMMA (Extending Multiple alignments using MAFFT--add) for the problem of adding a set of unaligned sequences into a multiple sequence alignment (i.e., a constraint alignment). EMMA builds on MAFFT--add, which is also designed to add sequences into a given constraint alignment. EMMA improves on MAFFT--add methods by using a divide-and-conquer framework to scale its most accurate version, MAFFT-linsi--add, to constraint alignments with many sequences. We show that EMMA has an accuracy advantage over other techniques for adding sequences into alignments under many realistic conditions and can scale to large datasets with high accuracy (hundreds of thousands of sequences). EMMA is available at https://github.com/c5shen/EMMA . Conclusions EMMA is a new tool that provides high accuracy and scalability for adding sequences into an existing alignment.

Shen, Chengze↗

ORNL FACE Tree Height, with data on height of a subset of trees measured every year, 1997-2009. Free-Air CO2 Enrichment (FACE) Experiment Synthesis Activities.

Height of 20 sweetgum trees in three rows of each of the plots in the Oak Ridge National Laboratory (ORNL) free-air CO2 enrichment (FACE) experiment was measured each year of the experiment (1997-2009). The trees were exposed to ambient or elevated CO2. Tree height data contribute to the overall project objectives to determine the integrated response of a deciduous forest to elevated CO2. Average tree height per plot was used in allometric equations to calculate tree dry mass each year and to test whether there were effects of elevated CO2 on canopy development. Height was derived from trigonometric calculation from measurements of horizontal distance of observer from the bole and the angles from observer’s eye to top and base of tree, using a Haglof sonic hypsometer. The data are presented in a csv file, with plot number in the first column, tree number in the second column, and height recorded to 0.1 m in 1997 to 2009 in remaining columns. Plots 1 and 2 had elevated CO2, and plots 3-5 were in ambient CO2. Missing data occur after the tree died. The experiment and the height measurement are described in: Norby, R. J., D. E. Todd, J. Fults, and D. W. Johnson. 2001. Allometric determination of tree growth in a CO2-enriched sweetgum stand. New Phytologist 150: 477-487. The ORNL FACE experiment is described at: https://richnorby.org/home/face-home/.

54 ENVIRONMENTAL SCIENCES↗

DATASET RELEASE AND QUALITY CONTROL REVIEW OF LIVERMORE NEVADA NETWORK (LNN) RECORDINGS OF A SUBSET OF NEVADA NUCLEAR SECURITY SITE NUCLEAR EXPLOSIONS FROM 1979 TO 1992.

Geophysical research on historical nuclear tests is an important aspect of future monitoring capabilities in seismic research. This research is challenging due to the limited number of digital seismic recordings during the peak of nuclear testing (1945-1992). These limited records are unique and non-reproducible data with potential high research impact. Releasing available nuclear explosion seismic records to the explosion monitoring community is thus of high value and is the motivation for this dataset release. The target of this effort was on compilation and quality control of regional seismic records of nuclear explosions recorded on Lawrence Livermore National Laboratory stations ELK, KNB, LAC, and MNV, known collectively as the Livermore National Network (LNN) (Figure 1). LNN was established in the early 1960s for the primary purpose of monitoring underground nuclear testing at the former Nevada Test Site (NTS), now known as the Nevada Nuclear Security Site (NNSS) following the signing of the Limited Test Ban Treaty (LTBT). LNN consisted initially of short-period vertical component Benioff’s recorded on film located at Mina, NV (MNV) and Kanab, Utah (KNB). LNN added two additional stations at Landers, CA (LAC) and Elko, NV (ELK) in 1967 and upgraded equipment to broadband seismometers recorded on frequency modulation (FM) tapes from 1967-1979, followed by digital recordings after 1979 (Jarpe, 1989). The digital recordings were on a variety of now obsolete media, including 9-track, Exabyte, and DAT tapes. Jarpe (1989) describes the seismic station instrumentation details over the period of deployment. LNN recorded valuable non-repeatable unique data of several hundreds of nuclear explosions at NNSS, as well as earthquakes and chemical and mining explosions (Walter, 2020). The details of these nuclear tests are provided in the Department of Energy Report NV-209 Rev 16 (DOE, 2015).

58 GEOSCIENCES↗

Window Cooling Studies and Disk Vibration Testing on a Subset of Mo-100 Disks

Production of metastable Technetium-99 (Tc-99m), a radioactive tracer that emits gamma rays, is vital to the medical imaging community. Tc-99m is extracted from the decay of Molybdenum-99 (Mo-99) which has a half-life of about 2-3 days. The work presented in this report is part of the NNSA’s mission to produce Mo-99 commercially, within the US, without the use of highly enriched uranium (HEU) in support of nonproliferation and global security. Los Alamos National Laboratory (LANL) is working with NorthStar Medical Radioisotopes (NMR) on their efforts to produce Mo-99 through the irradiation of Mo-100 targets using an electron beam. The NMR target comprises a stack of approximately 60-70 Mo-100 disks with diameter 24 mm and thickness 0.74 mm held in stainless steel laminations, each separated using 0.25 mm thick stainless-steel spacers. The symmetric target stack is housed in an Inconel vessel with two Inconel windows on either side. Two electron accelerators are used to produce 40 MeV, 3.16 µA electron beams each that penetrate the Inconel windows and irradiate the Mo-100 disks. Approximately 90% of the total 250 kW beam power is deposited in the NMR target during the irradiation process, with a smaller percentage adding up to 2.2 kW of heat deposited on the Inconel window. During irradiation, pressurized helium gas flows through thin gaps between the disks cooling the beam window, target disks, disk laminations and spacers. Both NMR and LANL have found during cold testing of the target system (no heat deposition) that the Mo 100 disks undergo significant mass loss and disk breakage due to vibrations induced by the flowing helium gas. The mass loss is not only undesirable due to monetary loss from reduced final quantities of Mo-99, but also due to the hazards associated with radioactive material trapped in the cooling lines and particle filters. The effect of flow rate and target geometry on the flow induced vibrations need to be quantified, and recommendations provided to minimize this mass loss. LANL has previously also tested NMR’s Inconel beam window by heating the window, while flowing pressurized helium, using the average heat deposited on the window. However, the NMR beam is pulsed with a duty cycle of 12.5%, which introduces oscillation in temperature around the nominal 600 °C steady state value with each pulse. Available fatigue curves for Inconel are few, established for room temperature, and they are based on mechanical strain cycles not thermally induced strain as in the NMR target. The effect of pulsed beam heating on the Inconel window therefore needs to be quantified. This report details the experiments conducted to assess the factors that lead to mass loss in the NMR target disks as well as to understand the effect of a pulsed beam on NMR’s Inconel window. This work describes LANL’s experimental characterization of the flow induced vibrations and disk mass loss in a reduced scale set-up containing 5 to 10 Mo-100 disks. We use high speed imaging, displacement measurements and microphone measurements combined with signal processing to estimate the vibration frequency of each disk. The effect of disk thickness, target fit and duration of testing on the mass loss is described. We find that in the current configuration of NMR targets, the vibrations and mass loss on the first disk are minimized, while those in the adjacent disks are highest. The microphone and high-speed image data show that increased flow rates and increased duration of testing increases vibration frequency and mass loss. The mass loss is due to both disk rotation and back and forth motion. There are visible wear marks on the disks with the highest mass loss. We also note that the current NMR window gap reduces flow induced vibrations compared to the previous smaller gaps. Improved target holders significantly reduce disk mass loss to almost negligible quantities. This work finds that the larger window to first disk gap and improved target holder geometry should allow NMR to successfully conduct irradiations with minimal mass loss. The window tests were conducted to understand the effect of a pulsed beam on both the window longevity and to estimate the window temperature and displacement during pulsing. The experiments presented here were performed at significantly low power, due to the limitations of the induction heating system. The window temperature rose to approximately 73 °C with a significantly reduced power of 45 W without beam pulsing. With a 5 Hz pulse rate, 12.5% duty cycle, the window temperature remained constant at 26 °C. These experiments will be repeated with improved coil geometry and reported in upcoming journal papers.

42 ENGINEERING↗

Subsets of geostationary satellite data over international observing network sites for studying the diurnal dynamics of energy, carbon, and water cycles

The latest generation of geostationary satellites provide Earth observations similar to widely used polar-orbiting sensors but at intervals as frequently as every 5–10 min, making them ideal for studying the diurnal dynamics of land–atmosphere interactions. The NASA Earth Exchange (NEX) group created the GeoNEX datasets by collating data from several geostationary platforms, including GOES-16/17/18, Himawari-8/9, and GK-2A, and placing them on a common grid to facilitate use by the Earth science community. Here, we document the GeoNEX Coincident Ground Observations (GeCGO) dataset for terrestrial ecosystem studies and provide examples for its use. Currently, GeCGO provides GOES-16 Advanced Baseline Imager (ABI) data over a 10 km × 10 km area surrounding 1586 network sites across the Americas. GeCGO makes it easy to compare the time series of geostationary data with the diurnal ground observations, including carbon/water fluxes and aerosol optical depth, and is extensible to other regions. We also develop GeoNEXTools to facilitate analyses that require both GeoNEX data and other NASA satellite data. The objectives of this paper are to introduce GeCGO and GeoNEXTools and demonstrate their applications. First, we describe the details of GeCGO and GeoNEXTools. Second, we explain how GeCGO can be integrated with other satellite data. Finally, we showcase comparisons between GeCGO and observations from three ground-based networks. GeCGO is available at https://doi.org/10.25966/y5pe-xp41 (Hashimoto et al., 2025).

Hashimoto, Hirofumi [NASA Ames Research Center (AR↗

KAZRARSCL-c0-Cloud Boundaries subset

The KAZR-ARSCL VAP provides cloud boundaries and best-estimate time-height fields of radar moments. The VAP merges corrected, but uncalibrated, KAZR moments from all active radar modes with cloud base and cloud mask observations from the micropulse lidar (MPL), cloud base from the ceilometer, as well information from soundings, rain gauge, and microwave radiometer instruments to produce two data streams, one with best-estimate cloud base and cloud layer boundaries, and another which also includes best-estimate time-height fields of radar moments. This DOI is for the data stream that contain cloud layer boundaries only. Please note that the reflectivity used in this level c0 product is uncalibrated.

54 ENVIRONMENTAL SCIENCES↗

Chain pooling to minimize prediction error in subset regression

Monte Carlo studies using population models intended to represent response surface applications are reported. Simulated experiments were generated by adding pseudo random normally distributed errors to population values to generate observations. Model equations were fitted to the observations and the decision procedure was used to delete terms. Comparison of values predicted by the reduced models with the true population values enabled the identification of deletion strategies that are approximately optimal for minimizing prediction errors.

Holms, A. G.↗

Subset Regression

Backward elimination procedure minimizes prediction errors of equations fitted to factorial experiments. Problem of minimizing prediction error solved for two-level full- or fractional-factorial experiment with 16 factorial points and 0 to 6 center points. Such experiment provides 16 orthogonal coefficient estimates for empirical polynomial model. Each coefficient estimated with low variance error estimated from 16 observations.

Holms, A. G.↗

A near-infrared imaging survey of interacting galaxies - The disk-disk merger candidates subset

Near-infrared imaging obtained for systems believed to be advanced disk-disk mergers are presented and discussed. These systems were chosen from a sample of approximately 170 objects from the Arp Atlas of Peculiar Galaxies which have been imaged in the JHK bands as part of an investigation into the stellar component of interacting galaxies. Of the eight remnants which show optical signs of a disk-disk merger, the near-infrared surface brightness profiles are well-fitted by an r exp 1/4 law over all measured radii in four systems, and out to radii of about 3 kpc in three systems. These K band profiles indicate that most of the remnants in the sample either have finished or are in the process of relaxing into a mass distribution like that of normal elliptical galaxies.

Stanford, S. A.↗

Description of a subset of single events from the BATSE gamma ray burst data

About 15 percent of the gamma ray bursts in the Burst and Transient Source Experiment (BATSE) data exhibit a simple light curve consisting mainly of a single pulse without fine substructures. In 12 of the burst profiles, the pulse shapes show a linear rise and decay. Three events have a distinct sharp rise followed by a long, almost exponential decay. Searches based on only a sharp rise selection criterion resulted in five more grbs with different profile complexities. In one case, we identify an envelope of fast oscillations with a long, softer tail lasting about 100 seconds. The majority of events were detectable at energies above 300 keV, with tentative estimates for fluences that vary between 4.0 x 10(exp -8) and 5.4 x 10(exp -6) ergs/sq cm. We describe here their general characteristics (durations, rise-decay times) and their hardness ratios.

Kouveliotou, Chryssa↗

Model reduction in a subset of the original states

A model reduction method is investigated to provide a smaller structural dynamic model for subsequent structural control design. A structural dynamic model is assumed to be derived from finite element analysis. It is first converted into the state space form, and is further reduced by the internal balancing method. Through the co-ordinate transformation derived from the states that are deleted during reduction, the reduced model is finally expressed with the states that are members of the original states. Therefore, the states in the final reduced model represent the degrees of freedom of the nodes that are selected by the designer. The procedure provides a more practical implementation of model reduction for applications in which specific nodes, such as sensor and/or actuator attachment points, are to be retained in the reduced model. Thus, it ensures that the reduced model is under the same input and output condition as the original physical model. The procedure is applied to two simple examples and comparisons are made between the full and reduced order models. The method can be applied to a linear, continuous and time-invariant model of structural dynamics with nonproportional viscous damping.

Yae, K. H.↗

Localization of the human 64kD autoantigen D1 to myofibrils in a subset of extraocular muscle fibers

PURPOSE. To evaluate the tissue-specific expression pattern of the 64kD human autoantigen D1, a tropomodulin-related protein that may be involved in thyroid-associated ophthalmopathy. METHODS. Recombinant 64kD human autoantigen D1 was generated in a bacterial expression system and used to immunize rabbits. Specific antibodies were affinity-purified and used for Western blots on normal and hyperthyroid rat and rabbit tissue, and immunofluorescence localization on cryosections of rat tissue. RESULTS. Anti-64kD human autoantigen D1 antibodies recognize specifically a approximately 70kD polypeptide in western blots of extraocular muscle, sternothyroid muscle, and smooth muscle. Immunofluorescence staining demonstrates that the 64kD human autoantigen D1 localizes to myofibrils in slow fibers from rat extraocular and sternothyroid muscle. The level of this protein is not altered in extraocular muscles from hyperthyroid rabbits. CONCLUSIONS. The 64kD human autoantigen D1 is expressed in slow fibers of extraocular and sternothyroid muscles as a component of myofibrils, and is not upregulated in conditions of hyperthyroidism.

Proteins/genetics/immunology/metabolism↗