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Results for “maximal length sequence”

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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11 records
All sourcesNASA NTRSDOE OSTI
DOE OSTI2015

Electro-optic modulation for high-speed characterization of entangled photon pairs

In this study, we demonstrate a new biphoton manipulation and characterization technique based on electro-optic intensity modulation and time shifting. By applying fast modulation signals with a sharply peaked cross-correlation to each photon from an entangled pair, it is possible to measure temporal correlations with significantly higher precision than that attainable using standard single-photon detection. Low-duty-cycle pulses and maximal-length sequences are considered as modulation functions, reducing the time spread in our correlation measurement by a factor of five compared to our detector jitter. With state-of-the-art electro-optic components, we expect the potential to surpass the speed of any single-photon detectors currently available.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗
DOE OSTI2015

Growth dynamics of copper oxide nanowires in plasma at low pressures

The growth time dynamics of the copper oxide nanowires (NWs) in radiofrequency plasma discharge were investigated. Grounded copper samples were treated in argon-oxygen plasma with the discharge power of 150 W for sequenced times up to 20 min. After the treatment, the samples were analysed with scanning electron microscopy and image processing to obtain the length and aspect ratio of the NWs. A growth mode with the saturation was observed in dependence to NW length, where the maximal length of 5 μm was achieved in 20 min. However, the best NW aspect ratio had maximum of about 40 after 10 min of plasma treatment. To describe and understand nanowire growth mechanism, a theoretical model was developed and it is in agreement with the experiment. The model results indicate that different densities of the ion current to the side and top area of NW modify the NW growth in height and width. The NW growth is enhanced by presence of ions, and thus this implies that it can be controlled by discharge power. This explains much faster growth of copper oxide nanowires in plasma environment compared to prolonged thermal treatments.

71 CLASSICAL AND QUANTUM MECHANICS, GENERAL PHYSIC↗
DOE OSTI2017

Graph-based optimization of epitope coverage for vaccine antigen design

Epigraph is a recently developed algorithm that enables the computationally efficient design of single or multi-antigen vaccines to maximize the potential epitope coverage for a diverse pathogen population. Potential epitopes are defined as short contiguous stretches of proteins, comparable in length to T-cell epitopes. This optimal coverage problem can be formulated in terms of a directed graph, with candidate antigens represented as paths that traverse this graph. Epigraph protein sequences can also be used as the basis for designing peptides for experimental evaluation of immune responses in natural infections to highly variable proteins. The epigraph tool suite also enables rapid characterization of populations of diverse sequences from an immunological perspective. Fundamental distance measures are based on immunologically relevant shared potential epitope frequencies, rather than simple Hamming or phylogenetic distances. Here, we provide a mathematical description of the epigraph algorithm, include a comparison of different heuristics that can be used when graphs are not acyclic, and we describe an additional tool we have added to the web-based epigraph tool suite that provides frequency summaries of all distinct potential epitopes in a population. Lastly, we also show examples of the graphical output and summary tables that can be generated using the epigraph tool suite and explain their content and applications.

60 APPLIED LIFE SCIENCES↗
DOE OSTI2025

Recurrent features of amplitudes in planar $\mathcal{N}$ = 4 super Yang-Mills theory

The planar three-gluon form factor for the chiral stress tensor operator in planar maximally supersymmetric Yang-Mills theory is an analog of the Higgs-to-three-gluon scattering amplitude in QCD. The amplitude (symbol) bootstrap program has provided a wealth of high-loop perturbative data about this form factor, with results up to eight loops available. The symbol of the form factor at L loops is given by words of length 2L in six letters with associated integer coefficients. In this paper, we analyze this data, describing patterns of zero coefficients and relations between coefficients. We find many sequences of words whose coefficients are given by closed-form expressions which we expect to be valid at any loop order. Moreover, motivated by our previous machine-learning analysis, we identify simple recursion relations that relate the coefficient of a word to the coefficients of particular lower-loop words. These results open an exciting door for understanding scattering amplitudes at all loop orders.

72 PHYSICS OF ELEMENTARY PARTICLES AND FIELDS↗
DOE OSTI2021

The solution structures of higher-order human telomere G-quadruplex multimers

Human telomeres contain the repeat DNA sequence 5'-d(TTAGGG), with duplex regions that are several kilobases long terminating in a 3' single-stranded overhang. The structure of the single-stranded overhang is not known with certainty, with disparate models proposed in the literature. We report here the results of an integrated structural biology approach that combines small-angle X-ray scattering, circular dichroism (CD), analytical ultracentrifugation, size-exclusion column chromatography and molecular dynamics simulations that provide the most detailed characterization to date of the structure of the telomeric overhang. We find that the single-stranded sequences 5'-d(TTAGGG)n, with n = 8, 12 and 16, fold into multimeric structures containing the maximal number (2, 3 and 4, respectively) of contiguous G4 units with no long gaps between units. The G4 units are a mixture of hybrid-1 and hybrid-2 conformers. In the multimeric structures, G4 units interact, at least transiently, at the interfaces between units to produce distinctive CD signatures. Global fitting of our hydrodynamic and scattering data to a worm-like chain (WLC) model indicates that these multimeric G4 structures are semi-flexible, with a persistence length of ~34 Å. Investigations of its flexibility using MD simulations reveal stacking, unstacking, and coiling movements, which yield unique sites for drug targeting.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2020

Maximizing the efficiency of plasma-based lepton accelerators

The next generation of particle accelerators will likely rely on compact accelerating structures to achieve very high gradients; one such candidate is accelerators using plasmas for the accelerating structures. Because of the small length scales of these structures, they can also be prone to the beam break-up instability, which would spoil the quality of the beam and leave it unsuitable for many applications. The goal of this project is to develop a framework for understanding the instabilities in plasma accelerators using language from conventional linear accelerator instabilities, such as wake fields and wake functions. During the course of this Phase I, we benchmarked a pseudo-spectral particle-in-cell code to determine its suitability for computing wake functions, and developed a procedure for extracting wake functions from a sequence of simulations using this code.

43 PARTICLE ACCELERATORS↗
DOE OSTI2020

CP-DSSS: A Novel Waveform for Multiple Access in IoT

Cyclic prefix direct sequence spread spectrum (CPDSSS) is a novel waveform with versatile characteristics that positions itself well as a secondary network to relieve the congested wireless spectrum. The underlying structure of CPDSSS allows for efficient and effective multi-access capabilites through frequency and time division schemes in a given system. The sum-rate capacity of the system is maximized when the spectrum is divided and allocated to users with the best signal-to-noise (SNR) ratio for the given channel slice. We propose an algorithm for dividing and allocating portions of the spectrum to multiple users with the final goal of maximizing the sumrate capacity of the network. We also propose and develop a precoding/equalization technique that reduces the length of the channel impulse response. This, when used along with a matched filter detector, leads to some improvement in the sum-rate capacity of the network

5G and Beyond Communications↗
DOE OSTI2016

Deep mixing in stellar variability: improved method, statistics, and applications

The preliminary results on deep-mixing manifestations in stellar variability are tested using our improved method and extended data set. We measure the timescales τ {sub m} of the stochastic change in the spectral power of rotational harmonics with numbers m ≤ 3 in the light curves of 1361 main-sequence stars from the Kepler mission archive. We find that the gradient [log(τ{sub 2})−log(τ{sub 1})]/[log(2)−log(1)] has a histogram maximum at −2/3, demonstrating agreement with Kolmogorov’s theory of turbulence and therefore confirming the manifestation of deep mixing. The squared amplitudes of the first and second rotational harmonics, corrected for integral photometry distortion, also show a quasi-Kolmogorov character with spectral index ≈−5/3. Moreover, the reduction of τ {sub 1} and τ {sub 2} to the timescales τ {sub lam1} and τ {sub lam2} of laminar convection in the deep stellar layers reveals the proximity of both τ {sub lam1} and τ {sub lam2} to the turnover time τ {sub MLT} of standard mixing length theory. Considering this result, we use the obtained stellar variability timescales instead of τ {sub MLT} in our analysis of the relation between stellar activity and the Rossby number P/τ {sub MLT}. Comparison of our diagrams with previous results and theoretical expectations shows that best-fit correspondence is achieved for τ {sub lam1}, which can therefore be used as an analog of τ {sub MLT}. This means that the laminar component (giant cells) of stellar turbulent convection indeed plays an important role in the physics of stars. Additionally, we estimate the diffusivity of magnetic elements in stellar photospheres.

79 ASTRONOMY AND ASTROPHYSICS↗
DOE OSTI2020

Microbial ecology and biogeochemistry of hypersaline sediments in Orca Basin

In deep ocean hypersaline basins, the combination of high salinity, unusual ionic composition and anoxic conditions represents significant challenges for microbial life. We used geochemical porewater characterization and DNA sequencing based taxonomic surveys to enable environmental and microbial characterization of anoxic hypersaline sediments and brines in the Orca Basin, the largest brine basin in the Gulf of Mexico. Full-length bacterial 16S rRNA gene clone libraries from hypersaline sediments and the overlying brine were dominated by the uncultured halophilic KB1 lineage, Deltaproteobacteria related to cultured sulfate-reducing halophilic genera, and specific lineages of heterotrophic Bacteroidetes. Archaeal clones were dominated by members of the halophilic methanogen genus Methanohalophilus, and the ammonia-oxidizing Marine Group I (MG-I) within the Thaumarchaeota. Illumina sequencing revealed higher phylum- and subphylum-level complexity, especially in lower-salinity sediments from the Orca Basin slope. Illumina and clone library surveys consistently detected MG-I Thaumarchaeota and halotolerant Deltaproteobacteria in the hypersaline anoxic sediments, but relative abundances of the KB1 lineage differed between the two sequencing methods. The stable isotopic composition of dissolved inorganic carbon and methane in porewater, and sulfate concentrations decreasing downcore indicated methanogenesis and sulfate reduction in the anoxic sediments. While anaerobic microbial processes likely occur at low rates near their maximal salinity thresholds in Orca Basin, long-term accumulation of reaction products leads to high methane concentrations and reducing conditions within the Orca Basin brine and sediments.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2021

Long-read metagenomics of soil communities reveals phylum-specific secondary metabolite dynamics

Abstract Microbial biosynthetic gene clusters (BGCs) encoding secondary metabolites are thought to impact a plethora of biologically mediated environmental processes, yet their discovery and functional characterization in natural microbiomes remains challenging. Here we describe deep long-read sequencing and assembly of metagenomes from biological soil crusts, a group of soil communities that are rich in BGCs. Taking advantage of the unusually long assemblies produced by this approach, we recovered nearly 3,000 BGCs for analysis, including 712 full-length BGCs. Functional exploration through metatranscriptome analysis of a 3-day wetting experiment uncovered phylum-specific BGC expression upon activation from dormancy, elucidating distinct roles and complex phylogenetic and temporal dynamics in wetting processes. For example, a pronounced increase in BGC transcription occurs at night primarily in cyanobacteria, implicating BGCs in nutrient scavenging roles and niche competition. Taken together, our results demonstrate that long-read metagenomic sequencing combined with metatranscriptomic analysis provides a direct view into the functional dynamics of BGCs in environmental processes and suggests a central role of secondary metabolites in maintaining phylogenetically conserved niches within biocrusts.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2023

Next steps in high-repetition-rate laser development for Thomson scattering

Design of a next generation high-rep-rate laser system is underway, aiming for a maximum rep rate of 100 kHz for 1 ms. This will be a "pulse-burst" laser, which is a type of heat-capacity laser. Heat-capacity laser operation is characterized by a burst of pulses of limited duration, with burst length ≤100 ms and pulse rep rate ≥1 kHz. Waste heat accumulates in the laser rod during the burst. This heat is deposited evenly throughout the rod volume, with very little heat removed during the burst, such that temperature rises evenly across the rod radius. Thus beam distortion due to thermal gradients is small. Heat is removed from the rod after the burst, with typically tens of seconds between bursts. Pulse-burst operation of flashlamp pumped Nd:YAG lasers is a cost-effective route to high-rep-rate capability. Pulse-burst laser systems with "fast burst" rep rates in the range of 10–20 kHz have been built for the Thomson scattering diagnostics on MST, NSTX-U, and LHD. For Thomson scattering diagnostic application, the typical requirements are 1064 nm, 1–2 J/pulse, ≤30 ns FWHM pulse, with a top-hat beam profile. A major requirement for this next generation laser system is flexibility in burst sequence programs, ranging from 1 kHz for 100 ms to 100 kHz for 1 ms, and a variety of scenarios in between so that operation can be tailored to plasma experiment requirements. Flashlamp pumping will be used for this next generation laser because it is inexpensive and flexible. A new switch-regulated flashlamp driver will provide improved flashlamp control at lower cost. Additional design issues such as the optimum flashlamp pumping spectrum and optimum Nd doping will be addressed. The use of commercial off-the-shelf components will be maximized in this laser system so that pulse-burst systems can be developed and built by others for new applications.

47 OTHER INSTRUMENTATION↗