Engineering Papers⌕ Search

SEARCH · Engineering Papers

Results for “molecular”

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.

Quote a phrase for an exact phrase match. Source license links do not imply unrestricted reuse.

At least 397 records · Page 22
All sourcesNASA NTRSDOE OSTI
DOE OSTI2020

Effect of Natural Fermentation of Sorghum on Resistant Starch Molecular Structure and Fermentation Property

Relevant research results have suggested that fermentation can increase the content of sorghum amylose chains and their retrogradation value. Therefore, this study explored the effect of fermentation pretreatment on the yield, digestibility, molecular structure, and in vitro fermentation property of sorghum-resistant starch by conducting fermentation pretreatment of sorghum and extracting the resistant starch from fermented sorghum with pressure-heat compound enzyme method. The results were as follows. After fermentation pretreatment, the yield of sorghum-resistant starch increased, the digestibility of sorghum-resistant starch reduced, the laminated structure size on the surface of the particles became more uniform, and the stacking mode became more neat and denser. The sorghum-resistant starch prepared before and after fermentation did not produce new chemical groups, and its functional group peak remained unchanged. After fermentation, the weight-average molecular weight of sorghum-resistant starch was elevated, and the percentage content of high- and low-molecular substances increased and decreased, respectively, compared with that of the unfermented sorghum-resistant starch. The percentage content of short-chain branches in the branched chain increased, whereas that of the long-chain branches decreased; the crystallinity of sorghum-resistant starch after fermentation decreased, and the intensity of X-diffraction peak changed slightly before and after fermentation. According to the results of the in vitro fermentation experiments, the fermentation broth of sorghum-resistant starch had the highest content of butyric acid and short-chain fatty acid. Research results reveal that, after fermentation pretreatment, sorghum-resistant starch presented increased yield, more complex molecular structure, heavier molecular weight and more uniform surface morphology, more efficient butyric acid generation, and greater fermentation rate than unfermented sorghum-resistant starch.

Ge, YunFei↗
DOE OSTI2023

HD-Bind: Encoding of Molecular Structure with Low Precision, Hyperdimensional Binary Representations

Publicly available collections of drug-like molecules have grown to comprise tens of billions of compounds due to advances in combinatorial chemistry. Traditional methods for identifying "hit" molecules from a large collection of potential drug-like candidates have relied on biophysical theory to compute approximations to the Gibbs free energy of the binding interaction between the drug and its protein target. These approaches have the major drawback that they require exceptional computing capabilities for even relatively small collections of molecules. Hyperdimensional Computing (HDC) is a recently-proposed learning paradigm that represents data with high-dimension binary vectors; this allows the use of low-precision binary vector arithmetic to create models of the data that can be learned without the need for the gradient-based optimization required in many conventional machine learning and deep learning methods. This algorithmic simplicity allows for acceleration in hardware that has been previously demonstrated in a range of application areas. We consider existing HDC approaches for molecular property classification and introduce two novel encodings of a commonly-used molecular representation, the extended connectivity fingerprint (ECFP). We show that HDC-based inference methods are as much as 91 times more efficient than traditional machine learning methods, and achieve an acceleration of nearly nine orders of magnitude compared to molecular docking. Our results show that HDC accelerated methods retain competitive accuracy on a number of well-studied tasks such as molecular property predictions using the MoleculeNet dataset, and bind/no-bind activity classification using the DUD-E and LIT-PCBA datasets. Our work thus motivates further investigation into molecular representation learning to develop ultraefficient pre-screening tools.

Jones, William↗
DOE OSTI2026

Deep-ultraviolet ptychographic pocket-scope (DART): mesoscale lensless molecular imaging with label-free spectroscopic contrast

The mesoscale characterization of biological specimens has traditionally required compromises between resolution, field-of-view, depth-of-field, and molecular specificity, with most approaches relying on external labels. Here we present the Deep-ultrAviolet ptychogRaphic pockeT-scope (DART), a handheld platform that transforms label-free molecular imaging through intrinsic deep-ultraviolet spectroscopic contrast. By leveraging biomolecules’ natural absorption fingerprints and combining them with lensless ptychographic microscopy, DART resolves down to 308-nm linewidths across centimeter-scale areas while maintaining millimeter-scale depth-of-field. The system’s virtual error-bin methodology effectively eliminates artifacts from limited temporal coherence and other optical imperfections, enabling high-fidelity molecular imaging without lenses. Through differential spectroscopic imaging at deep-ultraviolet wavelengths, DART quantitatively maps nucleic acid and protein distributions with femtogram sensitivity, providing an intrinsic basis for explainable virtual staining. We demonstrate DART’s capabilities through imaging of tissue sections, cytopathology specimens, blood cells, and neural populations, revealing detailed molecular contrast without external labels. The combination of high-resolution molecular mapping and broad mesoscale imaging in a portable platform opens new possibilities from rapid clinical diagnostics, tissue analysis, to biological characterization in space exploration.

60 APPLIED LIFE SCIENCES↗
DOE OSTI2023

Potential molecular targets for intervention in pelvic organ prolapse

Pelvic organ prolapse (POP) is a concerning gynecological benign illness in middle-aged and senior women. Its etiology is complex, the incidence rate is high, symptoms are clinically subjective, and its influence tends to be polarized. At present, for those who need medical treatment, whether surgical or non-surgical, complications cannot be ignored, and treatment effect needs to be optimized. However, there is a lack of accurate molecular biological interventions for the prevention, diagnosis, progression delay, and treatment of POP. Here, we reviewed the current state of understanding of the molecular mechanisms and factors associated with POP etiology. These factors include cyclins, matrix metal peptidases/tissue inhibitors of metalloproteinases, microRNAs, homeobox A11, transforming growth factor β1, insulin-like growth factor 1, fibulin 5, lysyl oxidase-like 1, oxidative stress, inflammatory response, estrogen, and other potential biomarkers associated with POP. In addition, relevant molecular targets that may be used to intervene in POP are summarized. The aim of this review was to provide more information to identify accurate potential biomarkers and/or molecular targets for the prevention, diagnosis, progression delay, and treatment of POP, with the goal of improving medical treatment for patients at-risk for POP or having POP. Continued research is needed to identify additional details of currently accepted molecular mechanisms and to identify additional mechanisms that contribute to POP.

Wu, Xia↗
DOE OSTI2023

Effects of HAT-CN Layer Thickness on Molecular Orientation and Energy-Level Alignment with ZnPc

Efficient energy-level alignment is crucial for achieving high performance in organic electronic devices. Because the electronic structure of an organic semiconductor is significantly influenced by its molecular orientation, comprehensively understanding the molecular orientation and electronic structure of the organic layer is essential. In this study, we investigated the interface between a 1,4,5,8,9,11-hexaazatriphenylene hexacarbonitrile (HAT-CN) hole injection layer and a zinc-phthalocyanine (ZnPc) p-type organic semiconductor. To determine the energy-level alignment and molecular orientation, we conducted in situ ultraviolet and X-ray photoelectron spectroscopies, as well as angle-resolved X-ray absorption spectroscopy. We found that the HAT-CN molecules were oriented relatively face-on (40°) in the thin (5 nm) layer, whereas they were oriented relatively edge-on (62°) in the thick (100 nm) layer. By contrast, ZnPc orientation was not significantly altered by the underlying HAT-CN orientation. The highest occupied molecular orbital (HOMO) level of ZnPc was closer to the Fermi level on the 100 nm thick HAT-CN layer than on the 5 nm thick HAT-CN layer because of the higher work function. Consequently, a considerably low energy gap between the lowest unoccupied molecular orbital level of HAT-CN and the HOMO level of ZnPc was formed in the 100 nm thick HAT-CN case. This may improve the hole injection ability of the anode system, which can be utilized in various electronic devices.

42 ENGINEERING↗
DOE OSTI2024

The Advantages of Combining Morphological and Molecular Methods to Characterise Zooplankton Communities: A Case Study of the UNESCO Biosphere Reserve of the Berlengas Archipelago, Portugal

Understanding the ecological dynamics of zooplankton communities is crucial to precisely assessing the health of marine ecosystems and their management. Metabarcoding has contributed to a better understanding of biodiversity in marine environments. However, this methodology still requires protocol optimisation. Here, we used a complementary approach combining molecular and morphological identification methods to identify the zooplankton community inhabiting the Berlengas Archipelago, Portugal. The presence of non-indigenous species was also assessed. The results showed that the metabarcoding approach outperformed the classical morphological identification method, detecting more species with higher resolution. Nevertheless, the classical method was able to identify species that were not detected by the molecular approaches, probably due to a lack of reference data in the databases. The comparison between different molecular approaches showed that COI and bulk DNA gave better results than 18S rRNA and eDNA by detecting higher species diversity. However, complementarities were observed between them. Molecular tools also proved effective in identifying several potential non-indigenous species, identifying, for the first time, several potentially unreported NIS inhabiting the Portuguese marine ecosystems. Overall, our results confirmed the importance of combining both classical and molecular methods to obtain a more refined assessment of the zooplanktonic communities in marine environments.

Simões, Marco (ORCID:0000000179957304)↗
DOE OSTI2026

The Molecular Structures of Liquid and Glassy Nifedipine and Felodipine and Their Incorporation into PVP

Background: Amorphous drug formulations are commonly used to improve the solubility and bioavailability of poorly soluble molecular pharmaceuticals, yet less is known about their molecular conformations and local bonding interactions than their crystalline phases. Methods: High-energy X-ray diffraction structure factor measurements have been made on liquid and glassy nifedipine (NIF), felodipine (FEL), NIF 1:3 polyvinylpyrrolidone (PVP), and FEL 1:3 PVP wt.% mixtures. The corresponding X-ray pair distribution functions have been interpreted using empirical potential structure refinement using different models and density functional theory conformer calculations. Results: In both NIF and FEL, the NH···O inter-molecular hydrogen bonds between the pyridyl nitrogen and ester carbonyls are found to be considerably weaker than those observed in the crystalline polymorphs. For nifedipine, it is proposed that either inter-molecular NH…ON nitro bonds are present and/or a fraction (<20%) of conformational changes, with the aryl ring flipped, occur in the liquid state. For felodipine, the models indicate significant disorder associated with the methyl and ethyl side chains in the liquid state, with the main peak intensity at 3.0 Å arising from intra-molecular Cl-Cl atom pairs. When nifedipine molecules are incorporated into PVP, our models show they possess stronger NH···O bonds to the PVP polymer than felodipine molecules, which have stronger affinity for bonding to the polymer than to other felodipine molecules. Conclusions: The amorphous forms of both NIF and FEL show much weaker hydrogen bonding than found in their crystalline phases. Liquid NIF also exhibits configurations which are not observed in the crystal phases.

Amorphous Solid Dispersion↗
DOE OSTI2023

Gamma-Ray Emission from Galaxies Hosting Molecular Outflows

Many star-forming galaxies and those hosting active galactic nuclei show evidence of massive outflows of material in a variety of phases including ionized, neutral atomic, and molecular. Molecular outflows in particular have been the focus of recent interest as they may be responsible for removing gas from the galaxy, thereby suppressing star formation. As material is ejected from the cores of galaxies, interactions of the outflowing material with the interstellar medium can accelerate cosmic rays and produce high-energy gamma rays. In this work, we search for gamma-ray emission from a sample of local galaxies known to host molecular outflows using data collected by the Fermi Large Area Telescope. We employ a stacking technique in order to search for and characterize the average gamma-ray emission properties of the sample. Gamma-ray emission is detected from the galaxies in our sample at the 4.4σ level with a power-law photon index of Γ ≈ 2 in the 1–800 GeV energy range. The emission is found to correlate with tracers of star formation activity, namely the 8–1000 μm infrared luminosity. We also find that the observed signal can be predominantly attributed to H II galaxies hosting energy-driven outflows. While we do not find evidence suggesting that the outflows are accelerating charged particles directly, galaxies with molecular outflows may produce more gamma rays than galaxies without outflows. In particular, the set consisting of gamma-ray-detected galaxies with molecular outflows are nearly perfect calorimeters and may be future targets for searches of high-energy neutrinos.

79 ASTRONOMY AND ASTROPHYSICS↗
DOE OSTI2024

Profiling the molecular destruction rates of temperature and humidity as well as the turbulent kinetic energy dissipation in the convective boundary layer

A simultaneous deployment of Doppler, temperature, and water-vapor lidars is able to provide profiles of molecular destruction rates and turbulent kinetic energy (TKE) dissipation in the convective boundary layer (CBL). Horizontal wind profiles and profiles of vertical wind, temperature, and moisture fluctuations are combined, and transversal temporal autocovariance functions (ACFs) are determined for deriving the dissipation and molecular destruction rates. These are fundamental loss terms in the TKE as well as the potential temperature and mixing ratio variance equations. These ACFs are fitted to their theoretical shapes and coefficients in the inertial subrange. Error bars are estimated by a propagation of noise errors. Sophisticated analyses of the ACFs are performed in order to choose the correct range of lags of the fits for fitting their theoretical shapes in the inertial subrange as well as for minimizing systematic errors due to temporal and spatial averaging and micro- and mesoscale circulations. We demonstrate that we achieve very consistent results of the derived profiles of turbulent variables regardless of whether 1 or 10 s time resolutions are used. We also show that the temporal and spatial length scales of the fluctuations in vertical wind, moisture, and potential temperature are similar with a spatial integral scale of ≈160 m at least in the mixed layer (ML). The profiles of the molecular destruction rates show a maximum in the interfacial layer (IL) and reach values of ϵ m ≃ 7 x 10 -4 g 2 kg −2 s −1 for mixing ratio and ϵ θ ≃ 1.6 x 10 -3 K 2 s −1 for potential temperature. In contrast, the maximum of the TKE dissipation is reached in the ML and amounts to ≃ 10 -2 m 2 s −3 . We also demonstrate that the vertical wind ACF coefficient k w ∝ $\overline{w'^{2}}$ and the TKE dissipation ϵ ∝ ($\overline{w'^{2}}$) 3/2 . For the molecular destruction rates, we show that ϵ m ∝ $\overline{m'^{2}}$ ($\overline{w'^{2}}$) 1/2 and ϵ θ ∝ $\overline{θ'^{2}}$ ($\overline{w'^{2}}$) 1/2 . These equations can be used for parameterizations of ϵ, ϵ m , and ϵ θ . All noise error bars are derived by error propagation and are small enough to compare the results with previous observations and large-eddy simulations. The results agree well with previous observations but show more detailed structures in the IL. Consequently, the synergy resulting from this new combination of active remote sensors enables the profiling of turbulent variables such as integral scales, variances, TKE dissipation, and the molecular destruction rates as well as deriving relationships between them. The results can be used for the parameterization of turbulent variables, TKE budget analyses, and the verification of large-eddy simulations.

dissipation rate↗
NASA NTRS1978

Star formation in molecular clouds

A general overview is presented of the findings of molecular line and infrared astronomy regarding star formation. Beginning with the statement that stars, and therefore, planets, form from molecular clouds, it is argued that the growing body of data on conditions in molecular clouds should serve as input parameters for theoretical calculations of star and planet formation. The fact that the gravitational potential energy of molecular clouds far exceeds their thermal energy implies that the required rate of star formation is easily explained. Indeed the most important problem in this field is that the rate of star formation predicted from molecular cloud studies is too high. Until this problem is understood, additional modes of inducing star formation, while they may be occurring, only add to the existing difficulties.

Evans, N. J., II↗
NASA NTRS1980

Molecular clouds and galactic spiral structure

Two large-scale 2.6 mm CO surveys of the galactic plane, one in the first quadrant (l = 12 to 60 deg, b = -1 to +1 deg), the other in the second (l = 105 to 139 deg, b = -3 to +3 deg), have provided evidence that, contrary to previous findings, molecular clouds constitute a highly specific tracer of spiral structure. Molecular counterparts of five of the classical 21-cm spiral arms have been identified: the Perseus arm, the local arm (including Lindblad's local expanding ring), the Sagittarius arm, the Scutum arm, and the 4-kpc arm. The region between the local arm and the Perseus arm is apparently devoid of molecular clouds, and the interarm regions of the inner Galaxy appear largely so. CO spiral structure implies that the mean lifetime of molecular clouds cannot be greater than 100 million years, the time required for interstellar matter to cross a spiral arm. Conservation of mass then sets a limit on the fraction of the interstellar medium in the form of molecular clouds: it cannot exceed one-half at any distance from the galactic center in the range 4-12 kpc.

Cohen, R. S.↗
NASA NTRS1982

Thermal- and plasma-induced molecular redistribution on the icy satellites

The molecular transport of condensed gas species across the surfaces of the icy satellites of Jupiter and Saturn is examined with the view of describing, in part, certain gross visual features associated with these bodies. Molecular redistribution induced by thermal sublimation and magnetospheric plasma-ion impact on satellites with negligible atmospheres is calculated by assuming that the molecules follow ballistic trajectories and by statistically selecting initial molecular velocities and points of origin. Erosion/deposition profiles so calculated are compared for a variety of satellite sizes and environments in order to understand the relative importance of sublimation and cold corotating plasma-ion- and fast plasma-ion-induced transport. The erosion/deposition profiles are used to discuss the appearance of a polar frost on Ganymede. A balance of magnetospheric-ion implantation and ion-induced molecular redistribution is used to discuss the observation of embedded SO2 and the darkening of the trailing side on Europa. Ion-induced molecular transport may also limit the deposition of SO2 frost in the polar regions of Io and may be a source of heavy particles in the Jovian and Saturnian magnetospheres.

Sieveka, E. M.↗
NASA NTRS1983

Organic molecules as chemical fossils - The molecular fossil record

The study of biochemical clues to the early earth and the origin of life is discussed. The methods used in such investigation are described, including the extraction, fractionation, and analysis of geolipids and the analysis of kerogen. The occurrence of molecular fossils in the geological record is examined, discussing proposed precursor-product relationships and the molecular assessment of deep sea sediments, ancient sediments, and crude petroleums. Alterations in the molecular record due to diagenesis and catagenesis are considered, and the use of microbial lipids as molecular fossils is discussed. The results of searches for molecular fossils in Precambrian sediments are assessed.

Eglinton, G.↗
NASA NTRS1983

A large molecular cloud toward the SNR W50 and SS 433

The CO 1 yields 0 transition at 115 GHz has been mapped over an area of more than 6 deg sq toward W50, the extended SNR surrounding the peculiar object SS 433. W50 is found to lie at the end of a filamentary molecular cloud 4 deg long and 1 deg wide that closely matches a conspicuous dust lane on the Palomar Sky Survey; the cloud's kinematic distance is within 0.7 of 2.2 kpc, in agreement with the distance 2-3.3 kpc estimated for the SNR, and its mass is about 120,000 solar masses. Though there is little evidence of star formation in the molecular filament, or evidence of an interaction between the filament and W50 (or SS 433), the positional coincidence of the two, their similar distance, and their displacement nearly two molecular scale heights from the plane all suggest a physical relationship or common origin. One possibility is that both the molecular filament and the stellar progenitor of W50 were ejected from a large active molecular complex lying in the plane at l = 40 deg.

Huang, Y.-L.↗
NASA NTRS1985

Far-infrared line intensities of H2O and CO from warm molecular clouds

Takahashi et al. (1983) have studied the role of H2O in the overall energetics of warm molecular clouds with large optical depths. It was found that in molecular clouds associated with nearby or embedded luminosity sources, the dust is likely to be warmer than the molecular gas. Thus, the warm dust represents the primary source of heat for the gas. In some cases, H2O was found to cool the gas. Takahashi et al. (1983) have presented the formalism for treating H2O in an optically thick molecular cloud with embedded sources of luminosity. The total H2O heating and cooling rates were also calculated. In the present investigation, the emergent intensities of far-infrared lines of H2O and excited, rotational CO transitions from relatively warm molecular clouds based on the large-velocity gradient model of the previous study are calculated. It is found that the dominant submillimeter CO transitions are related to emission, while the H2O transitions can be either absorption or emission lines.

Takahashi, T.↗
NASA NTRS1984

Molecular processes in a high temperature shock layer

Models of the shock layer encountered by an Aeroassisted Orbital Transfer Vehicle require as input accurate cross sections and rate constants for the atomic and molecular processes that characterize the shock radiation. From the estimated atomic and molecular densities in the shock layer and the expected residence time of 1 m/s, it can be expected that electron-ion collision processes will be important in the shock model. Electron capture by molecular ions followed by dissociation, e.g., O2(+) + e(-) yields 0 + 0, can be expected to be of major importance since these processes are known to have high rates (e.g., 10 to the -7th power cu/cm/sec) at room temperature. However, there have been no experimental measurements of dissociative recombination (DR) at temperatures ( 12000K) that are expected to characterize the shock layer. Indeed, even at room temperature, it is often difficult to perform experiments that determine the dependence of the translational energy and quantum yields of the product atoms on the electronic and vibrational state of the reactant molecular ions. Presented are ab initio quantum chemical studies of DR for molecular ions that are likely to be important in the atmospheric shock layer.

Guberman, S. L.↗
NASA NTRS1986

Molecular microenvironments: Solvent interactions with nucleic acid bases and ions

The possibility of reconstructing plausible sequences of events in prebiotic molecular evolution is limited by the lack of fossil remains. However, with hindsight, one goal of molecular evolution was obvious: the development of molecular systems that became constituents of living systems. By understanding the interactions among molecules that are likely to have been present in the prebiotic environment, and that could have served as components in protobiotic molecular systems, plausible evolutionary sequences can be suggested. When stable aggregations of molecules form, a net decrease in free energy is observed in the system. Such changes occur when solvent molecules interact among themselves, as well as when they interact with organic species. A significant decrease in free energy, in systems of solvent and organic molecules, is due to entropy changes in the solvent. Entropy-driven interactioins played a major role in the organization of prebiotic systems, and understanding the energetics of them is essential to understanding molecular evolution.

Macelroy, R. D.↗
NASA NTRS1985

Molecular cloud evolution and star formation

The present state of knowledge of the relationship between molecular clouds and young stars is reviewed. The determination of physical parameters from molecular line observations is summarized, and evidence for fragmentation of molecular clouds is discussed. Hierarchical fragmentation is reviewed, minimum fragment scales are derived, and the stability against fragmentation of both spherically and anisotropically collapsing clouds is discussed. Observational evidence for high-velocity flows in clouds is summarized, and the effects of winds from pre-main sequence stars on molecular gas are discussed. The triggering of cloud collapse by enhanced pressure is addressed, as is the formation of dense shells by spherical outflows and their subsequent breakup. A model for low-mass star formation is presented, and constraints on star formation from the initial mass function are examined. The properties of giant molecular clouds and massive star formation are described. The implications of magnetic fields for cloud evolution and star formation are addressed.

Silk, J.↗