Search NASA⌕ Search

SEARCH · Search NASA

Results for “Single Cell Analysis”

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 649 records · Page 36
All sourcesNASA NTRSDOE OSTI
DOE OSTI2020

Design and Analysis of the Staggered Double Grating Slow Wave Circuit for 263 GHz Sheet Beam TWT

The complete design process of a high-frequency circuit for a 263 GHz staggered double grating, sheet beam traveling wave tube is presented in this article. Here, this device, for use in a pulsed electron paramagnetic resonance spectrometer instrument, requires >30 dB gain and a 20 GHz bandwidth centered at 263 GHz. In addition to the standard Pierce gain analysis and point by point particle in cell (PIC) simulation, a novel fast pulse response analysis technique was utilized to determine the accurate synchronization voltage and test the ``hot” feature of the high-frequency circuit. Since this new method can evaluate the entire bandwidth in a single simulation, it can significantly reduce the computational resources normally required for the conventional PIC analysis while also illustrating the potential instabilities near the band edge. Good agreement between the fast pulse response and PIC simulation results validate the accuracy of this novel method. According to the analysis results and given the manufacturing limits of nano/micro-computer numerical control (CNC) machining, an appropriate SWS, coupler, and sever designs were chosen to complement the simulated design. Finally, a prototype circuit was manufactured and cold tested to verify the design and inspect the machining tolerances.

42 ENGINEERING↗
NASA NTRS2003

Quantifying clustered DNA damage induction and repair by gel electrophoresis, electronic imaging and number average length analysis

Assessing DNA damage induction, repair and consequences of such damages requires measurement of specific DNA lesions by methods that are independent of biological responses to such lesions. Lesions affecting one DNA strand (altered bases, abasic sites, single strand breaks (SSB)) as well as damages affecting both strands (clustered damages, double strand breaks) can be quantified by direct measurement of DNA using gel electrophoresis, gel imaging and number average length analysis. Damage frequencies as low as a few sites per gigabase pair (10(9)bp) can be quantified by this approach in about 50ng of non-radioactive DNA, and single molecule methods may allow such measurements in DNA from single cells. This review presents the theoretical basis, biochemical requirements and practical aspects of this approach, and shows examples of their applications in identification and quantitation of complex clustered damages.

NASA Program Biological Systems Research↗
NASA NTRS2001

Relative effectiveness of kinetic analysis vs single point readings for classifying environmental samples based on community-level physiological profiles (CLPP)

The relative effectiveness of average-well-color-development-normalized single-point absorbance readings (AWCD) vs the kinetic parameters mu(m), lambda, A, and integral (AREA) of the modified Gompertz equation fit to the color development curve resulting from reduction of a redox sensitive dye from microbial respiration of 95 separate sole carbon sources in microplate wells was compared for a dilution series of rhizosphere samples from hydroponically grown wheat and potato ranging in inoculum densities of 1 x 10(4)-4 x 10(6) cells ml-1. Patterns generated with each parameter were analyzed using principal component analysis (PCA) and discriminant function analysis (DFA) to test relative resolving power. Samples of equivalent cell density (undiluted samples) were correctly classified by rhizosphere type for all parameters based on DFA analysis of the first five PC scores. Analysis of undiluted and 1:4 diluted samples resulted in misclassification of at least two of the wheat samples for all parameters except the AWCD normalized (0.50 abs. units) data, and analysis of undiluted, 1:4, and 1:16 diluted samples resulted in misclassification for all parameter types. Ordination of samples along the first principal component (PC) was correlated to inoculum density in analyses performed on all of the kinetic parameters, but no such influence was seen for AWCD-derived results. The carbon sources responsible for classification differed among the variable types with the exception of AREA and A, which were strongly correlated. These results indicate that the use of kinetic parameters for pattern analysis in CLPP may provide some additional information, but only if the influence of inoculum density is carefully considered. c2001 Elsevier Science Ltd. All rights reserved.

NASA Center KSC↗
DOE OSTI2017

Multimodal microfluidic platform for controlled culture and analysis of unicellular organisms

Modern live-cell imaging approaches permit real-time visualization of biological processes, yet limitations exist for unicellular organism isolation, culturing and long-term imaging that preclude fully understanding how cells sense and respond to environmental perturbations and the link between single-cell variability and whole-population dynamics. Here we present a microfluidic platform that provides fine control over the local environment with the capacity to replace media components at any experimental time point, and provides both perfused and compartmentalized cultivation conditions depending on the valve configuration. In this work, the functionality and flexibility of the platform were validated using both bacteria and yeast having different sizes, motility and growth media. The demonstrated ability to track the growth and dynamics of both motile and non-motile prokaryotic and eukaryotic organisms emphasizes the versatility of the devices, which with further scale-up should enable studies in bioenergy and environmental research.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2020

Metabolite, Protein, and Lipid Extraction (MPLEx): a method that simultaneously inactivates Middle East respiratory syndrome coronavirus and allows analysis of multiple host cell components following infection

Mass spectrometry (MS)-based, integrated proteomics, metabolomics, and lipidomics (collectively, multi-omics) studies provide a very detailed snap shot of virus-induced changes to the host following infection and can lead to the identification of novel prophylactic and therapeutic targets for preventing or lessening disease severity. Multi-omics studies with Middle East respiratory syndrome coronavirus (MERS-CoV) are challenging as the requirements of Biosafety Level 3 containment limit the numbers of samples that can be safely managed. To address these issues, the multi-omics sample preparation technique MPLEx (metabolite, protein, and lipid extraction) was developed to partition a single sample into three distinct parts (metabolites, proteins and lipids) for multi-omics analysis, while simultaneously inactivating MERS-CoV by solubilizing and disrupting the viral envelope and denaturing viral proteins. Here we describe the MPLEx protocol, highlight the step of inactivation, and describe the details of downstream processing, instrumental analysis of studies with Middle East respiratory syndrome coronavirus (MERS-CoV) are challenging as the requirements of Biosafety Level 3 containment limit the numbers of samples that can be safely managed. To address these issues, the multi-omics sample preparation technique MPLEx (metabolite, protein, and lipid extraction) was developed to partition a single sample into three distinct parts (metabolites, proteins and lipids) for multi-omics analysis, while simultaneously inactivating MERS-CoV by solubilizing and disrupting the viral envelope and denaturing viral proteins. Here we describe the MPLEx protocol, highlight the step of inactivation, and describe the details of downstream processing, instrumental analysis of the three separate analytes and their subsequent informatics pipelines.

Nicora, Carrie D.↗
DOE OSTI2015

Toxicity After Central versus Peripheral Lung Stereotactic Body Radiation Therapy: A Propensity Score Matched-Pair Analysis

Purpose: To compare toxicity after stereotactic body radiation therapy (SBRT) for “central” tumors—within 2 cm of the proximal bronchial tree or with planning tumor volume (PTV) touching mediastinum—versus noncentral (“peripheral”) lung tumors. Methods and Materials: From November 2005 to January 2011, 229 tumors (110 central, 119 peripheral; T1-3N0M0 non–small-cell lung cancer and limited lung metastases) in 196 consecutive patients followed prospectively at a single institution received moderate-dose SBRT (48-60 Gy in 4-5 fractions [biologic effective dose=100-132 Gy, α/β=10]) using 4-dimensional planning, online image-guided radiation therapy, and institutional dose constraints. Clinical adverse events (AEs) were graded prospectively at clinical and radiographic follow-up using Common Terminology Criteria for Adverse Events version 3.0. Pulmonary function test (PFT) decline was graded as 2 (25%-49.9% decline), 3 (50.0%-74.9% decline), or 4 (≥75.0% decline). Central/peripheral location was assessed retrospectively on planning CT scans. Groups were compared after propensity score matching. Characteristics were compared with χ{sup 2} and 2-tailed t tests, adverse events with χ{sup 2} test-for-trend, and cumulative incidence using competing risks analysis (Gray's test). Results: With 79 central and 79 peripheral tumors matched, no differences in AEs were observed after 17 months median follow-up. Two-year cumulative incidences of grade ≥2 pain, musculoskeletal, pulmonary, and skin AEs were 14%, 5%, 6%, and 10% (central) versus 19%, 10%, 10%, and 3% (peripheral), respectively (P=.31, .38, .70, and .09). Grade ≥2 cardiovascular, gastrointestinal, and central nervous system AEs were rare (<1%). Two-year incidences of grade ≥2 clinical AEs (28% vs 25%, P=.79), grade ≥2 PFT decline (36% vs 34%, P=.94), grade ≥3 clinical AEs (3% vs 7%, P=.48), and grade ≥3 PFT decline (0 vs 10%, P=.11) were similar for central versus peripheral tumors, respectively. Pooled 2-year incidences of grades 4 and 5 AEs were <1% and 0%, respectively, in both the prematched and matched groups. Conclusion: Moderate-dose SBRT with these techniques yields a similarly safe toxicity profile for both central and peripheral lung tumors.

62 RADIOLOGY AND NUCLEAR MEDICINE↗
DOE OSTI2017

On the edge of periodicity: Unconventional magnetism of Gd 117 Co 56.4 Sn 114.3

Magnetization measurements reveal the onset of magnetic ordering at T C = 65 K followed by three additional magnetic anomalies at T 1 = 47 K, T 2 = 28 K, and T 3 = 11 K in Gd 117 Co 56.4 Sn 114.3 – a compound with a giant cubic unit cell that crystallizes in the Dy 117 Co 56 Sn 112 structure type with space group Fm3¯m and lattice parameter a = 30.186 Å. The magnetic ordering temperature increases with applied magnetic field; however, the analysis of magnetic data indicates that antiferromagnetic interactions also play a role in the ground state. AC magnetic susceptibility confirms multiple magnetic anomalies and shows minor frequency dependence. The local magnetic ordering below 60 K is supported by the Mössbauer spectroscopy. A single broad anomaly is detected at T 3 in the heat capacity; we suggest that magnetic domains form below this temperature. Furthermore, these data highlight unique features of magnetism in this and, potentially, other rare-earth intermetallics crystallizing with giant unit-cells where the exchange correlation lengths are much shorter when compared to the periodicity of the crystal lattice.

36 MATERIALS SCIENCE↗
DOE OSTI2014

Characterization of Coffee ringspot virus-Lavras: A model for an emerging threat to coffee production and quality

The emergence of viruses in Coffee (Coffea arabica and Coffea canephora), the most widely traded agricultural commodity in the world, is of critical concern. The RNA1 (6552 nt) of Coffee ringspot virus is organized into five open reading frames (ORFs) capable of encoding the viral nucleocapsid (ORF1p), phosphoprotein (ORF2p), putative cell-to-cell movement protein (ORF3p), matrix protein (ORF4p) and glycoprotein (ORF5p). Each ORF is separated by a conserved intergenic junction. RNA2 (5945 nt), which completes the bipartite genome, encodes a single protein (ORF6p) with homology to RNA-dependent RNA polymerases. Phylogenetic analysis of L protein sequences firmly establishes CoRSV as a member of the recently proposed Dichorhavirus genus. Predictive algorithms, in planta protein expression, and a yeast-based nuclear import assay were used to determine the nucleophillic character of five CoRSV proteins. Finally, the temperature-dependent ability of CoRSV to establish systemic infections in an initially local lesion host was quantified. - Highlights: • We report genome sequence determination for Coffee ringspot virus (CoRSV). • CoRSV should be considered a member of the proposed Dichorhavirus genus. • We report temperature-dependent systemic infection of an initially local lesion host. • We report in planta protein and localization data for five CoRSV proteins. • In silico predictions of the CoRSV proteins were validated using in vivo assays.

60 APPLIED LIFE SCIENCES↗
DOE OSTI2022

Materials synthesis at terapascal static pressures

Theoretical modelling predicts very unusual structures and properties of materials at extreme pressure and temperature conditions. Hitherto, their synthesis and investigation above 200 gigapascals have been hindered both by the technical complexity of ultrahigh-pressure experiments and by the absence of relevant in situ methods of materials analysis. Here we report on a methodology developed to enable experiments at static compression in the terapascal regime with laser heating. We apply this method to realize pressures of about 600 and 900 gigapascals in a laser-heated double-stage diamond anvil cell, producing a rhenium–nitrogen alloy and achieving the synthesis of rhenium nitride Re 7 N 3 —which, as our theoretical analysis shows, is only stable under extreme compression. Full chemical and structural characterization of the materials, realized using synchrotron single-crystal X-ray diffraction on microcrystals in situ, demonstrates the capabilities of the methodology to extend high-pressure crystallography to the terapascal regime.

36 MATERIALS SCIENCE↗
DOE OSTI2015

Study of the operation temperature in the spin-exchange relaxation free magnetometer

We study the influence of the cell temperature on the sensitivity of the spin-exchange relaxation free (SERF) magnetometer and analyze the possibility of operating at a low temperature. Utilizing a 25 × 25 × 25 mm{sup 3} Cs vapor cell with a heating temperature of 85 {sup ∘}C, which is almost half of the value of potassium, we obtain a linewidth of 1.37 Hz and achieve a magnetic field sensitivity of 55 fT/Hz{sup 1/2} in a single channel. Theoretical analysis shows that fundamental sensitivity limits of this device with an active volume of 1 cm{sup 3} could approach 1 fT/Hz{sup 1/2}. Taking advantage of the higher saturated vapor pressure, SERF magnetometer based on Cs opens up the possibility for low cost and portable sensors and is particularly appropriate for lower temperature applications.

46 INSTRUMENTATION RELATED TO NUCLEAR SCIENCE AND ↗
DOE OSTI2018

Controlled vapor crystal growth of N a 4 I r 3 O 8 : A three-dimensional quantum spin liquid candidate

In this work, we report the successful bulk single-crystal growth of the hyperkagome lattice iridate Na 4 Ir 3 O 8 (Na438) by vapor transport using a sealed aluminum oxide tube as a container. Crystals were characterized by magnetization, x-ray diffraction, and energy-dispersive x-ray measurements, confirming their identity and properties. Single-crystal x-ray diffraction experiments revealed superlattice peaks indexed on a propagation vector q=(1/3,1/3,1/3) based on the cubic substructure with cell parameter a=8.986(1)Å. This superlattice is three-dimensional and fully coherent. Polarization analysis rules out spin and/or orbital order as the underlying origin of the modulation and points to long-range ordering of Na ions at the notionally disordered Na sites as a plausible origin for the observed superlattice.

36 MATERIALS SCIENCE↗
DOE OSTI2013

Optical Manipulation of Vesicles for Optofluidic Applications

In this report, we review our recent results in the optical micromanipulation of vesicles. Traditionally, vesicle manipulation has been possible by employing photon momentum and optical trapping, giving rise to unique observations of vesicle shape changes and soft matter mechanics. Contrary to these attempts, we employ photon energy rather than momentum, by sensitizing vesicles with an oxidizing moiety. The later converts incident photons to reactive oxygen species, which in turn attack and compromise the stability of the vesicle membrane. Both coherent and incoherent radiation was employed. Polymersome re-organization into smaller diameter vesicles was possible by focusing the excitation beam in the vicinity of the polymersomes. Extended vesicle illumination with a collimated beam lead to their complete destabilization and micelle formation. Single particle analysis revealed that payload release takes place within seconds of illumination in an explosive burst. We will discuss the destabilization and payload release kinetics, as revealed by high resolution microscopy at the single particle level, as well as potential applications in single cell biomodulation.

Environmental Molecular Sciences Laboratory↗
DOE OSTI2013

Crystal structure of {alpha} Triple-Prime -(Zn{sub 1-x}Cd{sub x}){sub 3}As{sub 2} (x = 0.26)

Single crystals of the {alpha} Triple-Prime -phase of (Zn{sub 1-x}Cd{sub x}){sub 3}As{sub 2} solid solution (x = 0.26) have been prepared and investigated by X-ray diffraction analysis. The tetragonal unit-cell parameters are found to be a = b = 8.5377(2) A, c = 24.0666(9) A, sp. gr. I4{sub 1}/amd, Z = 16. Zn and Cd atoms in the crystal statistically occupy three symmetrically independent positions in the mirror planes and are tetrahedrally coordinated by arsenic atoms. (Zn,Cd) tetrahedra share edges to form a three-dimensional structure framework. The {alpha} Triple-Prime -phase is geometrically related to the fluorite structure. The character of arrangement of tetrahedral vacancies in fluorite-like unit cells is revealed. Chains of tetrahedral vacancies form microchannels oriented parallel the a and b axes, which pierce the three-dimensional structure framework at different levels along the c axis. The structure of {alpha} Double-Prime -Cd{sub 3}As{sub 2} crystals is found to be similar to that of {alpha} Triple-Prime -(Zn{sub 0.74}Cd{sub 0.26}){sub 3}As{sub 2}.

75 CONDENSED MATTER PHYSICS, SUPERCONDUCTIVITY AND↗
NASA NTRS1989

Design of optimally smoothing multi-stage schemes for the Euler equations

In this paper, a method is developed for designing multi-stage schemes that give optimal damping of high-frequencies for a given spatial-differencing operator. The objective of the method is to design schemes that combine well with multi-grid acceleration. The schemes are tested on a nonlinear scalar equation, and compared to Runge-Kutta schemes with the maximum stable time-step. The optimally smoothing schemes perform better than the Runge-Kutta schemes, even on a single grid. The analysis is extended to the Euler equations in one space-dimension by use of 'characteristic time-stepping', which preconditions the equations, removing stiffness due to variations among characteristic speeds. Convergence rates independent of the number of cells in the finest grid are achieved for transonic flow with and without a shock. Characteristic time-stepping is shown to be preferable to local time-stepping, although use of the optimally damping schemes appears to enhance the performance of local time-stepping. The extension of the analysis to the two-dimensional Euler equations is hampered by the lack of a model for characteristic time-stepping in two dimensions. Some results for local time-stepping are presented.

Van Leer, Bram↗
DOE OSTI2022

Plasma production and composition from hypervelocity impacts on solar cell cover glass

Satellites are subjected to detrimental effects from the space environment, including impacts by orbital debris and meteoroids that can cause mechanical or electrical damage. While mechanical damage is well studied, electrical effects resulting from hypervelocity impact (HVI) remain poorly understood. In HVIs, where the projectile speed exceeds the speed of sound in the target material, the impact energy ionizes the material near the surface, creating a plasma that can cause radio frequency emission. This emission is the main source of electrical anomalies in satellites, but the mechanism behind its creation is still unknown. Ground-based experiments have been used to characterize HVI plasma, including the empirical power law relations that describe the impact charge produced as a function of impactor mass and speed. Quantifying these power law relations gives us a better understanding of the species formed in the impact which can eventually lead to plasma evolution models and help us first, understand the mechanism behind radio frequency emission and second, ways to prevent its damage to the satellites. In this paper, we interpret the results of the HVI experiments on solar cell coverglass targets and identify the potential chemical or molecular reactions that form the impact ion species. This is done by looking simultaneously at multiple data sets for different species within the same impact configuration, and using a new technique for quantifying the power law relations for each emitted species. We use time of flight analysis (TOF) to detect the charged particle compositions and determine their initial speeds. The results suggest that the charge production power law is species specific, with different formation mechanisms involved in a single HVI event, some of which are associated with dissociation and some with ionization of a molecule. Furthermore, our results also show that electrons have different power laws that depend on the spacecraft surface charge. TOF measurements of ions from impact events on solar cell cover glass shows the presence of SiO + and SiO – 2 as the dominant species present in plasmas on positively and negatively charged targets, respectively, as well as the formation of FeO + .

70 PLASMA PHYSICS AND FUSION TECHNOLOGY↗
DOE OSTI2022

3D, Real-time Label-free Visualization of Cellular Health

This work directly addresses a key question raised in TA7, Topic L1 of HDTRA1-16-24-FRCWMDCall, “Can quantum level changes be detected, mapped, and understood in the biological environment to allow faster diagnostic responses?” This work will use the inherently sensitive quantum property of a molecular excited state lifetime to visualize and map discrete, subtle nanometer-scale changes (e.g. NADPH vs NADH) that are key indicators of cellular health in response to chemical and biological threats and MCMs. It will also develop and exploit new, fast imaging light-sheet methods to allow faster diagnostic responses. This new imaging system will exploit time-correlated single photon counting and new advances in single-objective light-sheet microscopy (oblique plane microscopy) for fast, quantitative analysis of cellular redox state. We will add an entirely new dimension (excited state fluorescence lifetime) to oblique plane microscopy—a method that even without this added dimension was labeled by Nature Methods in 2021 as a ‘Method to Watch.’ Following instrument development and validation, we will explore cellular response to Burkholderia infections and antibiotic treatment in immortal cell lines followed by expansion to more realistic cellular environments (such as neuro-muscular junctions, NMJs) to test nerve agent simulants and their MCMs. As a microscopy platform, these methods hold the promise of being able to visualize a single infected cell (or a cellular compartment) and MCM treatment well before a larger and later organ/organism response.

47 OTHER INSTRUMENTATION↗
DOE OSTI2018

Synthesis, Crystal Structure, Electrochemical Properties, and Biological Activity of 2-((1H-Benzimidazol-2-yl)methylamino)acetic Acid

A water soluble compound, (2-((1H-benzimidazol-2-yl)methylamino)acetic acid, BIGH, has been synthesized and structurally characterized by elemental analysis, IR and UV spectroscopies, {sup 1}H-NMR, thermogravimetric and differential thermal analyses, and single crystal and powder X-ray diffraction. BIGH can act as a flexible planar ligand with three potential coordination sites. It crystallizes in a monoclinic system with the sp. gr. P2{sub 1}/c with the unit cell parameters, a = 9.3764(7) Å, b = 11.5031(8) Å, c = 10.0543(6) Å, and Z = 4. The crystal structure was stabilized through inter-molecular hydrogen bonds. The anti-microbial activity of the compound has been studied against Escherichia coli, Bacillus subtilis, Pseudomonas aeruginosa, and Staphylococcus aureus, which showed a good activity against Bacillus subtilis. Cyclic voltammogram of the compound shows that it is a redox-active molecule.

37 INORGANIC, ORGANIC, PHYSICAL, AND ANALYTICAL CH↗