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At least 1,621 records · Page 90
All sourcesNASA NTRSDOE OSTI
DOE OSTI2025

Robust collection and processing for label-free single voxel proteomics

With advanced mass spectrometry (MS)-based proteomics, genome-scale proteome coverage can be achieved from bulk tissues. However, such bulk measurement lacks spatial resolution and obscures tissue heterogeneity, precluding proteome mapping of tissue microenvironment. Here we report an integrated $\underline{w}et$ $\underline{c}ollection$ of single microscale tissue voxels and $\underline{S}urfactant$$-assisted$ $\underline{O}ne$-$\underline{P}ot$ voxel processing method termed wcSOP for robust label-free single voxel proteomics. wcSOP capitalizes on buffer droplet-assisted wet collection of a single voxel dissected by LCM into the PCR tube cap and MS-compatible surfactant-assisted one-pot voxel processing in the collection cap. This convenient method allows reproducible label-free quantification of ~900 and ~4,600 proteins for single voxels at 20 µm × 20 µm × 10 µm (close to single cells) and 200 µm × 200 µm × 10 µm (~100 cells) from fresh frozen human spleen tissue, respectively. 100s-1000s of protein signatures were spatially resolved between spleen red and white pulp regions depending on the voxel size. Region-specific signaling pathways were enriched from single voxel proteomics data. To evaluate its broad applicability, we applied wcSOP-MS to two commonly accessible, OCT-embedded and FFPE, human archived tissues. It enabled to identify spatially resolved proteome changes and enriched pathways between diseased (breast cancer tumor or AD amyloid plaque) and adjacent normal regions. Antibody-based CODEX and IHC imaging validated label-free MS quantitation for single voxel analysis. The wcSOP-MS method paves the way for routine robust single voxel proteomics and spatial proteomics.

59 BASIC BIOLOGICAL SCIENCES↗
DOE OSTI2023

Peatland hydrology across scale: a probabilistic framework for confronting variability, heterogeneity, and uncertainty (Final Report)

Our project aimed to guide the representations of peatland hydrology and water-carbon feedbacks within Earth System Models, by improving process understanding and developing parsimonious models that elucidate the effects of hydroclimatic variability and spatial heterogeneity. Our research questions centered on the three key drivers of peatland hydrology: (1) seasonal and interannual hydroclimatic fluctuations, (2) spatial heterogeneity of peatland microtopography, and (3) hydrological connectivity across landscape units within a peatland watershed. Our analyses and model testing used existing long-term datasets within the Marcell Experimental Forest (MEF), with new data collected whenever necessary. To date, we have demonstrated the strong influence of water table elevations on the temperature sensitivity of CH 4 emissions, using a newly developed eddy covariance dataset spanning eleven years at MEF. Specifically, higher water tables dampen the increase in CH 4 emissions in the spring as well as their decrease in the fall, resulting in hysteresis. These results imply that any hydroclimatological changes in peatlands that shift seasonal water availability from winter to summer will increase annual CH 4 emissions, even if soil temperature remains unchanged. To further investigate water table elevation change within the peatland microtopography, we installed automated water table gauges across four bog-forest transects (the “lagg”) in two peatland watersheds at MEF, which are hotspots of intense biogeochemical activity. These measurements will give us new information about the extent of lagg expansion and contraction during snowmelt and high intensity rainfall events, as well as the directionality of water and nutrient flow into the bog from the surrounding forests. Finally, we investigated the hydrological connectivity across the peatland watershed complex during early spring – a critical period where water table is elevated from snowmelt – using extended hydrological records from MEF (e.g., snow and frost depths, water table elevations, streamflow). The importance of thermal and wintertime processes within the Energy Exascale Earth System Model (E3SM) was determined through sensitivity analyses. Results from data analyses show that (i) streamflow has decreased over decades likely due to increased evapotranspiration rates (despite no detectable trends in precipitation), (ii) spring streamflow generation is controlled by a sequence of fill-and-spill pathways from the snowpack to the stream through peatland water stores, and (iii) frost depth is a key explanatory variable for the timing and magnitude of streamflow. These results suggest that frost plays an important role in connecting surface water storage in peatlands to stream outlets, and that the hydrological connectivity across the peatland watershed complex can mediate the sensitivity of hydrological responses to climate variations.

54 ENVIRONMENTAL SCIENCES↗
DOE OSTI2021

Experimental Investigation of Melting and Solidification Processes of Phase Change Material Heat Exchanger

Rapid development and validation of PCM embedded heat exchangers (PCM-HX) concepts warrant a purpose-built test bench. This paper describes a test facility built for testing various PCM-HX configurations and phase change temperatures that will serve to validate the performance of novel PCM-HX designs. The entire test rig is placed in a temperature-controlled environmental chamber. Inside the PCM-HX containers, up to 48 T-type thermocouples can be spatially distributed on and around the tubes depending on the HX type to capture the phase change process over time. In this paper, a straight tube embedded in PCM having a phase change temperature of 37°C in cylindrical containers is tested. The PCM-HX uses water as an in-tube working fluid. Based on the measured data, the energy balance is analyzed, and its temperature distribution is presented. Here, the maximum deviation between the predicted stored energy and the energy stored calculated from experimental measurements is less than 5%.

36 MATERIALS SCIENCE↗
NASA NTRS1995

Regional scale hydrology with a new land surface processes model

Through the CaPE Hydrometeorology Project, we have developed an understanding of some of the unique data quality issues involved in assimilating data of disparate types for regional-scale hydrologic modeling within a GIS framework. Among others, the issues addressed here include the development of adequate validation of the surface water budget, implementation of the STATSGO soil data set, and implementation of a remote sensing-derived landcover data set to account for surface heterogeneity. A model of land surface processes has been developed and used in studies of the sensitivity of surface fluxes and runoff to soil and landcover characterization. Results of these experiments have raised many questions about how to treat the scale-dependence of land surface-atmosphere interactions on spatial and temporal variability. In light of these questions, additional modifications are being considered for the Marshall Land Surface Processes Model. It is anticipated that these techniques can be tested and applied in conjunction with GCIP activities over regional scales.

Laymon, Charles↗
NASA NTRS2012

Remote Sensing of Tropical Ecosystems: Atmospheric Correction and Cloud Masking Matter

Tropical rainforests are significant contributors to the global cycles of energy, water and carbon. As a result, monitoring of the vegetation status over regions such as Amazonia has been a long standing interest of Earth scientists trying to determine the effect of climate change and anthropogenic disturbance on the tropical ecosystems and its feedback on the Earth's climate. Satellite-based remote sensing is the only practical approach for observing the vegetation dynamics of regions like the Amazon over useful spatial and temporal scales, but recent years have seen much controversy over satellite-derived vegetation states in Amazônia, with studies predicting opposite feedbacks depending on data processing technique and interpretation. Recent results suggest that some of this uncertainty could stem from a lack of quality in atmospheric correction and cloud screening. In this paper, we assess these uncertainties by comparing the current standard surface reflectance products (MYD09, MYD09GA) and derived composites (MYD09A1, MCD43A4 and MYD13A2 - Vegetation Index) from the Moderate Resolution Imaging Spectroradiometer (MODIS) onboard the Aqua satellite to results obtained from the Multi-Angle Implementation of Atmospheric Correction (MAIAC) algorithm. MAIAC uses a new cloud screening technique, and novel aerosol retrieval and atmospheric correction procedures which are based on time-series and spatial analyses. Our results show considerable improvements of MAIAC processed surface reflectance compared to MYD09/MYD13 with noise levels reduced by a factor of up to 10. Uncertainties in the current MODIS surface reflectance product were mainly due to residual cloud and aerosol contamination which affected the Normalized Difference Vegetation Index (NDVI): During the wet season, with cloud cover ranging between 90 percent and 99 percent, conventionally processed NDVI was significantly depressed due to undetected clouds. A smaller reduction in NDVI due to increased aerosol levels was observed during the dry season, with an inverse dependence of NDVI on aerosol optical thickness (AOT). NDVI observations processed with MAIAC showed highly reproducible and stable inter-annual patterns with little or no dependence on cloud cover, and no significant dependence on AOT (p less than 0.05). In addition to a better detection of cloudy pixels, MAIAC obtained about 20-80 percent more cloud free pixels, depending on season, a considerable amount for land analysis given the very high cloud cover (75-99 percent) observed at any given time in the area. We conclude that a new generation of atmospheric correction algorithms, such as MAIAC, can help to dramatically improve vegetation estimates over tropical rain forest, ultimately leading to reduced uncertainties in satellite-derived vegetation products globally.

tropical ecosystems↗
NASA NTRS2014

The Surface Compositions of Pluto and Charon

The surface of Pluto as it is understood on the eve of the encounter of the New Horizons spacecraft (mid-2015) consists of a spatially heterogeneous mix of solid N2, CH4, CO, C2H6, and an additional component that imparts color, and may not be an ice. The known molecular ices are detected by near-infrared spectroscopy. The N2 ice occurs in the hexagonal crystalline b-phase, stable at T greater than 35.6 K. Spectroscopic evidence for wavelength shifts in the CH4 bands attests to the complex mixing of CH4 and N2 in the solid state, in accordance with the phase diagram for N2 + CH4. Spectra obtained at several aspects of Plutos surface as the planet rotates over its 6.4-day period show variability in the distribution of CH4 and N2 ices, with stronger CH4 absorption bands associated with regions of higher albedo, in correlation with the visible rotational light curve. CO and N2 ice absorptions are also strongly modulated by the rotation period; the bands are strongest on the anti-Charon hemisphere of Pluto. Longer term changes in the strengths of Plutos absorption bands occur as the viewing geometry changes on seasonal time-scales, although a complete cycle has not been observed. The non-ice component of Plutos surface may be a relatively refractory material produced by the UV and cosmic-ray irradiation of the surface ices and gases in the atmosphere, although UV does not generally penetrate the atmospheric CH4 to interact with the surface. Laboratory simulations indicate that a rich chemistry ensues by the irradiation of mixtures of the ices known to occur on Pluto, but specific compounds have not yet been identified in spectra of the planet. Charons surface is characterized by spectral bands of crystalline H2O ice, and a band attributed to one or more hydrates of NH3. Amorphous H2O ice may also be present; the balance between the amorphization and crystallization processes on Charon remains to be clarified. The albedo of Charon and its generally spatially uniform neutral color indicate that a component, not yet identified, is mixed in some way with the H2O and NH3nH2O ices. Among the many known small bodies in the transneptunian region, several share characteristics with Pluto and Charon, including the presence of CH4, N2, C2H6, H2O ices, as well as components that yield a wide variety of surface albedo and color. The New Horizons investigation of the Pluto-Charon system will generate new insight into the physical properties of the broader transneptunian population, and eventually to the corresponding bodies expected in the numerous planetary systems currently being discovered elsewhere in the Galaxy.

surface composition↗
DOE OSTI2023

Regional biogeography versus intra-annual dynamics of the root and soil microbiome

Abstract Background Root and soil microbial communities constitute the below-ground plant microbiome, are drivers of nutrient cycling, and affect plant productivity. However, our understanding of their spatiotemporal patterns is confounded by exogenous factors that covary spatially, such as changes in host plant species, climate, and edaphic factors. These spatiotemporal patterns likely differ across microbiome domains (bacteria and fungi) and niches (root vs. soil). Results To capture spatial patterns at a regional scale, we sampled the below-ground microbiome of switchgrass monocultures of five sites spanning > 3 degrees of latitude within the Great Lakes region. To capture temporal patterns, we sampled the below-ground microbiome across the growing season within a single site. We compared the strength of spatiotemporal factors to nitrogen addition determining the major drivers in our perennial cropping system. All microbial communities were most strongly structured by sampling site, though collection date also had strong effects; in contrast, nitrogen addition had little to no effect on communities. Though all microbial communities were found to have significant spatiotemporal patterns, sampling site and collection date better explained bacterial than fungal community structure, which appeared more defined by stochastic processes. Root communities, especially bacterial, were more temporally structured than soil communities which were more spatially structured, both across and within sampling sites. Finally, we characterized a core set of taxa in the switchgrass microbiome that persists across space and time. These core taxa represented < 6% of total species richness but > 27% of relative abundance, with potential nitrogen fixing bacteria and fungal mutualists dominating the root community and saprotrophs dominating the soil community. Conclusions Our results highlight the dynamic variability of plant microbiome composition and assembly across space and time, even within a single variety of a plant species. Root and soil fungal community compositions appeared spatiotemporally paired, while root and soil bacterial communities showed a temporal lag in compositional similarity suggesting active recruitment of soil bacteria into the root niche throughout the growing season. A better understanding of the drivers of these differential responses to space and time may improve our ability to predict microbial community structure and function under novel conditions.

59 BASIC BIOLOGICAL SCIENCES↗
NASA NTRS2000

BOREAS Level-4b AVHRR-LAC Ten-Day Composite Images: At-sensor Radiance

The BOReal Ecosystem-Atmosphere Study (BOREAS) Staff Science Satellite Data Acquisition Program focused on providing the research teams with the remotely sensed satellite data products they needed to compare and spatially extend point results. Manitoba Remote Sensing Center (MRSC) and BOREAS Information System (BORIS) personnel acquired, processed, and archived data from the Advanced Very High Resolution Radiometer (AVHRR) instruments on the National Oceanic and Atmospheric Administration (NOAA-11) and -14 satellites. The AVHRR data were acquired by CCRS and were provided to BORIS for use by BOREAS researchers. These AVHRR level-4b data are gridded, 10-day composites of at-sensor radiance values produced from sets of single-day images. Temporally, the 10- day compositing periods begin 11-Apr-1994 and end 10-Sep-1994. Spatially, the data cover the entire BOREAS region. The data are stored in binary image format files.

Cihlar, Josef↗
NASA NTRS2019

Forcing Factors Affecting Sea Level Changes at the Coast

We review the characteristics of sea level variability at the coast focussing on how it differs from the variability in the nearby deep ocean. Sea level variability occurs on all timescales, with processes at higher frequencies tending to have a larger magnitude at the coast due to resonance and other dynamics. In the case of some processes, such as the tides, the presence of the coast and the shallow waters of the shelves results in the processes being considerably more complex than offshore. However, ‘coastal variability’ should not always be considered as ‘short spatial scale variability’ but can be the result of signals transmitted along the coast from 1000s km away. Fortunately, thanks to tide gauges being necessarily located at the coast, many aspects of coastal sea level variability can be claimed to be better understood than those in the deep ocean. Nevertheless, certain aspects of coastal variability remain under-researched, including how changes in some processes (e.g., wave setup, river runoff) may have contributed to the historical mean sea level records obtained from tide gauges which are now used routinely in large-scale climate research.

Philip L Woodworth↗
NASA NTRS2013

A Lightweight I/O Scheme to Facilitate Spatial and Temporal Queries of Scientific Data Analytics

In the era of petascale computing, more scientific applications are being deployed on leadership scale computing platforms to enhance the scientific productivity. Many I/O techniques have been designed to address the growing I/O bottleneck on large-scale systems by handling massive scientific data in a holistic manner. While such techniques have been leveraged in a wide range of applications, they have not been shown as adequate for many mission critical applications, particularly in data post-processing stage. One of the examples is that some scientific applications generate datasets composed of a vast amount of small data elements that are organized along many spatial and temporal dimensions but require sophisticated data analytics on one or more dimensions. Including such dimensional knowledge into data organization can be beneficial to the efficiency of data post-processing, which is often missing from exiting I/O techniques. In this study, we propose a novel I/O scheme named STAR (Spatial and Temporal AggRegation) to enable high performance data queries for scientific analytics. STAR is able to dive into the massive data, identify the spatial and temporal relationships among data variables, and accordingly organize them into an optimized multi-dimensional data structure before storing to the storage. This technique not only facilitates the common access patterns of data analytics, but also further reduces the application turnaround time. In particular, STAR is able to enable efficient data queries along the time dimension, a practice common in scientific analytics but not yet supported by existing I/O techniques. In our case study with a critical climate modeling application GEOS-5, the experimental results on Jaguar supercomputer demonstrate an improvement up to 73 times for the read performance compared to the original I/O method.

Temporal Queries↗
NASA NTRS1978

Onboard processing for future space-borne imaging systems

There is a strong rationale for increasing the rate of information return from imaging class experiments aboard both terrestrial and planetary spacecraft. Future imaging systems will be designed with increased spatial resolution, broader spectral range and more spectral channels (or higher spectral resolution). The data rate implied by these improved performance characteristics can be expected to grow more rapidly than the projected telecommunications capability. One solution to this dilemma is the use of improved onboard data processing. The use of onboard classification processing in a multispectral imager can result in orders of magnitude increase in information transfer for very specific types of imaging tasks. Several of these processing functions are included in the conceptual design of an Infrared Multispectral Imager which would map the spatial distribution of characteristic geologic features associated with deposits of economic minerals.

Wellman, J. B.↗
NASA NTRSDate not supplied

Deep Learning System for Efficient Processing of Geostationary Satellite Imagery

Improved capabilities of Earth monitoring satellites are enabling a wide range of studies on the environmental effects of climate change, often leveraging the recent advancements in machine learning. At the same time, the new capabilities, including higher spatial resolution and temporal frequency, are expanding the amount of data generated at exponential rates. Further, a large majority of archived datasets generated by scientific processing is never used. This motivates the development of an efficient machine learning system for end-to-end processing of multi-level satellite datasets, from level 1 top of atmosphere observations to user friendly environmental variables of interest. Using current generation geostationary satellites GOES-16/17 (NOAA/NASA), and Himawari-8/9 (JAXA), we present an interchangeable set of machine models to perform spectral adjustment among sensors, physical model emulation, LEO-GEO emulation, and optical flow in a high performance computing environment. We use these tools on the NASA Earth eXchange (NEX) to generate consistent virtual observations across sensors, perform atmospheric correction and cloud detection, and estimate surface reflectance, surface temperature and atmospheric winds. This approach aims to improve the robustness of remotely sensed data processing by learning from diverse sets of observations while enabling near real-time and on-demand capabilities.

Thomas Vandal↗
NASA NTRS2019

Forcing Factors Affecting Sea Level Changes at the Coast

We review the characteristics of sea level variability at the coast focussing on how it differs from the variability in the nearby deep ocean. Sea level variability occurs on all timescales, with processes at higher frequencies tending to have a larger magnitude at the coast due to resonance and other dynamics. In the case of some processes, such as the tides, the presence of the coast and the shallow waters of the shelves results in the processes being considerably more complex than offshore. However, ‘coastal variability’ should not always be considered as ‘short spatial scale variability’ but can be the result of signals transmitted along the coast from 1000s km away. Fortunately, thanks to tide gauges being necessar-ily located at the coast, many aspects of coastal sea level variability can be claimed to be better understood than those in the deep ocean. Nevertheless, certain aspects of coastal variability remain under-researched, including how changes in some processes (e.g., wave setup, river runoff) may have contributed to the historical mean sea level records obtained from tide gauges which are now used routinely in large-scale climate research.

Philip L. Woodworth↗
NASA NTRS1992

Imaging solar flares in hard X-rays using Fourier telescopes

The sun emits hard X-rays (above 10 keV) during solar flares. Imaging hard X-ray sources on the sun with spatial resolutions on the order of 1-5 arcsec and integration times of 1 sec will provide greater insight into the energy release processes during a solar flare. In these events, tremendous amounts of energy stored in the solar magnetic field are rapidly released leading to emission across the electromagnetic spectrum. Two Fourier telescope designs, a spatial modulation collimator and a rotating modulation collimator, were developed to image the full sun in hard X-rays (10-100 keV) in an end-to-end simulation. Emission profiles were derived for two hard X-ray solar flare models taken from the current solar theoretical literature and used as brightness distributions for the telescope simulations. Both our telescope models, tailored to image solar sources, were found to perform equally well, thus offering the designer significant flexibility in developing systems for space-based platforms. Given sufficient sensitive areas, Fourier telescopes are promising concepts for imaging solar hard X-rays.

Campbell, Jonathan W.↗
DOE OSTI2021

Exploring the Spatial Control of Topotactic Phase Transitions Using Vertically Oriented Epitaxial Interfaces

Engineering oxygen vacancy formation and distribution is a powerful route for controlling the oxygen sublattice evolution that affects diverse functional behavior. The controlling of the oxygen vacancy formation process is particularly important for inducing topotactic phase transitions that occur by transformation of the oxygen sublattice. Here we demonstrate an epitaxial nanocomposite approach for exploring the spatial control of topotactic phase transition from a pristine perovskite phase to an oxygen vacancy-ordered brownmillerite (BM) phase in a model oxide La 0.7 Sr 0.3 MnO 3 (LSMO). Incorporating a minority phase NiO in LSMO films creates ultrahigh density of vertically aligned epitaxial interfaces that strongly influence the oxygen vacancy formation and distribution in LSMO. Combined structural characterizations reveal strong interactions between NiO and LSMO across the epitaxial interfaces leading to a topotactic phase transition in LSMO accompanied by significant morphology evolution in NiO. Using the NiO nominal ratio as a single control parameter, we obtain intermediate topotactic nanostructures with distinct distribution of the transformed LSMO-BM phase, which enables systematic tuning of magnetic and electrical transport properties. The use of self-assembled heterostructure interfaces by the epitaxial nanocomposite platform enables more versatile design of topotactic phase structures and correlated functionalities that are sensitive to oxygen vacancies.

36 MATERIALS SCIENCE↗
NASA NTRS1997

Multitemporal and Multiscaled Fractal Analysis of Landsat Satellite Data Using the Image Characterization and Modeling System (ICAMS)

The Image Characterization And Modeling System (ICAMS) is a public domain software package that is designed to provide scientists with innovative spatial analytical tools to visualize, measure, and characterize landscape patterns so that environmental conditions or processes can be assessed and monitored more effectively. In this study ICAMS has been used to evaluate how changes in fractal dimension, as a landscape characterization index, and resolution, are related to differences in Landsat images collected at different dates for the same area. Landsat Thematic Mapper (TM) data obtained in May and August 1993 over a portion of the Great Basin Desert in eastern Nevada were used for analysis. These data represent contrasting periods of peak "green-up" and "dry-down" for the study area. The TM data sets were converted into Normalized Difference Vegetation Index (NDVI) images to expedite analysis of differences in fractal dimension between the two dates. These NDVI images were also resampled to resolutions of 60, 120, 240, 480, and 960 meters from the original 30 meter pixel size, to permit an assessment of how fractal dimension varies with spatial resolution. Tests of fractal dimension for two dates at various pixel resolutions show that the D values in the August image become increasingly more complex as pixel size increases to 480 meters. The D values in the May image show an even more complex relationship to pixel size than that expressed in the August image. Fractal dimension for a difference image computed for the May and August dates increase with pixel size up to a resolution of 120 meters, and then decline with increasing pixel size. This means that the greatest complexity in the difference images occur around a resolution of 120 meters, which is analogous to the operational domain of changes in vegetation and snow cover that constitute differences between the two dates.

Quattrochi, Dale A.↗
NASA NTRS1991

Color heterogeneity of the surface of Phobos - Relationships to geologic features and comparison to meteorite analogs

Color ratio images created from multispectral observations of Phobos are analyzed in order to characterize the spectral properties of Phobos' surface, to assess their spatial distributions and relationships with geologic features, and to compare Phobos' surface materials with possible meteorite analogs. Data calibration and processing is briefly discussed, and the observed spectral properties of Phobos and their lateral variations are examined. Attention is then given to the color properties of different types of impact craters, the origin of lateral variations in surface color, the relation between the spatial distribution of color properties and independently identifiable geologic features, and the relevance of color variation spatial distribution to the origin of the grooves.

Murchie, Scott L.↗