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At least 289 records · Page 16

Airphoto Interpretation and the Selection of a Powerchain Right-of-way in Vermont

The analysis of 1:42,000 scale color infrared aerial photographs was performed to acquire data on land use, wetlands, geology, population distribution, and transportation for the purpose of locating a high voltage powerline. Maps and reference literature augmented these data with information concerning historic sites, biologically or geologically sensitive areas, planning, and zoning. With the combined data, twenty-nine corridor segments, one mile wide and varying lengths were identified.

Klunder, H.↗

The Kinematic and Microphysical Control of Storm Integrated Lightning Flash Extent

The objective of this preliminary study is to investigate the kinematic and microphysical control of lightning properties, particularly those that may govern the production of nitrogen oxides (NOx) in thunderstorms, such as flash rate, type and extent. The mixed-phase region is where the noninductive charging (NIC) process is thought to generate most storm electrification during rebounding collisions between ice particles in the presence of supercooled water. As a result, prior radar-based studies have demonstrated that lightning flash rate is well correlated to kinematic and microphysical properties in the mixed-phase region of thunderstorms such as updraft volume, graupel mass, or ice mass flux. There is also some evidence that lightning type is associated with the convective state. Intracloud (IC) lightning tends to dominate during the updraft accumulation of precipitation ice mass while cloud-to-ground (CG) lightning is more numerous during the downdraft-driven descent of radar echo associated with graupel and hail. More study is required to generalize these relationships, especially regarding lightning type, in a wide variety of storm modes and meteorological conditions. Less is known about the co-evolving relationship between storm kinematics, microphysics, morphology and three-dimensional flash extent, despite its importance for lightning NOx production. To address this conceptual gap, the NASA MSFC Lightning Nitrogen Oxides Model (LNOM) is applied to North Alabama Lightning Mapping Array (NALMA) and Vaisala National Lightning Detection NetworkTM (NLDN) observations following ordinary convective cells through their lifecycle. LNOM provides estimates of flash type, channel length distributions, lightning segment altitude distributions (SADs) and lightning NOx production profiles. For this study, LNOM is applied in a Lagrangian sense to well isolated convective cells on 3 April 2007 (single cell and multi-cell hailstorm, non-severe multicell) and 6 July 2007 (non-severe multi-cell) over Northern Alabama. The LNOM lightning characteristics are compared to the evolution of updraft and precipitation properties inferred from dual-Doppler and polarimetric radar analyses applied to observations from a nearby Doppler radar network, including the UA Huntsville Advanced Radar for Meteorological and Operational Research (ARMOR, C-band, polarimetric). The LNOM estimated SAD and lightning NOx production profiles are placed in the context of radar derived profiles of vertical motion, precipitation types and amounts. Finally, these analyses are used to determine if storm integrated flash channel extent is as well correlated to volumetric updraft and precipitation ice characteristics in the mixed phase region as flash rate for these individual convective cells.

Carey, Lawrence↗

An Algorithm for Obtaining the Distribution of 1-Meter Lightning Channel Segment Altitudes for Application in Lightning NOx Production Estimation

An algorithm has been developed to estimate the altitude distribution of one-meter lightning channel segments. The algorithm is required as part of a broader objective that involves improving the lightning NOx emission inventories of both regional air quality and global chemistry/climate models. The algorithm was tested and applied to VHF signals detected by the North Alabama Lightning Mapping Array (NALMA). The accuracy of the algorithm was characterized by comparing algorithm output to the plots of individual discharges whose lengths were computed by hand; VHF source amplitude thresholding and smoothing were applied to optimize results. Several thousands of lightning flashes within 120 km of the NALMA network centroid were gathered from all four seasons, and were analyzed by the algorithm. The mean, standard deviation, and median statistics were obtained for all the flashes, the ground flashes, and the cloud flashes. One-meter channel segment altitude distributions were also obtained for the different seasons.

Peterson, Harold↗

CryoSegNet: accurate cryo-EM protein particle picking by integrating the foundational AI image segmentation model and attention-gated U-Net

Picking protein particles in cryo-electron microscopy (cryo-EM) micrographs is a crucial step in the cryo-EM-based structure determination. However, existing methods trained on a limited amount of cryo-EM data still cannot accurately pick protein particles from noisy cryo-EM images. The general foundational artificial intelligence–based image segmentation model such as Meta’s Segment Anything Model (SAM) cannot segment protein particles well because their training data do not include cryo-EM images. Here, we present a novel approach (CryoSegNet) of integrating an attention-gated U-shape network (U-Net) specially designed and trained for cryo-EM particle picking and the SAM. The U-Net is first trained on a large cryo-EM image dataset and then used to generate input from original cryo-EM images for SAM to make particle pickings. CryoSegNet shows both high precision and recall in segmenting protein particles from cryo-EM micrographs, irrespective of protein type, shape and size. On several independent datasets of various protein types, CryoSegNet outperforms two top machine learning particle pickers crYOLO and Topaz as well as SAM itself. The average resolution of density maps reconstructed from the particles picked by CryoSegNet is 3.33 Å, 7% better than 3.58 Å of Topaz and 14% better than 3.87 Å of crYOLO. It is publicly available at https://github.com/jianlin-cheng/CryoSegNet

59 BASIC BIOLOGICAL SCIENCES↗

Computational 3D histological phenotyping of whole zebrafish by X-ray histotomography

Organismal phenotypes frequently involve multiple organ systems. Histology is a powerful way to detect cellular and tissue phenotypes, but is largely descriptive and subjective. To determine how synchrotron-based X-ray micro-tomography (micro-CT) can yield 3-dimensional whole-organism images suitable for quantitative histological phenotyping, we scanned whole zebrafish, a small vertebrate model with diverse tissues, at ~1 micron voxel resolutions. Micro-CT optimized for cellular characterization (histotomography) allows brain nuclei to be computationally segmented and assigned to brain regions, and cell shapes and volumes to be computed for motor neurons and red blood cells. Striking individual phenotypic variation was apparent from color maps of computed densities of brain nuclei. Unlike histology, the histotomography also allows the study of 3-dimensional structures of millimeter scale that cross multiple tissue planes. We expect the computational and visual insights into 3D cell and tissue architecture provided by histotomography to be useful for reference atlases, hypothesis generation, comprehensive organismal screens, and diagnostics.

59 BASIC BIOLOGICAL SCIENCES↗

Boundary-fitted coordinate systems for numerical solution of partial differential equations - A review

A comprehensive review of methods of numerically generating curvilinear coordinate systems with coordinate lines coincident with all boundary segments is given. Some general mathematical framework and error analysis common to such coordinate systems is also included. The general categories of generating systems are those based on conformal mapping, orthogonal systems, nearly orthogonal systems, systems produced as the solution of elliptic and hyperbolic partial differential equations, and systems generated algebraically by interpolation among the boundaries. Also covered are the control of coordinate line spacing by functions embedded in the partial differential operators of the generating system and by subsequent stretching transformation. Dynamically adaptive coordinate systems, coupled with the physical solution, and time-dependent systems that follow moving boundaries are treated. References reporting experience using such coordinate systems are reviewed as well as those covering the system development.

Thompson, J. F.↗

Geology of the Venus equatorial region from Pioneer Venus radar imaging

The surface characteristics and morphology of the equatorial region of Venus were first described by Masursky et al. who showed this part of the planet to be characterized by two topographic provinces, rolling plains and highlands, and more recently by Schaber who described and interpreted tectonic zones in the highlands. Using Pioneer Venus (PV) radar image data (15 deg S to 45 deg N), Senske and Head examined the distribution, characteristics, and deposits of individual volcanic features in the equatorial region, and in addition classified major equatorial physiographic and tectonic units on the basis of morphology, topographic signature, and radar properties derived from the PV data. Included in this classification are: plains (undivided), inter-highland tectonic zones, tectonically segmented linear highlands, upland rises, tectonic junctions, dark halo plains, and upland plateaus. In addition to the physiographic units, features interpreted as coronae and volcanic mountains have also been mapped. The latter four of the physiographic units along with features interpreted to be coronae.

Senske, D. A.↗

X-ray microscopy enables multiscale high-resolution 3D imaging of plant cells, tissues, and organs

Capturing complete internal anatomies of plant organs and tissues within their relevant morphological context remains a key challenge in plant science. While plant growth and development are inherently multiscale, conventional light, fluorescence, and electron microscopy platforms are typically limited to imaging of plant microstructure from small flat samples that lack a direct spatial context to, and represent only a small portion of, the relevant plant macrostructures. We demonstrate technical advances with a lab-based X-ray microscope (XRM) that bridge the imaging gap by providing multiscale high-resolution three-dimensional (3D) volumes of intact plant samples from the cell to the whole plant level. Serial imaging of a single sample is shown to provide sub-micron 3D volumes co-registered with lower magnification scans for explicit contextual reference. High-quality 3D volume data from our enhanced methods facilitate sophisticated and effective computational segmentation. Advances in sample preparation make multimodal correlative imaging workflows possible, where a single resin-embedded plant sample is scanned via XRM to generate a 3D cell-level map, and then used to identify and zoom in on sub-cellular regions of interest for high-resolution scanning electron microscopy. In total, we present the methodologies for use of XRM in the multiscale and multimodal analysis of 3D plant features using numerous economically and scientifically important plant systems.

59 BASIC BIOLOGICAL SCIENCES↗

LANDSAT application of remote sensing to shoreline-form analysis

The author has identified the following significant results. Orientation of the shoreline segments of Assateague Island (55 km) was measured from LANDSAT 2 imagery enlarged to 1:250,000 and 1:80,000. Long term trends in shoreline dynamics were established by mapping shoreline and storm-surge penetration changes from historical low altitude aerial photography spanning four decades.

Dolan, R.↗

A geographic information system for resource managers based on multi-level remote sensing data

Procedures followed in developing a test case geographic information system derived primarily from remotely sensed data for the North Cache Soil Conservation District (SCD) in northern Utah are outlined. The North Cache SCD faces serious problems regarding water allocation, flood and geologic hazards, urban encroachment into prime farmland, soil erosion, and wildlife habitat. Four fundamental data planes were initially entered into the geo-referenced data base: (1) land use/land cover information for the agricultural and built-up areas of the valley obtained from various forms of aerial photography; (2) vegetation/land cover in mountains classified digitally from LANDSAT; (3) geomorphic terrain units derived from aerial photography and soil maps; and (4) digital terrain maps obtained from DMA digital data. The land use/vegetation/land cover information from manual photographic and LANDSAT interpretation were joined digitally into a single data plane with an integrated legend, and segmented into quadrangle units. These were merged with the digitized geomorphic units and the digital terrain data using a Prime 400 minicomputer. All data planes were geo-referenced to a UTM coordinate grid.

Wheeler, D. J.↗

Geometric correction process for the Landsat-4 Thematic Mapper

The processing approaches which form the basis of the Landsat-4 Thematic Mapper (TM) geometric correction system are summarized. The correction is accomplished in two phases. In the first phase, correction data are generated. The spacecraft position, TM frame attitude, TM scanning mirror position, and detector sampling are found as a function of time through a combination of flight segment measurements, ground segment modeling, and control point information. The data, along with the earth position and geoid model, are used to determine the earth location for each TM image sample. Then, using map projections, correction data can be generated which define the location of each TM image sample on the output coordinate system. In the second phase, the correction data are used to resample TM detector samples onto the output coordinate system.

Beyer, E. P.↗

A geographic information system for resource managers based on multi-level remote sensing data

Procedures followed in developing a test case geographic information system derived primarily from remotely sensed data for the North Cache Soil Conservation District (SCD) in northern Utah are outlined. The North Cache SCD faces serious problems regarding water allocation, flood and geologic hazards, urban encroachment into prime farmland, soil erosion, and wildlife habitat. Four fundamental data planes were initially entered into the geo-referenced data base: (1) land use/land cover information for the agricultural and built-up areas of the valley obtained from various forms of aerial photography; (2) vegetation/land cover in mountains classified digitally from Landsat; (3) geomorphic terrain units derived from aerial photography and soil maps; and (4) digital terrain maps obtained from DMA digital data. The land use/vegetation/land cover information from manual photographic and Landsat interpretation were joined digitally into a single data plane with an integrated legend, and segmented into quadrangle units. These were merged with the digitized geomorphic units and the digital terrain data using a Prime 400 minicomputer. All data planes were geo-referenced to a UTM coordinate grid.

Wheeler, D. J.↗

Standardizing Interfaces for External Access to Data and Processing for the NASA Ozone Product Evaluation and Test Element (PEATE)

NASA's traditional science data processing systems have focused on specific missions, and providing data access, processing and services to the funded science teams of those specific missions. Recently NASA has been modifying this stance, changing the focus from Missions to Measurements. Where a specific Mission has a discrete beginning and end, the Measurement considers long term data continuity across multiple missions. Total Column Ozone, a critical measurement of atmospheric composition, has been monitored for'decades on a series of Total Ozone Mapping Spectrometer (TOMS) instruments. Some important European missions also monitor ozone, including the Global Ozone Monitoring Experiment (GOME) and SCIAMACHY. With the U.S.IEuropean cooperative launch of the Dutch Ozone Monitoring Instrument (OMI) on NASA Aura satellite, and the GOME-2 instrumental on MetOp, the ozone monitoring record has been further extended. In conjunction with the U.S. Department of Defense (DoD) and the National Oceanic and Atmospheric Administration (NOAA), NASA is now preparing to evaluate data and algorithms for the next generation Ozone Mapping and Profiler Suite (OMPS) which will launch on the National Polar-orbiting Operational Environmental Satellite System (NPOESS) Preparatory Project (NPP) in 2010. NASA is constructing the Science Data Segment (SDS) which is comprised of several elements to evaluate the various NPP data products and algorithms. The NPP SDS Ozone Product Evaluation and Test Element (PEATE) will build on the heritage of the TOMS and OM1 mission based processing systems. The overall measurement based system that will encompass these efforts is the Atmospheric Composition Processing System (ACPS). We have extended the system to include access to publically available data sets from other instruments where feasible, including non-NASA missions as appropriate. The heritage system was largely monolithic providing a very controlled processing flow from data.ingest of satellite data to the ultimate archive of specific operational data products. The ACPS allows more open access with standard protocols including HTTP, SOAPIXML, RSS and various REST incarnations. External entities can be granted access to various modules within the system, including an extended data archive, metadata searching, production planning and processing. Data access is provided with very fine grained access control. It is possible to easily designate certain datasets as being available to the public, or restricted to groups of researchers, or limited strictly to the originator. This can be used, for example, to release one's best validated data to the public, but restrict the "new version" of data processed with a new, unproven algorithm until it is ready. Similarly, the system can provide access to algorithms, both as modifiable source code (where possible) and fully integrated executable Algorithm Plugin Packages (APPs). This enables researchers to download publically released versions of the processing algorithms and easily reproduce the processing remotely, while interacting with the ACPS. The algorithms can be modified allowing better experimentation and rapid improvement. The modified algorithms can be easily integrated back into the production system for large scale bulk processing to evaluate improvements. The system includes complete provenance tracking of algorithms, data and the entire processing environment. The origin of any data or algorithms is recorded and the entire history of the processing chains are stored such that a researcher can understand the entire data flow. Provenance is captured in a form suitable for the system to guarantee scientific reproducability of any data product it distributes even in cases where the physical data products themselves have been deleted due to space constraints. We are currently working on Semantic Web ontologies for representing the various provenance information. A new web site focusing on consolidating informaon about the measurement, processing system, and data access has been established to encourage interaction with the overall scientific community. We will describe the system, its data processing capabilities, and the methods the community can use to interact with the standard interfaces of the system.

Tilmes, Curt A.↗

The Kinematic and Microphysical Control of Storm Integrated Lightning Flash Extent

Objective: To investigate the kinematic and microphysical control of lightning properties, particularly those that may govern the production of nitrogen oxides (NOx) in thunderstorms, such as flash rate, type (intracloud [IC] vs. cloud-to-ground [CG] ) and extent. Data and Methodology: a) NASA MSFC Lightning Nitrogen Oxides Model (LNOM) is applied to North Alabama Lightning Mapping Array (NALMA) and Vaisala National Lightning Detection Network(TradeMark) (NLDN) observations following ordinary convective cells through their lifecycle. b) LNOM provides estimates of flash type, channel length distributions, lightning segment altitude distributions (SADs) and lightning NOx production profiles (Koshak et al. 2012). c) LNOM lightning characteristics are compared to the evolution of updraft and precipitation properties inferred from dual-Doppler (DD) and polarimetric radar analyses of UAHuntsville Advanced Radar for Meteorological and Operational Research (ARMOR, Cband, polarimetric) and KHTX (S-band, Doppler).

Carey, Lawrence D.↗

An Investigation of the Kinematic and Microphysical Control of Lightning Rate, Extent and NOX Production using DC3 Observations and the NASA Lightning Nitrogen Oxides Model (LNOM)

The Deep Convective Clouds and Chemistry (DC3) experiment seeks to quantify the relationship between storm physics, lightning characteristics and the production of nitrogen oxides via lightning (LNOx). The focus of this study is to investigate the kinematic and microphysical control of lightning properties, particularly those that may govern LNOx production, such as flash rate, type and extent across Alabama during DC3. Prior studies have demonstrated that lightning flash rate and type is correlated to kinematic and microphysical properties in the mixed‐phase region of thunderstorms such as updraft volume and graupel mass. More study is required to generalize these relationships in a wide variety of storm modes and meteorological conditions. Less is known about the co‐evolving relationship between storm physics, morphology and three‐dimensional flash extent, despite its importance for LNOx production. To address this conceptual gap, the NASA Lightning Nitrogen Oxides Model (LNOM) is applied to North Alabama Lightning Mapping Array (NALMA) and Vaisala National Lightning Detection NetworkTM (NLDN) observations following ordinary convective cells through their lifecycle. LNOM provides estimates of flash rate, flash type, channel length distributions, lightning segment altitude distributions (SADs) and lightning NOx production profiles. For this study, LNOM is applied in a Lagrangian sense to multicell thunderstorms over Northern Alabama on two days during DC3 (21 May and 11 June 2012) in which aircraft observations of NOx are available for comparison. The LNOM lightning characteristics and LNOX production estimates are compared to the evolution of updraft and precipitation properties inferred from dual‐Doppler and polarimetric radar analyses applied to observations from a nearby radar network, including the UAH Advanced Radar for Meteorological and Operational Research (ARMOR). Given complex multicell evolution, particular attention is paid to storm morphology, cell mergers and possible dynamical, microphysical and electrical interaction of individual cells when testing various hypotheses.

Carey, Lawrence↗

Nominal 30-M Cropland Extent Map of Continental Africa by Integrating Pixel-Based and Object-Based Algorithms Using Sentinel-2 and Landsat-8 Data on Google Earth Engine

A satellite-derived cropland extent map at high spatial resolution (30-m or better) is a must for food and water security analysis. Precise and accurate global cropland extent maps, indicating cropland and non-cropland areas, is a starting point to develop high-level products such as crop watering methods (irrigated or rainfed), cropping intensities (e.g., single, double, or continuous cropping), crop types, cropland fallows, as well as assessment of cropland productivity (productivity per unit of land), and crop water productivity (productivity per unit of water). Uncertainties associated with the cropland extent map have cascading effects on all higher-level cropland products. However, precise and accurate cropland extent maps at high spatial resolution over large areas (e.g., continents or the globe) are challenging to produce due to the small-holder dominant agricultural systems like those found in most of Africa and Asia. Cloud-based Geospatial computing platforms and multi-date, multi-sensor satellite image inventories on Google Earth Engine offer opportunities for mapping croplands with precision and accuracy over large areas that satisfy the requirements of broad range of applications. Such maps are expected to provide highly significant improvements compared to existing products, which tend to be coarser in resolution, and often fail to capture fragmented small-holder farms especially in regions with high dynamic change within and across years. To overcome these limitations, in this research we present an approach for cropland extent mapping at high spatial resolution (30-m or better) using the 10-day, 10 to 20-m, Sentinel-2 data in combination with 16-day, 30-m, Landsat-8 data on Google Earth Engine (GEE). First, nominal 30-m resolution satellite imagery composites were created from 36,924 scenes of Sentinel-2 and Landsat-8 images for the entire African continent in 2015-2016. These composites were generated using a median-mosaic of five bands (blue, green, red, near-infrared, NDVI) during each of the two periods (period 1: January-June 2016 and period 2: July-December 2015) plus a 30-m slope layer derived from the Shuttle Radar Topographic Mission (SRTM) elevation dataset. Second, we selected Cropland/Non-cropland training samples (sample size 9791) from various sources in GEE to create pixel-based classifications. As supervised classification algorithm, Random Forest (RF) was used as the primary classifier because of its efficiency, and when over-fitting issues of RF happened due to the noise of input training data, Support Vector Machine (SVM) was applied to compensate for such defects in specific areas. Third, the Recursive Hierarchical Segmentation (RHSeg) algorithm was employed to generate an object-oriented segmentation layer based on spectral and spatial properties from the same input data. This layer was merged with the pixel-based classification to improve segmentation accuracy. Accuracies of the merged 30-m crop extent product were computed using an error matrix approach in which 1754 independent validation samples were used. In addition, a comparison was performed with other available cropland maps as well as with LULC maps to show spatial similarity. Finally, the cropland area results derived from the map were compared with UN FAO statistics. The independent accuracy assessment showed a weighted overall accuracy of 94, with a producers accuracy of 85.9 (or omission error of 14.1), and users accuracy of 68.5 (commission error of 31.5) for the cropland class. The total net cropland area (TNCA) of Africa was estimated as 313 Mha for the nominal year 2015.

Cropland mapping; cropland areas; 30-m; Landsat-8;↗

LABQ3: Bayesian method for quantification of mineral compositions and nano-scale elemental mapping of 3D synchrotron XCT data

Quantitative analysis of mineral compositions is essential in understanding geochemical, mineralogical and environmental processes. Fine-resolution 3D imaging is widely done using synchrotron X-ray computed tomography (XCT), but existing analyses are limited to visualization and segmentation. This paper presents a new method, Linear Attenuation Bayesian Quantitative 3D-mapper (LABQ3), based on the linearity of X-ray attenuation with respect to elemental concentrations. To address the random variability in attenuation measurements, LABQ3 employs Bayesian decision theory to minimize classification error, using reference attenuation distributions from scans of pure mineral standards. To demonstrate LABQ3 and test its performance, we studied precipitated carbonate samples. XCT scans were done at multiple energies using the transmission X-ray microscope (TXM) at beamline 32-ID-C of the Advanced Photon Source at Argonne National Laboratory. The reconstructed 3D images have a voxel size of 20 nm. Analyses revealed rich nano-scale compositional heterogeneity within individual particles. A mixture of calcium and cadmium produced an overall stoichiometric composition of (Ca 0.78 ,Cd 0.22 )CO 3 , with some voxels containing nearly pure CdCO 3 . The addition of zinc led to an overall stoichiometric composition of 33% Ca, 28% Cd, 39% Zn, with a nearly pure CaCO 3 core and compositional zonation through the rim. These compositional gradients are related to temporal sequences of carbonate mineral formation where Cd precipitated at the beginning in (Ca,Cd)CO 3 , while Cd and Zn precipitated at the end in (Ca, Cd,Zn)CO 3 . Results differ from bulk analyses using Inductively Coupled Plasma-Mass Spectrometry (ICP-MS), showing that LABQ3 provides particle-specific insights. LABQ3 distinguishes itself by quantifying chemical compositions along a continuum, making it different from XCT analyses based on segmentation. LABQ3 allows simultaneous acquisition of morphology and chemical composition in 3D, facilitating the interpretation of chemical gradients of trace elements, quantification of solid solution compositions, inferences about temporal sequences of mineral precipitation, and addressing other concerns about solid-phase chemistry.

58 GEOSCIENCES↗