Digital map databases in support of avionic display systems

NASA Astrophysics Data System (ADS)

Trenchard, Michael E.; Lohrenz, Maura C.; Rosche, Henry, III; Wischow, Perry B.

1991-08-01

The emergence of computerized mission planning systems (MPS) and airborne digital moving map systems (DMS) has necessitated the development of a global database of raster aeronautical chart data specifically designed for input to these systems. The Naval Oceanographic and Atmospheric Research Laboratory''s (NOARL) Map Data Formatting Facility (MDFF) is presently dedicated to supporting these avionic display systems with the development of the Compressed Aeronautical Chart (CAC) database on Compact Disk Read Only Memory (CDROM) optical discs. The MDFF is also developing a series of aircraft-specific Write-Once Read Many (WORM) optical discs. NOARL has initiated a comprehensive research program aimed at improving the pilots'' moving map displays current research efforts include the development of an alternate image compression technique and generation of a standard set of color palettes. The CAC database will provide digital aeronautical chart data in six different scales. CAC is derived from the Defense Mapping Agency''s (DMA) Equal Arc-second (ARC) Digitized Raster Graphics (ADRG) a series of scanned aeronautical charts. NOARL processes ADRG to tailor the chart image resolution to that of the DMS display while reducing storage requirements through image compression techniques. CAC is being distributed by DMA as a library of CDROMs.

Database and online map service on unstable rock slopes in Norway - From data perpetuation to public information

NASA Astrophysics Data System (ADS)

Oppikofer, Thierry; Nordahl, Bobo; Bunkholt, Halvor; Nicolaisen, Magnus; Jarna, Alexandra; Iversen, Sverre; Hermanns, Reginald L.; Böhme, Martina; Yugsi Molina, Freddy X.

2015-11-01

The unstable rock slope database is developed and maintained by the Geological Survey of Norway as part of the systematic mapping of unstable rock slopes in Norway. This mapping aims to detect catastrophic rock slope failures before they occur. More than 250 unstable slopes with post-glacial deformation are detected up to now. The main aims of the unstable rock slope database are (1) to serve as a national archive for unstable rock slopes in Norway; (2) to serve for data collection and storage during field mapping; (3) to provide decision-makers with hazard zones and other necessary information on unstable rock slopes for land-use planning and mitigation; and (4) to inform the public through an online map service. The database is organized hierarchically with a main point for each unstable rock slope to which several feature classes and tables are linked. This main point feature class includes several general attributes of the unstable rock slopes, such as site name, general and geological descriptions, executed works, recommendations, technical parameters (volume, lithology, mechanism and others), displacement rates, possible consequences, as well as hazard and risk classification. Feature classes and tables linked to the main feature class include different scenarios of an unstable rock slope, field observation points, sampling points for dating, displacement measurement stations, lineaments, unstable areas, run-out areas, areas affected by secondary effects, along with tables for hazard and risk classification and URL links to further documentation and references. The database on unstable rock slopes in Norway will be publicly consultable through an online map service. Factsheets with key information on unstable rock slopes can be automatically generated and downloaded for each site. Areas of possible rock avalanche run-out and their secondary effects displayed in the online map service, along with hazard and risk assessments, will become important tools for land-use planning. The present database will further evolve in the coming years as the systematic mapping progresses and as available techniques and tools evolve.

The IAGOS information system

NASA Astrophysics Data System (ADS)

Boulanger, Damien; Gautron, Benoit; Schultz, Martin; Brötz, Björn; Rauthe-Schöch, Armin; Thouret, Valérie

2015-04-01

IAGOS (In-service Aircraft for a Global Observing System) aims at the provision of long-term, frequent, regular, accurate, and spatially resolved in situ observations of the atmospheric composition. IAGOS observation systems are deployed on a fleet of commercial aircraft. The IAGOS database is an essential part of the global atmospheric monitoring network. Data access is handled by open access policy based on the submission of research requests which are reviewed by the PIs. The IAGOS database (http://www.iagos.fr, damien.boulanger@obs-mip.fr) is part of the French atmospheric chemistry data centre Ether (CNES and CNRS). In the framework of the IGAS project (IAGOS for Copernicus Atmospheric Service) interoperability with international portals or other databases is implemented in order to improve IAGOS data discovery. The IGAS data network is composed of three data centres: the IAGOS database in Toulouse including IAGOS-core data and IAGOS-CARIBIC (Civil Aircraft for the Regular Investigation of the Atmosphere Based on an Instrument Container) data since January 2015; the HALO research aircraft database at DLR (https://halo-db.pa.op.dlr.de); and the MACC data centre in Jülich (http://join.iek.fz-juelich.de). The MACC (Monitoring Atmospheric Composition and Climate) project is a prominent user of the IGAS data network. In June 2015 a new version of the IAGOS database will be released providing improved services such as download in NetCDF or NASA Ames formats; graphical tools (maps, scatter plots, etc.); standardized metadata (ISO 19115) and a better users management. The link with the MACC data centre, through JOIN (Jülich OWS Interface), will allow to combine model outputs with IAGOS data for intercomparison. The interoperability within the IGAS data network, implemented thanks to many web services, will improve the functionalities of the web interfaces of each data centre.

Thematic Accuracy Assessment of the 2011 National Land Cover Database (NLCD)

EPA Science Inventory

Accuracy assessment is a standard protocol of National Land Cover Database (NLCD) mapping. Here we report agreement statistics between map and reference labels for NLCD 2011, which includes land cover for ca. 2001, ca. 2006, and ca. 2011. The two main objectives were assessment o...

APPLICATION OF A "VITURAL FIELD REFERENCE DATABASE" TO ASSESS LAND-COVER MAP ACCURACIES

EPA Science Inventory

An accuracy assessment was performed for the Neuse River Basin, NC land-cover/use
(LCLU) mapping results using a "Virtual Field Reference Database (VFRDB)". The VFRDB was developed using field measurement and digital imagery (camera) data collected at 1,409 sites over a perio...

Tropical Africa: Land Use, Biomass, and Carbon Estimates for 1980 (and updated for the year 2000) (NDP-055)

DOE Data Explorer

Brown, Sandra [University of Illinois, Urbana, IL (USA); Winrock International, Arlington, Virginia (USA); Gaston, Greg [University of Illinois, Urbana, IL (USA); Oregon State University; Beaty, T. W. [Carbon Dioxide Information Analysis Center (CDIAC), Oak Ridge National Laboratory, Oak Ridge, TN (USA); Olsen, L. M. [Carbon Dioxide Information Analysis Center (CDIAC), Oak Ridge National Laboratory, Oak Ridge, TN (USA)

2001-01-01

This document describes the contents of a digital database containing maximum potential aboveground biomass, land use, and estimated biomass and carbon data for 1980. The biomass data and carbon estimates are associated with woody vegetation in Tropical Africa. These data were collected to reduce the uncertainty associated with estimating historical releases of carbon from land use change. Tropical Africa is defined here as encompassing 22.7 x 10E6 km² of the earth's land surface and is comprised of countries that are located in tropical Africa (Angola, Botswana, Burundi, Cameroon, Cape Verde, Central African Republic, Chad, Congo, Benin, Equatorial Guinea, Ethiopia, Djibouti, Gabon, Gambia, Ghana, Guinea, Ivory Coast, Kenya, Liberia, Madagascar, Malawi, Mali, Mauritania, Mozambique, Namibia, Niger, Nigeria, Guinea-Bissau, Zimbabwe (Rhodesia), Rwanda, Senegal, Sierra Leone, Somalia, Sudan, Tanzania, Togo,Uganda, Burkina Faso (Upper Volta), Zaire, and Zambia). The database was developed using the GRID module in the ARC/INFO (TM geographic information system. Source data were obtained from the Food and Agriculture Organization (FAO), the U.S. National Geophysical Data Center, and a limited number of biomass-carbon density case studies. These data were used to derive the maximum potential and actual (ca. 1980) aboveground biomass values at regional and country levels. The land-use data provided were derived from a vegetation map originally produced for the FAO by the International Institute of Vegetation Mapping, Toulouse, France.

RAPTOR-scan: Identifying and Tracking Objects Through Thousands of Sky Images

DOE Office of Scientific and Technical Information (OSTI.GOV)

Davidoff, Sherri; Wozniak, Przemyslaw

2004-09-28

The RAPTOR-scan system mines data for optical transients associated with gamma-ray bursts and is used to create a catalog for the RAPTOR telescope system. RAPTOR-scan can detect and track individual astronomical objects across data sets containing millions of observed points.Accurately identifying a real object over many optical images (clustering the individual appearances) is necessary in order to analyze object light curves. To achieve this, RAPTOR telescope observations are sent in real time to a database. Each morning, a program based on the DBSCAN algorithm clusters the observations and labels each one with an object identifier. Once clustering is complete, themore » analysis program may be used to query the database and produce light curves, maps of the sky field, or other informative displays.Although RAPTOR-scan was designed for the RAPTOR optical telescope system, it is a general tool designed to identify objects in a collection of astronomical data and facilitate quick data analysis. RAPTOR-scan will be released as free software under the GNU General Public License.« less

REDIdb 3.0: A Comprehensive Collection of RNA Editing Events in Plant Organellar Genomes.

PubMed

Lo Giudice, Claudio; Pesole, Graziano; Picardi, Ernesto

2018-01-01

RNA editing is an important epigenetic mechanism by which genome-encoded transcripts are modified by substitutions, insertions and/or deletions. It was first discovered in kinetoplastid protozoa followed by its reporting in a wide range of organisms. In plants, RNA editing occurs mostly by cytidine (C) to uridine (U) conversion in translated regions of organelle mRNAs and tends to modify affected codons restoring evolutionary conserved aminoacid residues. RNA editing has also been described in non-protein coding regions such as group II introns and structural RNAs. Despite its impact on organellar transcriptome and proteome complexity, current primary databases still do not provide a specific field for RNA editing events. To overcome these limitations, we developed REDIdb a specialized database for RNA editing modifications in plant organelles. Hereafter we describe its third release containing more than 26,000 events in a completely novel web interface to accommodate RNA editing in its genomics, biological and evolutionary context through whole genome maps and multiple sequence alignments. REDIdb is freely available at http://srv00.recas.ba.infn.it/redidb/index.html.

Automated Database Mediation Using Ontological Metadata Mappings

PubMed Central

Marenco, Luis; Wang, Rixin; Nadkarni, Prakash

2009-01-01

Objective To devise an automated approach for integrating federated database information using database ontologies constructed from their extended metadata. Background One challenge of database federation is that the granularity of representation of equivalent data varies across systems. Dealing effectively with this problem is analogous to dealing with precoordinated vs. postcoordinated concepts in biomedical ontologies. Model Description The authors describe an approach based on ontological metadata mapping rules defined with elements of a global vocabulary, which allows a query specified at one granularity level to fetch data, where possible, from databases within the federation that use different granularities. This is implemented in OntoMediator, a newly developed production component of our previously described Query Integrator System. OntoMediator's operation is illustrated with a query that accesses three geographically separate, interoperating databases. An example based on SNOMED also illustrates the applicability of high-level rules to support the enforcement of constraints that can prevent inappropriate curator or power-user actions. Summary A rule-based framework simplifies the design and maintenance of systems where categories of data must be mapped to each other, for the purpose of either cross-database query or for curation of the contents of compositional controlled vocabularies. PMID:19567801

Global Mapping Project - Applications and Development of Version 2 Dataset

NASA Astrophysics Data System (ADS)

Ubukawa, T.; Nakamura, T.; Otsuka, T.; Iimura, T.; Kishimoto, N.; Nakaminami, K.; Motojima, Y.; Suga, M.; Yatabe, Y.; Koarai, M.; Okatani, T.

2012-07-01

The Global Mapping Project aims to develop basic geospatial information of the whole land area of the globe, named Global Map, through the cooperation of National Mapping Organizations (NMOs) around the world. The Global Map data can be a base of global geospatial infrastructure and is composed of eight layers: Boundaries, Drainage, Transportation, Population Centers, Elevation, Land Use, Land Cover and Vegetation. The Global Map Version 1 was released in 2008, and the Version 2 will be released in 2013 as the data are to be updated every five years. In 2009, the International Steering Committee for Global Mapping (ISCGM) adopted new Specifications to develop the Global Map Version 2 with a change of its format so that it is compatible with the international standards, namely ISO 19136 and ISO 19115. With the support of the secretariat of ISCGM, the project participating countries are accelerating their data development toward the completion of the global coverage in 2013, while some countries have already released their Global Map version 2 datasets since 2010. Global Map data are available from the Internet free of charge for non-commercial purposes, which can be used to predict, assess, prepare for and cope with global issues by combining with other spatial data. There are a lot of Global Map applications in various fields, and further utilization of Global Map is expected. This paper summarises the activities toward the development of the Global Map Version 2 as well as some examples of the Global Map applications in various fields.

Digital Geologic Map of the Rosalia 1:100,000 Quadrangle, Washington and Idaho: A Digital Database for the 1990 S.Z. Waggoner Map

USGS Publications Warehouse

Derkey, Pamela D.; Johnson, Bruce R.; Lackaff, Beatrice B.; Derkey, Robert E.

1998-01-01

The geologic map of the Rosalia 1:100,000-scale quadrangle was compiled in 1990 by S.Z. Waggoner of the Washington state Division of Geology and Earth Resources. This data was entered into a geographic information system (GIS) as part of a larger effort to create regional digital geology for the Pacific Northwest. The intent was to provide a digital geospatial database for a previously published black and white paper geologic map. This database can be queried in many ways to produce a variety of geologic maps. Digital base map data files are not included: they may be obtained from a variety of commercial and government sources. This database is not meant to be used or displayed at any scale larger than 1:100,000 (e.g., 1:62,500 or 1:24,000) as it has been somewhat generalized to fit the 1:100,000 scale map. The map area is located in eastern Washington and extends across the state border into western Idaho. This open-file report describes the methods used to convert the geologic map data into a digital format, documents the file structures, and explains how to download the digital files from the U.S. Geological Survey public access World Wide Web site on the Internet. We wish to thank J. Eric Schuster of the Washington Division of Geology and Earth Resources for providing the original stable-base mylar and the funding for it to be scanned. We also thank Dick Blank and Barry Moring of the U.S. Geological Survey for reviewing the manuscript and digital files, respectively.

Geologic Surface Effects of Underground Nuclear Testing, Buckboard Mesa, Climax Stock, Dome Mountain, Frenchman Flat, Rainier/Aqueduct Mesa, and Shoshone Mountain, Nevada Test Site, Nevada

USGS Publications Warehouse

Grasso, Dennis N.

2003-01-01

Surface effects maps were produced for 72 of 89 underground detonations conducted at the Frenchman Flat, Rainier Mesa and Aqueduct Mesa, Climax Stock, Shoshone Mountain, Buckboard Mesa, and Dome Mountain testing areas of the Nevada Test Site between August 10, 1957 (Saturn detonation, Area 12) and September 18, 1992 (Hunters Trophy detonation, Area 12). The ?Other Areas? Surface Effects Map Database, which was used to construct the maps shown in this report, contains digital reproductions of these original maps. The database is provided in both ArcGIS (v. 8.2) geodatabase format and ArcView (v. 3.2) shapefile format. This database contains sinks, cracks, faults, and other surface effects having a combined (cumulative) length of 136.38 km (84.74 mi). In GIS digital format, the user can view all surface effects maps simultaneously, select and view the surface effects of one or more sites of interest, or view specific surface effects by area or site. Three map layers comprise the database. They are: (1) the surface effects maps layer (oase_n27f), (2) the bar symbols layer (oase_bar_n27f), and (3) the ball symbols layer (oase_ball_n27f). Additionally, an annotation layer, named 'Ball_and_Bar_Labels,' and a polygon features layer, named 'Area12_features_poly_n27f,' are contained in the geodatabase version of the database. The annotation layer automatically labels all 295 ball-and-bar symbols shown on these maps. The polygon features layer displays areas of ground disturbances, such as rock spall and disturbed ground caused by the detonations. Shapefile versions of the polygon features layer in Nevada State Plane and Universal Transverse Mercator projections, named 'area12_features_poly_n27f.shp' and 'area12_features_poly_u83m.shp,' are also provided in the archive.

IPD-MHC 2.0: an improved inter-species database for the study of the major histocompatibility complex

PubMed Central

Maccari, Giuseppe; Robinson, James; Ballingall, Keith; Guethlein, Lisbeth A.; Grimholt, Unni; Kaufman, Jim; Ho, Chak-Sum; de Groot, Natasja G.; Flicek, Paul; Bontrop, Ronald E.; Hammond, John A.; Marsh, Steven G. E.

2017-01-01

The IPD-MHC Database project (http://www.ebi.ac.uk/ipd/mhc/) collects and expertly curates sequences of the major histocompatibility complex from non-human species and provides the infrastructure and tools to enable accurate analysis. Since the first release of the database in 2003, IPD-MHC has grown and currently hosts a number of specific sections, with more than 7000 alleles from 70 species, including non-human primates, canines, felines, equids, ovids, suids, bovins, salmonids and murids. These sequences are expertly curated and made publicly available through an open access website. The IPD-MHC Database is a key resource in its field, and this has led to an average of 1500 unique visitors and more than 5000 viewed pages per month. As the database has grown in size and complexity, it has created a number of challenges in maintaining and organizing information, particularly the need to standardize nomenclature and taxonomic classification, while incorporating new allele submissions. Here, we describe the latest database release, the IPD-MHC 2.0 and discuss planned developments. This release incorporates sequence updates and new tools that enhance database queries and improve the submission procedure by utilizing common tools that are able to handle the varied requirements of each MHC-group. PMID:27899604

TabSQL: a MySQL tool to facilitate mapping user data to public databases.

PubMed

Xia, Xiao-Qin; McClelland, Michael; Wang, Yipeng

2010-06-23

With advances in high-throughput genomics and proteomics, it is challenging for biologists to deal with large data files and to map their data to annotations in public databases. We developed TabSQL, a MySQL-based application tool, for viewing, filtering and querying data files with large numbers of rows. TabSQL provides functions for downloading and installing table files from public databases including the Gene Ontology database (GO), the Ensembl databases, and genome databases from the UCSC genome bioinformatics site. Any other database that provides tab-delimited flat files can also be imported. The downloaded gene annotation tables can be queried together with users' data in TabSQL using either a graphic interface or command line. TabSQL allows queries across the user's data and public databases without programming. It is a convenient tool for biologists to annotate and enrich their data.

TabSQL: a MySQL tool to facilitate mapping user data to public databases

PubMed Central

2010-01-01

Background With advances in high-throughput genomics and proteomics, it is challenging for biologists to deal with large data files and to map their data to annotations in public databases. Results We developed TabSQL, a MySQL-based application tool, for viewing, filtering and querying data files with large numbers of rows. TabSQL provides functions for downloading and installing table files from public databases including the Gene Ontology database (GO), the Ensembl databases, and genome databases from the UCSC genome bioinformatics site. Any other database that provides tab-delimited flat files can also be imported. The downloaded gene annotation tables can be queried together with users' data in TabSQL using either a graphic interface or command line. Conclusions TabSQL allows queries across the user's data and public databases without programming. It is a convenient tool for biologists to annotate and enrich their data. PMID:20573251

First release of the Dietary Supplement Ingredient Database: Nutrient estimates and methodology for 18 vitamins and minerals in adult multivitamin/minerals (MVMs)

USDA-ARS?s Scientific Manuscript database

The Dietary Supplement Ingredient Database (DSID) is a federal initiative to provide analytical validation of ingredients in dietary supplements. The first release on vitamins and minerals in adult MVMs is now available. Multiple lots of >100 representative adult MVMs were chemically analyzed for ...

DOE Office of Scientific and Technical Information (OSTI.GOV)

Bower, J.C.; Burford, M.J.; Downing, T.R.

The Integrated Baseline System (IBS) is an emergency management planning and analysis tool that is being developed under the direction of the US Army Nuclear and Chemical Agency (USANCA). The IBS Data Management Guide provides the background, as well as the operations and procedures needed to generate and maintain a site-specific map database. Data and system managers use this guide to manage the data files and database that support the administrative, user-environment, database management, and operational capabilities of the IBS. This document provides a description of the data files and structures necessary for running the IBS software and using themore » site map database.« less

Map showing geologic terranes of the Hailey 1 degree x 2 degrees quadrangle and the western part of the Idaho Falls 1 degree x 2 degrees quadrangle, south-central Idaho

USGS Publications Warehouse

Worl, R.G.; Johnson, K.M.

1995-01-01

The paper version of Map Showing Geologic Terranes of the Hailey 1x2 Quadrangle and the western part of the Idaho Falls 1x2 Quadrangle, south-central Idaho was compiled by Ron Worl and Kate Johnson in 1995. The plate was compiled on a 1:250,000 scale topographic base map. TechniGraphic System, Inc. of Fort Collins Colorado digitized this map under contract for N.Shock. G.Green edited and prepared the digital version for publication as a geographic information system database. The digital geologic map database can be queried in many ways to produce a variety of geologic maps.

Self-organized neural maps of human protein sequences.

PubMed Central

Ferrán, E. A.; Pflugfelder, B.; Ferrara, P.

1994-01-01

We have recently described a method based on artificial neural networks to cluster protein sequences into families. The network was trained with Kohonen's unsupervised learning algorithm using, as inputs, the matrix patterns derived from the dipeptide composition of the proteins. We present here a large-scale application of that method to classify the 1,758 human protein sequences stored in the SwissProt database (release 19.0), whose lengths are greater than 50 amino acids. In the final 2-dimensional topologically ordered map of 15 x 15 neurons, proteins belonging to known families were associated with the same neuron or with neighboring ones. Also, as an attempt to reduce the time-consuming learning procedure, we compared 2 learning protocols: one of 500 epochs (100 SUN CPU-hours [CPU-h]), and another one of 30 epochs (6.7 CPU-h). A further reduction of learning-computing time, by a factor of about 3.3, with similar protein clustering results, was achieved using a matrix of 11 x 11 components to represent the sequences. Although network training is time consuming, the classification of a new protein in the final ordered map is very fast (14.6 CPU-seconds). We also show a comparison between the artificial neural network approach and conventional methods of biosequence analysis. PMID:8019421

Preliminary investigation of submerged aquatic vegetation mapping using hyperspectral remote sensing.

PubMed

William, David J; Rybicki, Nancy B; Lombana, Alfonso V; O'Brien, Tim M; Gomez, Richard B

2003-01-01

The use of airborne hyperspectral remote sensing imagery for automated mapping of submerged aquatic vegetation (SAV) in the tidal Potomac River was investigated for near to real-time resource assessment and monitoring. Airborne hyperspectral imagery and field spectrometer measurements were obtained in October of 2000. A spectral library database containing selected ground-based and airborne sensor spectra was developed for use in image processing. The spectral library is used to automate the processing of hyperspectral imagery for potential real-time material identification and mapping. Field based spectra were compared to the airborne imagery using the database to identify and map two species of SAV (Myriophyllum spicatum and Vallisneria americana). Overall accuracy of the vegetation maps derived from hyperspectral imagery was determined by comparison to a product that combined aerial photography and field based sampling at the end of the SAV growing season. The algorithms and databases developed in this study will be useful with the current and forthcoming space-based hyperspectral remote sensing systems.

Bedrock geologic map of the Grafton quadrangle, Worcester County, Massachusetts

USGS Publications Warehouse

Walsh, Gregory J.; Aleinikoff, John N.; Dorais, Michael J.

2011-01-01

The bedrock geology of the 7.5-minute Grafton, Massachusetts, quadrangle consists of deformed Neoproterozoic to early Paleozoic crystalline metamorphic and intrusive igneous rocks. Neoproterozoic intrusive, metasedimentary, and metavolcanic rocks crop out in the Avalon zone, and Cambrian to Silurian intrusive, metasedimentary, and metavolcanic rocks crop out in the Nashoba zone. Rocks of the Avalon and Nashoba zones, or terranes, are separated by the Bloody Bluff fault. The bedrock geology was mapped to study the tectonic history of the area and to provide a framework for ongoing hydrogeologic characterization of the fractured bedrock of Massachusetts. This report presents mapping by G.J. Walsh, geochronology by J.N. Aleinikoff, geochemistry by M.J. Dorais, and consists of a map, text pamphlet, and GIS database. The map and text pamphlet are available in paper format or as downloadable files (see frame at right). The GIS database is available for download. The database includes contacts of bedrock geologic units, faults, outcrops, structural geologic information, and photographs.

SRTM Data Release for Eurasia, Index Map and Colored Height

NASA Image and Video Library

2004-01-22

inal Caption Released with Image: The colored regions of this map show the extent of digital elevation data recently released by the Shuttle Radar Topography Mission (SRTM). This release includes data for most of Europe and Asia plus numerous islands in the Indian and Pacific Oceans. SRTM flew on board the Space Shuttle Endeavour in February 2000 and used an interferometric radar system to map the topography of Earth's landmass between latitudes 56 degrees south and 60 degrees north. The data were processed into geographic "tiles," each of which represents one by one degree of latitude and longitude. A degree of latitude measures 111 kilometers (69 miles) north-south, and a degree of longitude measures 111 kilometers or less east-west, decreasing away from the equator. The data are being released to the public on a continent-by-continent basis. This Eurasia segment includes 5,940 tiles, more than a third of the total data set. Previous releases covered North America and South America. Forthcoming releases will include Africa-Arabia and Australia plus an "Islands" release for those islands not included in the continental releases. Together these data releases constitute the world's first high-resolution, near-global elevation model. The resolution of the publicly released data is three arcseconds (1/1,200 of a degree of latitude and longitude), which is about 90 meters (295 feet). European coverage in the current data release stretches eastward from the British Isles and the Iberian Peninsula in the west, across the Alps and Carpathian Mountains, as well as the Northern European Plain, to the Ural and Caucasus Mountains bordering Asia. The Asian coverage includes a great diversity of landforms, including the Tibetan Plateau, Tarin Basin, Mongolian Plateau, and the mountains surrounding Lake Baikal, the world's deepest lake. Mt. Everest in the Himalayas, at 8,848 meters (29,029 feet) is the world's highest mountain. From India's Deccan Plateau, to Southeast Asia, coastal China, and Korea, various landforms place constraints upon land use planning for a great population. Volcanoes in the East Indies, the Philippines, Japan, and the Kamchatka Peninsula form the western part of the "Ring of Fire" around the Pacific Ocean. Many of these regions were previously very poorly mapped due to persistent cloud cover or the inaccessibility of the terrain. Digital elevation data, such as provided by SRTM, are particularly in high demand by scientists studying earthquakes, volcanism, and erosion patterns for use in mapping and modeling hazards to human habitation. But the shape of Earth's surface affects nearly every natural process and human endeavor that occurs there, so elevation data are used in a wide range of applications. In this index map color-coding is directly related to topographic height, with green at the lower elevations, rising through yellow and tan, to white at the highest elevations. The large, very dark green feature in western Asia is the Caspian Sea, which is below sea level. Blue areas on the map represent water within the mapped tiles, each of which includes shorelines or islands. http://photojournal.jpl.nasa.gov/catalog/PIA03398

Large-Scale Digital Geologic Map Databases and Reports of the North Coal District in Afghanistan

USGS Publications Warehouse

Hare, Trent M.; Davis, Philip A.; Nigh, Devon; Skinner, James A.; SanFilipo, John R.; Bolm, Karen S.; Fortezzo, Corey M.; Galuszka, Donna; Stettner, William R.; Sultani, Shafiqullah; Nader, Billal

2008-01-01

This report describes the Afghanistan coal resource maps and associated databases that have been digitally captured and maps that have been thus far converted to GIS databases. Several maps by V/O Technoexport, USSR (VOTU) and Bundesanstalt fur Bodenforschung (BGR), Hannover, Germany, are captured here. Most of the historical coal exploration is concentrated in north-central Afghanistan, a region referred to as the 'North Coal District', and almost all of the coal-related maps found Afghanistan Geological Survey (AGS) archives to date cover various locations within that district as shown in the index map. Most of the maps included herein were originally scanned during U.S. Geological Survey (USGS) site visits to Kabul in November 2004 and February 2006. The scanning was performed using equipment purchased by U.S. Agency for International Development (USAID) and U.S. Trade and Development Agency (USTDA) and installed at the AGS by USGS. Many of these maps and associated reports exist as single unpublished copies in the AGS archives, so these efforts served not only to provide a basis for digital capturing, but also as a means for preserving these rare geologic maps and reports. The data included herein represent most of the coal-related reports and maps that are available in the AGS archives. This report excludes the limited cases when a significant portion of a report's text could not be located, but it does not exclude reports with missing plates. The vector files are released using the Environmental Systems Research Institute (ESRI) Personal Geodatabase, ESRI shapefile vector format, and the open Geography Markup Language (GML) format. Scanned images are available in JPEG and, when rectified, GeoTIFF format. The authors wish to acknowledge the contributions made by the staff of the AGS Records and Coal Departments whose valuable assistance made it possible to locate and catalogue the data provided herein. We especially acknowledge the efforts of particular members of the coal team: Engineer Saifuddin Aminy (Team Leader); Engineer Gul Pacha Azizi; Engineer Abdul Haq Barakati; Engineer Abdul Basir; Engineer Mohammad Daoud; Engineer Abdullah Ebadi; Engineer Abdul Ahad Omaid; Engineer Spozmy; and Engineer Shapary Tokhi. The ongoing efforts of Engineer Mir M. Atiq Kazimi (Team leader); Engineer M. Anwar Housinzada; and Engineer Shereen Agha of the AGS Records Department to organize and catalogue the AGS material were invaluable in locating and preserving these data. The efforts of the entire AGS staff to personally preserve these data during war time, in the absence of virtually any supporting infrastructure, was truly remarkable. The efforts by the British Geological Survey (BGS) to assist the AGS in archiving these data, and the personal assistance provided by BGS (notably Robert McIntosh), to the USGS teams were also appreciated. The logistical support provided by the U.S. Embassy in Kabul, particularly the Afghanistan Reconstruction Group, was critical to the success of the USGS teams while in Afghanistan. Finally, the efforts of the Minister of the Ministry of Mines and Industries (M. Ibrahim Adel) to support the USGS coal resource assessment in Afghanistan, in both his current and former role as President of the Mines Affairs Department was vital to this effort.

MareyMap Online: A User-Friendly Web Application and Database Service for Estimating Recombination Rates Using Physical and Genetic Maps.

PubMed

Siberchicot, Aurélie; Bessy, Adrien; Guéguen, Laurent; Marais, Gabriel A B

2017-10-01

Given the importance of meiotic recombination in biology, there is a need to develop robust methods to estimate meiotic recombination rates. A popular approach, called the Marey map approach, relies on comparing genetic and physical maps of a chromosome to estimate local recombination rates. In the past, we have implemented this approach in an R package called MareyMap, which includes many functionalities useful to get reliable recombination rate estimates in a semi-automated way. MareyMap has been used repeatedly in studies looking at the effect of recombination on genome evolution. Here, we propose a simpler user-friendly web service version of MareyMap, called MareyMap Online, which allows a user to get recombination rates from her/his own data or from a publicly available database that we offer in a few clicks. When the analysis is done, the user is asked whether her/his curated data can be placed in the database and shared with other users, which we hope will make meta-analysis on recombination rates including many species easy in the future. © The Author 2017. Published by Oxford University Press on behalf of the Society for Molecular Biology and Evolution.

Preliminary geologic map of the eastern Willapa Hills, Cowlitz, Lewis, and Wahkiakum Counties, Washington

USGS Publications Warehouse

Wells, Ray E.; Sawlan, Michael G.

2014-01-01

This digital map database and the PDF derived from the database were created from the analog geologic map: Wells, R.E. (1981), “Geologic map of the eastern Willapa Hills, Cowlitz, Lewis, and Wahkiakum Counties, Washington.” The geodatabase replicates the geologic mapping of the 1981 report with minor exceptions along water boundaries and also along the north and south map boundaries. Slight adjustments to contacts along water boundaries were made to correct differences between the topographic base map used in the 1981 compilation (analog USGS 15-minute series quadrangle maps at 1:62,500 scale) and the base map used for this digital compilation (scanned USGS 7.5-minute series quadrangle maps at 1:24,000 scale). These minor adjustments, however, did not materially alter the geologic map. No new field mapping was performed to create this digital map database, and no attempt was made to fit geologic contacts to the new 1:24,000 topographic base, except as noted above. We corrected typographical errors, formatting errors, and attribution errors (for example, the name change of Goble Volcanics to Grays River Volcanics following current State of Washington usage; Walsh and others, 1987). We also updated selected references, substituted published papers for abstracts, and cited published radiometric ages for the volcanic and plutonic rocks. The reader is referred to Magill and others (1982), Wells and Coe (1985), Walsh and others (1987), Moothart (1993), Payne (1998), Kleibacker (2001), McCutcheon (2003), Wells and others (2009), Chan and others (2012), and Wells and others (in press) for subsequent interpretations of the Willapa Hills geology.

Agronomic Effectiveness of Granulated and Powdered P-Exchanged Mg-Al LDH Relative to Struvite and MAP.

PubMed

Everaert, Maarten; Degryse, Fien; McLaughlin, Mike J; De Vos, Dirk; Smolders, Erik

2017-08-16

Layered double hydroxides (LDHs) used to recover P from wastewater have recently been proposed as new slow-release fertilizers. Here, the use of P-exchanged Mg-Al LDHs as powdered or granulated fertilizer is explored and compared with monoammonium phosphate (MAP), a fully water-soluble fertilizer, and with struvite, a recycled phosphate fertilizer with lower solubility. First, these three fertilizers were compared in a 100-day incubation experiment using P diffusion visualization and chemical analysis to assess P release from either granules or powdered fertilizer in three different soils. By the end of the incubation, 74-90% of P remained within the LDH granule, confirming a slow release. Second, a pot experiment was performed with wheat (Triticum aestivum) in an acid and a calcareous soil. The granular treatment resulted in a considerably higher P uptake for MAP compared to LDH and struvite. For the powder treatments, the P uptake was less than for granular MAP and was largely unaffected by the chemical form. The LDHs and struvite showed a lower agronomic effectiveness than granular MAP, but the benefits of their use in P recycling, potential residual value, and environmental benefits may render these slow-release fertilizers attractive.

Participating in the Geospatial Web: Collaborative Mapping, Social Networks and Participatory GIS

NASA Astrophysics Data System (ADS)

Rouse, L. Jesse; Bergeron, Susan J.; Harris, Trevor M.

In 2005, Google, Microsoft and Yahoo! released free Web mapping applications that opened up digital mapping to mainstream Internet users. Importantly, these companies also released free APIs for their platforms, allowing users to geo-locate and map their own data. These initiatives have spurred the growth of the Geospatial Web and represent spatially aware online communities and new ways of enabling communities to share information from the bottom up. This chapter explores how the emerging Geospatial Web can meet some of the fundamental needs of Participatory GIS projects to incorporate local knowledge into GIS, as well as promote public access and collaborative mapping.

Genomics of pear and other Rosaceae fruit trees

PubMed Central

Yamamoto, Toshiya; Terakami, Shingo

2016-01-01

The family Rosaceae includes many economically important fruit trees, such as pear, apple, peach, cherry, quince, apricot, plum, raspberry, and loquat. Over the past few years, whole-genome sequences have been released for Chinese pear, European pear, apple, peach, Japanese apricot, and strawberry. These sequences help us to conduct functional and comparative genomics studies and to develop new cultivars with desirable traits by marker-assisted selection in breeding programs. These genomics resources also allow identification of evolutionary relationships in Rosaceae, development of genome-wide SNP and SSR markers, and construction of reference genetic linkage maps, which are available through the Genome Database for the Rosaceae website. Here, we review the recent advances in genomics studies and their practical applications for Rosaceae fruit trees, particularly pear, apple, peach, and cherry. PMID:27069399

Genomics of pear and other Rosaceae fruit trees.

PubMed

Yamamoto, Toshiya; Terakami, Shingo

2016-01-01

The family Rosaceae includes many economically important fruit trees, such as pear, apple, peach, cherry, quince, apricot, plum, raspberry, and loquat. Over the past few years, whole-genome sequences have been released for Chinese pear, European pear, apple, peach, Japanese apricot, and strawberry. These sequences help us to conduct functional and comparative genomics studies and to develop new cultivars with desirable traits by marker-assisted selection in breeding programs. These genomics resources also allow identification of evolutionary relationships in Rosaceae, development of genome-wide SNP and SSR markers, and construction of reference genetic linkage maps, which are available through the Genome Database for the Rosaceae website. Here, we review the recent advances in genomics studies and their practical applications for Rosaceae fruit trees, particularly pear, apple, peach, and cherry.

Integrating Radar Image Data with Google Maps

NASA Technical Reports Server (NTRS)

Chapman, Bruce D.; Gibas, Sarah

2010-01-01

A public Web site has been developed as a method for displaying the multitude of radar imagery collected by NASA s Airborne Synthetic Aperture Radar (AIRSAR) instrument during its 16-year mission. Utilizing NASA s internal AIRSAR site, the new Web site features more sophisticated visualization tools that enable the general public to have access to these images. The site was originally maintained at NASA on six computers: one that held the Oracle database, two that took care of the software for the interactive map, and three that were for the Web site itself. Several tasks were involved in moving this complicated setup to just one computer. First, the AIRSAR database was migrated from Oracle to MySQL. Then the back-end of the AIRSAR Web site was updated in order to access the MySQL database. To do this, a few of the scripts needed to be modified; specifically three Perl scripts that query that database. The database connections were then updated from Oracle to MySQL, numerous syntax errors were corrected, and a query was implemented that replaced one of the stored Oracle procedures. Lastly, the interactive map was designed, implemented, and tested so that users could easily browse and access the radar imagery through the Google Maps interface.

An integrated photogrammetric and spatial database management system for producing fully structured data using aerial and remote sensing images.

PubMed

Ahmadi, Farshid Farnood; Ebadi, Hamid

2009-01-01

3D spatial data acquired from aerial and remote sensing images by photogrammetric techniques is one of the most accurate and economic data sources for GIS, map production, and spatial data updating. However, there are still many problems concerning storage, structuring and appropriate management of spatial data obtained using these techniques. According to the capabilities of spatial database management systems (SDBMSs); direct integration of photogrammetric and spatial database management systems can save time and cost of producing and updating digital maps. This integration is accomplished by replacing digital maps with a single spatial database. Applying spatial databases overcomes the problem of managing spatial and attributes data in a coupled approach. This management approach is one of the main problems in GISs for using map products of photogrammetric workstations. Also by the means of these integrated systems, providing structured spatial data, based on OGC (Open GIS Consortium) standards and topological relations between different feature classes, is possible at the time of feature digitizing process. In this paper, the integration of photogrammetric systems and SDBMSs is evaluated. Then, different levels of integration are described. Finally design, implementation and test of a software package called Integrated Photogrammetric and Oracle Spatial Systems (IPOSS) is presented.

Diet History Questionnaire: Database Revision History

Cancer.gov

The following details all additions and revisions made to the DHQ nutrient and food database. This revision history is provided as a reference for investigators who may have performed analyses with a previous release of the database.

RNAcentral: an international database of ncRNA sequences

DOE PAGES

Williams, Kelly Porter

2014-10-28

The field of non-coding RNA biology has been hampered by the lack of availability of a comprehensive, up-to-date collection of accessioned RNA sequences. Here we present the first release of RNAcentral, a database that collates and integrates information from an international consortium of established RNA sequence databases. The initial release contains over 8.1 million sequences, including representatives of all major functional classes. A web portal (http://rnacentral.org) provides free access to data, search functionality, cross-references, source code and an integrated genome browser for selected species.

BiKEGG: a COBRA toolbox extension for bridging the BiGG and KEGG databases.

PubMed

Jamialahmadi, Oveis; Motamedian, Ehsan; Hashemi-Najafabadi, Sameereh

2016-10-18

Development of an interface tool between the Biochemical, Genetic and Genomic (BiGG) and KEGG databases is necessary for simultaneous access to the features of both databases. For this purpose, we present the BiKEGG toolbox, an open source COBRA toolbox extension providing a set of functions to infer the reaction correspondences between the KEGG reaction identifiers and those in the BiGG knowledgebase using a combination of manual verification and computational methods. Inferred reaction correspondences using this approach are supported by evidence from the literature, which provides a higher number of reconciled reactions between these two databases compared to the MetaNetX and MetRxn databases. This set of equivalent reactions is then used to automatically superimpose the predicted fluxes using COBRA methods on classical KEGG pathway maps or to create a customized metabolic map based on the KEGG global metabolic pathway, and to find the corresponding reactions in BiGG based on the genome annotation of an organism in the KEGG database. Customized metabolic maps can be created for a set of pathways of interest, for the whole KEGG global map or exclusively for all pathways for which there exists at least one flux carrying reaction. This flexibility in visualization enables BiKEGG to indicate reaction directionality as well as to visualize the reaction fluxes for different static or dynamic conditions in an animated manner. BiKEGG allows the user to export (1) the output visualized metabolic maps to various standard image formats or save them as a video or animated GIF file, and (2) the equivalent reactions for an organism as an Excel spreadsheet.

Publications - New Releases | Alaska Division of Geological & Geophysical

Science.gov Websites

Publications Geologic Materials Center General Information Inventory Monthly Report Hours and Location Policy content New Publication Releases These icons indicate the available components of each publication: Report = Report Disk = CD/DVD Map = Maps Geospatial Data = Geospatial Data Outside Link = Outside Link Interactive

Recent Development of an Earth Science App - FieldMove Clino

NASA Astrophysics Data System (ADS)

Vaughan, Alan; Collins, Nathan; Krus, Mike; Rourke, Peter

2014-05-01

As geological modelling and analysis move into 3D digital space, it becomes increasingly important to be able to rapidly integrate new data with existing databases, without the potential degradation caused by repeated manual transcription of numeric, graphical and meta-data. Digital field mapping offers significant benefits when compared with traditional paper mapping techniques, in that it can directly and interactively feed and be guided by downstream geological modelling and analysis. One of the most important pieces of equipment used by the field geologists is the compass clinometer. Midland Valley's development team have recently release their highly anticipated FieldMove Clino App. FieldMove Clino is a digital compass-clinometer for data capture on a smartphone. The app allows the user to use their phone as a traditional hand-held bearing compass, as well as a digital compass-clinometer for rapidly measuring and capturing the georeferenced location and orientation of planar and linear features in the field. The user can also capture and store digital photographs and text notes. FieldMove Clino supports online Google Maps as well as offline maps, so that the user can import their own georeferenced basemaps. Data can be exported as comma-separated values (.csv) or Move™ (.mve) files and then imported directly into FieldMove™, Move™ or other applications. Midland Valley is currently pioneering tablet-based mapping and, along with its industrial and academic partners, will be using the application in field based projects throughout this year and will be integrating feedback in further developments of this technology.

A search map for organic additives and solvents applicable in high-voltage rechargeable batteries.

PubMed

Park, Min Sik; Park, Insun; Kang, Yoon-Sok; Im, Dongmin; Doo, Seok-Gwang

2016-09-29

Chemical databases store information such as molecular formulas, chemical structures, and the physical and chemical properties of compounds. Although the massive databases of organic compounds exist, the search of target materials is constrained by a lack of physical and chemical properties necessary for specific applications. With increasing interest in the development of energy storage systems such as high-voltage rechargeable batteries, it is critical to find new electrolytes efficiently. Here we build a search map to screen organic additives and solvents with novel core and functional groups, and thus establish a database of electrolytes to identify the most promising electrolyte for high-voltage rechargeable batteries. This search map is generated from MAssive Molecular Map BUilder (MAMMBU) by combining a high-throughput quantum chemical simulation with an artificial neural network algorithm. MAMMBU is designed for predicting the oxidation and reduction potentials of organic compounds existing in the massive organic compound database, PubChem. We develop a search map composed of ∼1 000 000 redox potentials and elucidate the quantitative relationship between the redox potentials and functional groups. Finally, we screen a quinoxaline compound for an anode additive and apply it to electrolytes and improve the capacity retention from 64.3% to 80.8% near 200 cycles for a lithium ion battery in experiments.

Latent fingerprint matching.

PubMed

Jain, Anil K; Feng, Jianjiang

2011-01-01

Latent fingerprint identification is of critical importance to law enforcement agencies in identifying suspects: Latent fingerprints are inadvertent impressions left by fingers on surfaces of objects. While tremendous progress has been made in plain and rolled fingerprint matching, latent fingerprint matching continues to be a difficult problem. Poor quality of ridge impressions, small finger area, and large nonlinear distortion are the main difficulties in latent fingerprint matching compared to plain or rolled fingerprint matching. We propose a system for matching latent fingerprints found at crime scenes to rolled fingerprints enrolled in law enforcement databases. In addition to minutiae, we also use extended features, including singularity, ridge quality map, ridge flow map, ridge wavelength map, and skeleton. We tested our system by matching 258 latents in the NIST SD27 database against a background database of 29,257 rolled fingerprints obtained by combining the NIST SD4, SD14, and SD27 databases. The minutiae-based baseline rank-1 identification rate of 34.9 percent was improved to 74 percent when extended features were used. In order to evaluate the relative importance of each extended feature, these features were incrementally used in the order of their cost in marking by latent experts. The experimental results indicate that singularity, ridge quality map, and ridge flow map are the most effective features in improving the matching accuracy.

Vegetation database for land-cover mapping, Clark and Lincoln Counties, Nevada

USGS Publications Warehouse

Charlet, David A.; Damar, Nancy A.; Leary, Patrick J.

2014-01-01

Floristic and other vegetation data were collected at 3,175 sample sites to support land-cover mapping projects in Clark and Lincoln Counties, Nevada, from 2007 to 2013. Data were collected at sample sites that were selected to fulfill mapping priorities by one of two different plot sampling approaches. Samples were described at the stand level and classified into the National Vegetation Classification hierarchy at the alliance level and above. The vegetation database is presented in geospatial and tabular formats.

Geologic map and digital database of the Porcupine Wash 7.5 minute Quadrangle, Riverside County, southern California

USGS Publications Warehouse

Powell, Robert E.

2001-01-01

This data set maps and describes the geology of the Porcupine Wash 7.5 minute quadrangle, Riverside County, southern California. The quadrangle, situated in Joshua Tree National Park in the eastern Transverse Ranges physiographic and structural province, encompasses parts of the Hexie Mountains, Cottonwood Mountains, northern Eagle Mountains, and south flank of Pinto Basin. It is underlain by a basement terrane comprising Proterozoic metamorphic rocks, Mesozoic plutonic rocks, and Mesozoic and Mesozoic or Cenozoic hypabyssal dikes. The basement terrane is capped by a widespread Tertiary erosion surface preserved in remnants in the Eagle and Cottonwood Mountains and buried beneath Cenozoic deposits in Pinto Basin. Locally, Miocene basalt overlies the erosion surface. A sequence of at least three Quaternary pediments is planed into the north piedmont of the Eagle and Hexie Mountains, each in turn overlain by successively younger residual and alluvial deposits. The Tertiary erosion surface is deformed and broken by north-northwest-trending, high-angle, dip-slip faults and an east-west trending system of high-angle dip- and left-slip faults. East-west trending faults are younger than and perhaps in part coeval with faults of the northwest-trending set. The Porcupine Wash database was created using ARCVIEW and ARC/INFO, which are geographical information system (GIS) software products of Envronmental Systems Research Institute (ESRI). The database consists of the following items: (1) a map coverage showing faults and geologic contacts and units, (2) a separate coverage showing dikes, (3) a coverage showing structural data, (4) a scanned topographic base at a scale of 1:24,000, and (5) attribute tables for geologic units (polygons and regions), contacts (arcs), and site-specific data (points). The database, accompanied by a pamphlet file and this metadata file, also includes the following graphic and text products: (1) A portable document file (.pdf) containing a navigable graphic of the geologic map on a 1:24,000 topographic base. The map is accompanied by a marginal explanation consisting of a Description of Map and Database Units (DMU), a Correlation of Map and Database Units (CMU), and a key to point-and line-symbols. (2) Separate .pdf files of the DMU and CMU, individually. (3) A PostScript graphic-file containing the geologic map on a 1:24,000 topographic base accompanied by the marginal explanation. (4) A pamphlet that describes the database and how to access it. Within the database, geologic contacts , faults, and dikes are represented as lines (arcs), geologic units as polygons and regions, and site-specific data as points. Polygon, arc, and point attribute tables (.pat, .aat, and .pat, respectively) uniquely identify each geologic datum and link it to other tables (.rel) that provide more detailed geologic information.

Review and critical appraisal of studies mapping from quality of life or clinical measures to EQ-5D: an online database and application of the MAPS statement.

PubMed

Dakin, Helen; Abel, Lucy; Burns, Richéal; Yang, Yaling

2018-02-12

The Health Economics Research Centre (HERC) Database of Mapping Studies was established in 2013, based on a systematic review of studies developing mapping algorithms predicting EQ-5D. The Mapping onto Preference-based measures reporting Standards (MAPS) statement was published in 2015 to improve reporting of mapping studies. We aimed to update the systematic review and assess the extent to which recently-published studies mapping condition-specific quality of life or clinical measures to the EQ-5D follow the guidelines published in the MAPS Reporting Statement. A published systematic review was updated using the original inclusion criteria to include studies published by December 2016. We included studies reporting novel algorithms mapping from any clinical measure or patient-reported quality of life measure to either the EQ-5D-3L or EQ-5D-5L. Titles and abstracts of all identified studies and the full text of papers published in 2016 were assessed against the MAPS checklist. The systematic review identified 144 mapping studies reporting 190 algorithms mapping from 110 different source instruments to EQ-5D. Of the 17 studies published in 2016, nine (53%) had titles that followed the MAPS statement guidance, although only two (12%) had abstracts that fully addressed all MAPS items. When the full text of these papers was assessed against the complete MAPS checklist, only two studies (12%) were found to fulfil or partly fulfil all criteria. Of the 141 papers (across all years) that included abstracts, the items on the MAPS statement checklist that were fulfilled by the largest number of studies comprised having a structured abstract (95%) and describing target instruments (91%) and source instruments (88%). The number of published mapping studies continues to increase. Our updated database provides a convenient way to identify mapping studies for use in cost-utility analysis. Most recent studies do not fully address all items on the MAPS checklist.

Engineering geological mapping in Wallonia (Belgium) : present state and recent computerized approach

NASA Astrophysics Data System (ADS)

Delvoie, S.; Radu, J.-P.; Ruthy, I.; Charlier, R.

2012-04-01

An engineering geological map can be defined as a geological map with a generalized representation of all the components of a geological environment which are strongly required for spatial planning, design, construction and maintenance of civil engineering buildings. In Wallonia (Belgium) 24 engineering geological maps have been developed between the 70s and the 90s at 1/5,000 or 1/10,000 scale covering some areas of the most industrialized and urbanized cities (Liège, Charleroi and Mons). They were based on soil and subsoil data point (boring, drilling, penetration test, geophysical test, outcrop…). Some displayed data present the depth (with isoheights) or the thickness (with isopachs) of the different subsoil layers up to about 50 m depth. Information about geomechanical properties of each subsoil layer, useful for engineers and urban planners, is also synthesized. However, these maps were built up only on paper and progressively needed to be updated with new soil and subsoil data. The Public Service of Wallonia and the University of Liège have recently initiated a study to evaluate the feasibility to develop engineering geological mapping with a computerized approach. Numerous and various data (about soil and subsoil) are stored into a georelational database (the geotechnical database - using Access, Microsoft®). All the data are geographically referenced. The database is linked to a GIS project (using ArcGIS, ESRI®). Both the database and GIS project consist of a powerful tool for spatial data management and analysis. This approach involves a methodology using interpolation methods to update the previous maps and to extent the coverage to new areas. The location (x, y, z) of each subsoil layer is then computed from data point. The geomechanical data of these layers are synthesized in an explanatory booklet joined to maps.

Accurate atom-mapping computation for biochemical reactions.

PubMed

Latendresse, Mario; Malerich, Jeremiah P; Travers, Mike; Karp, Peter D

2012-11-26

The complete atom mapping of a chemical reaction is a bijection of the reactant atoms to the product atoms that specifies the terminus of each reactant atom. Atom mapping of biochemical reactions is useful for many applications of systems biology, in particular for metabolic engineering where synthesizing new biochemical pathways has to take into account for the number of carbon atoms from a source compound that are conserved in the synthesis of a target compound. Rapid, accurate computation of the atom mapping(s) of a biochemical reaction remains elusive despite significant work on this topic. In particular, past researchers did not validate the accuracy of mapping algorithms. We introduce a new method for computing atom mappings called the minimum weighted edit-distance (MWED) metric. The metric is based on bond propensity to react and computes biochemically valid atom mappings for a large percentage of biochemical reactions. MWED models can be formulated efficiently as Mixed-Integer Linear Programs (MILPs). We have demonstrated this approach on 7501 reactions of the MetaCyc database for which 87% of the models could be solved in less than 10 s. For 2.1% of the reactions, we found multiple optimal atom mappings. We show that the error rate is 0.9% (22 reactions) by comparing these atom mappings to 2446 atom mappings of the manually curated Kyoto Encyclopedia of Genes and Genomes (KEGG) RPAIR database. To our knowledge, our computational atom-mapping approach is the most accurate and among the fastest published to date. The atom-mapping data will be available in the MetaCyc database later in 2012; the atom-mapping software will be available within the Pathway Tools software later in 2012.

Brassica ASTRA: an integrated database for Brassica genomic research.

PubMed

Love, Christopher G; Robinson, Andrew J; Lim, Geraldine A C; Hopkins, Clare J; Batley, Jacqueline; Barker, Gary; Spangenberg, German C; Edwards, David

2005-01-01

Brassica ASTRA is a public database for genomic information on Brassica species. The database incorporates expressed sequences with Swiss-Prot and GenBank comparative sequence annotation as well as secondary Gene Ontology (GO) annotation derived from the comparison with Arabidopsis TAIR GO annotations. Simple sequence repeat molecular markers are identified within resident sequences and mapped onto the closely related Arabidopsis genome sequence. Bacterial artificial chromosome (BAC) end sequences derived from the Multinational Brassica Genome Project are also mapped onto the Arabidopsis genome sequence enabling users to identify candidate Brassica BACs corresponding to syntenic regions of Arabidopsis. This information is maintained in a MySQL database with a web interface providing the primary means of interrogation. The database is accessible at http://hornbill.cspp.latrobe.edu.au.

Genome databases

DOE Office of Scientific and Technical Information (OSTI.GOV)

Courteau, J.

1991-10-11

Since the Genome Project began several years ago, a plethora of databases have been developed or are in the works. They range from the massive Genome Data Base at Johns Hopkins University, the central repository of all gene mapping information, to small databases focusing on single chromosomes or organisms. Some are publicly available, others are essentially private electronic lab notebooks. Still others limit access to a consortium of researchers working on, say, a single human chromosome. An increasing number incorporate sophisticated search and analytical software, while others operate as little more than data lists. In consultation with numerous experts inmore » the field, a list has been compiled of some key genome-related databases. The list was not limited to map and sequence databases but also included the tools investigators use to interpret and elucidate genetic data, such as protein sequence and protein structure databases. Because a major goal of the Genome Project is to map and sequence the genomes of several experimental animals, including E. coli, yeast, fruit fly, nematode, and mouse, the available databases for those organisms are listed as well. The author also includes several databases that are still under development - including some ambitious efforts that go beyond data compilation to create what are being called electronic research communities, enabling many users, rather than just one or a few curators, to add or edit the data and tag it as raw or confirmed.« less

IPD-MHC 2.0: an improved inter-species database for the study of the major histocompatibility complex.

PubMed

Maccari, Giuseppe; Robinson, James; Ballingall, Keith; Guethlein, Lisbeth A; Grimholt, Unni; Kaufman, Jim; Ho, Chak-Sum; de Groot, Natasja G; Flicek, Paul; Bontrop, Ronald E; Hammond, John A; Marsh, Steven G E

2017-01-04

The IPD-MHC Database project (http://www.ebi.ac.uk/ipd/mhc/) collects and expertly curates sequences of the major histocompatibility complex from non-human species and provides the infrastructure and tools to enable accurate analysis. Since the first release of the database in 2003, IPD-MHC has grown and currently hosts a number of specific sections, with more than 7000 alleles from 70 species, including non-human primates, canines, felines, equids, ovids, suids, bovins, salmonids and murids. These sequences are expertly curated and made publicly available through an open access website. The IPD-MHC Database is a key resource in its field, and this has led to an average of 1500 unique visitors and more than 5000 viewed pages per month. As the database has grown in size and complexity, it has created a number of challenges in maintaining and organizing information, particularly the need to standardize nomenclature and taxonomic classification, while incorporating new allele submissions. Here, we describe the latest database release, the IPD-MHC 2.0 and discuss planned developments. This release incorporates sequence updates and new tools that enhance database queries and improve the submission procedure by utilizing common tools that are able to handle the varied requirements of each MHC-group. © The Author(s) 2016. Published by Oxford University Press on behalf of Nucleic Acids Research.

KIDFamMap: a database of kinase-inhibitor-disease family maps for kinase inhibitor selectivity and binding mechanisms

PubMed Central

Chiu, Yi-Yuan; Lin, Chih-Ta; Huang, Jhang-Wei; Hsu, Kai-Cheng; Tseng, Jen-Hu; You, Syuan-Ren; Yang, Jinn-Moon

2013-01-01

Kinases play central roles in signaling pathways and are promising therapeutic targets for many diseases. Designing selective kinase inhibitors is an emergent and challenging task, because kinases share an evolutionary conserved ATP-binding site. KIDFamMap (http://gemdock.life.nctu.edu.tw/KIDFamMap/) is the first database to explore kinase-inhibitor families (KIFs) and kinase-inhibitor-disease (KID) relationships for kinase inhibitor selectivity and mechanisms. This database includes 1208 KIFs, 962 KIDs, 55 603 kinase-inhibitor interactions (KIIs), 35 788 kinase inhibitors, 399 human protein kinases, 339 diseases and 638 disease allelic variants. Here, a KIF can be defined as follows: (i) the kinases in the KIF with significant sequence similarity, (ii) the inhibitors in the KIF with significant topology similarity and (iii) the KIIs in the KIF with significant interaction similarity. The KIIs within a KIF are often conserved on some consensus KIDFamMap anchors, which represent conserved interactions between the kinase subsites and consensus moieties of their inhibitors. Our experimental results reveal that the members of a KIF often possess similar inhibition profiles. The KIDFamMap anchors can reflect kinase conformations types, kinase functions and kinase inhibitor selectivity. We believe that KIDFamMap provides biological insights into kinase inhibitor selectivity and binding mechanisms. PMID:23193279

A new edition of the Mars 1:5,000,000 map series

NASA Technical Reports Server (NTRS)

Batson, R. M.; Mcewen, Alfred S.; Wu, Sherman S. C.

1991-01-01

A new edition of the Mars 1:5,000,000 scale map series is in preparation. Two sheets will be made for each quadrangle. Sheet one will show shaded relief, contours, and nomenclature. Sheet 2 will be a full-color photomosaic prepared on the Mars digital image model (MDIM) base co-registered with the Mars low-resolution color database. The latter will have an abbreviated graticule (latitude/longitude ticks only) and no other line overprint. The four major databases used to assemble this series are now virtually complete. These are: (1) Viking-revised shaded relief maps at 1:5,000,000 scale; (2) contour maps at 1:2,000,000 scale; (3) the Mars digital image model; and (4) a color image mosaic of Mars. Together, these databases form the most complete planetwide cartographic definition of Mars that can be compiled with existing data. The new edition will supersede the published Mars 1:5,000,000 scale maps, including the original shaded relief and topographic maps made primarily with Mariner 9 data and the Viking-revised shaded relief and controlled photomosaic series. Publication of the new series will begin in late 1991 or early 1992, and it should be completed in two years.

Missouri Assessment Program (MAP), Spring 2000: Elementary Health/Physical Education, Released Items, Grade 5.

ERIC Educational Resources Information Center

Missouri State Dept. of Elementary and Secondary Education, Jefferson City.

This document presents 10 released items from the Health/Physical Education Missouri Assessment Program (MAP) test given in the spring of 2000 to fifth graders. Items from the test sessions include: selected-response (multiple choice), constructed-response, and a performance event. The selected-response items consist of individual questions…

Database for the geologic map of Upper Geyser Basin, Yellowstone National Park, Wyoming

USGS Publications Warehouse

Abendini, Atosa A.; Robinson, Joel E.; Muffler, L. J. Patrick; White, D. E.; Beeson, Melvin H.; Truesdell, A. H.

2015-01-01

This dataset contains contacts, geologic units, and map boundaries from Miscellaneous Investigations Series Map I-1371, "The Geologic map of upper Geyser Basin, Yellowstone, National Park, Wyoming". This dataset was constructed to produce a digital geologic map as a basis for ongoing studies of hydrothermal processes.

The National Deep-Sea Coral and Sponge Database: A Comprehensive Resource for United States Deep-Sea Coral and Sponge Records

NASA Astrophysics Data System (ADS)

Dornback, M.; Hourigan, T.; Etnoyer, P.; McGuinn, R.; Cross, S. L.

2014-12-01

Research on deep-sea corals has expanded rapidly over the last two decades, as scientists began to realize their value as long-lived structural components of high biodiversity habitats and archives of environmental information. The NOAA Deep Sea Coral Research and Technology Program's National Database for Deep-Sea Corals and Sponges is a comprehensive resource for georeferenced data on these organisms in U.S. waters. The National Database currently includes more than 220,000 deep-sea coral records representing approximately 880 unique species. Database records from museum archives, commercial and scientific bycatch, and from journal publications provide baseline information with relatively coarse spatial resolution dating back as far as 1842. These data are complemented by modern, in-situ submersible observations with high spatial resolution, from surveys conducted by NOAA and NOAA partners. Management of high volumes of modern high-resolution observational data can be challenging. NOAA is working with our data partners to incorporate this occurrence data into the National Database, along with images and associated information related to geoposition, time, biology, taxonomy, environment, provenance, and accuracy. NOAA is also working to link associated datasets collected by our program's research, to properly archive them to the NOAA National Data Centers, to build a robust metadata record, and to establish a standard protocol to simplify the process. Access to the National Database is provided through an online mapping portal. The map displays point based records from the database. Records can be refined by taxon, region, time, and depth. The queries and extent used to view the map can also be used to download subsets of the database. The database, map, and website is already in use by NOAA, regional fishery management councils, and regional ocean planning bodies, but we envision it as a model that can expand to accommodate data on a global scale.

Kazusa Marker DataBase: a database for genomics, genetics, and molecular breeding in plants.

PubMed

Shirasawa, Kenta; Isobe, Sachiko; Tabata, Satoshi; Hirakawa, Hideki

2014-09-01

In order to provide useful genomic information for agronomical plants, we have established a database, the Kazusa Marker DataBase (http://marker.kazusa.or.jp). This database includes information on DNA markers, e.g., SSR and SNP markers, genetic linkage maps, and physical maps, that were developed at the Kazusa DNA Research Institute. Keyword searches for the markers, sequence data used for marker development, and experimental conditions are also available through this database. Currently, 10 plant species have been targeted: tomato (Solanum lycopersicum), pepper (Capsicum annuum), strawberry (Fragaria × ananassa), radish (Raphanus sativus), Lotus japonicus, soybean (Glycine max), peanut (Arachis hypogaea), red clover (Trifolium pratense), white clover (Trifolium repens), and eucalyptus (Eucalyptus camaldulensis). In addition, the number of plant species registered in this database will be increased as our research progresses. The Kazusa Marker DataBase will be a useful tool for both basic and applied sciences, such as genomics, genetics, and molecular breeding in crops.

Maps of Quaternary Deposits and Liquefaction Susceptibility in the Central San Francisco Bay Region, California

USGS Publications Warehouse

Witter, Robert C.; Knudsen, Keith L.; Sowers, Janet M.; Wentworth, Carl M.; Koehler, Richard D.; Randolph, Carolyn E.; Brooks, Suzanna K.; Gans, Kathleen D.

2006-01-01

This report presents a map and database of Quaternary deposits and liquefaction susceptibility for the urban core of the San Francisco Bay region. It supercedes the equivalent area of U.S. Geological Survey Open-File Report 00-444 (Knudsen and others, 2000), which covers the larger 9-county San Francisco Bay region. The report consists of (1) a spatial database, (2) two small-scale colored maps (Quaternary deposits and liquefaction susceptibility), (3) a text describing the Quaternary map and liquefaction interpretation (part 3), and (4) a text introducing the report and describing the database (part 1). All parts of the report are digital; part 1 describes the database and digital files and how to obtain them by downloading across the internet. The nine counties surrounding San Francisco Bay straddle the San Andreas fault system, which exposes the region to serious earthquake hazard (Working Group on California Earthquake Probabilities, 1999). Much of the land adjacent to the Bay and the major rivers and streams is underlain by unconsolidated deposits that are particularly vulnerable to earthquake shaking and liquefaction of water-saturated granular sediment. This new map provides a consistent detailed treatment of the central part of the 9-county region in which much of the mapping of Open-File Report 00-444 was either at smaller (less detailed) scale or represented only preliminary revision of earlier work. Like Open-File Report 00-444, the current mapping uses geomorphic expression, pedogenic soils, inferred depositional environments, and geologic age to define and distinguish the map units. Further scrutiny of the factors controlling liquefaction susceptibility has led to some changes relative to Open-File Report 00-444: particularly the reclassification of San Francisco Bay mud (Qhbm) to have only MODERATE susceptibility and the rating of artificial fills according to the Quaternary map units inferred to underlie them (other than dams - adf). The two colored maps provide a regional summary of the new mapping at a scale of 1:200,000, a scale that is sufficient to show the general distribution and relationships of the map units but not to distinguish the more detailed elements that are present in the database. The report is the product of cooperative work by the National Earthquake Hazards Reduction Program (NEHRP) and National Cooperative Geologic Mapping Program of the U.S. Geological Survey, William Lettis and & Associates, Inc. (WLA), and the California Geological Survey. An earlier version was submitted to the U.S. Geological Survey by WLA as a final report for a NEHRP grant (Witter and others, 2005). The mapping has been carried out by WLA geologists under contract to the NEHRP Earthquake Program (Grant 99-HQ-GR-0095) and by the California Geological Survey.

Map-Based Querying for Multimedia Database

DTIC Science & Technology

2014-09-01

existing assets in a custom multimedia database based on an area of interest. It also describes the augmentation of an Android Tactical Assault Kit (ATAK......for Multimedia Database Somiya Metu Computational and Information Sciences Directorate, ARL

A Free Database of Auto-detected Full-sun Coronal Hole Maps

NASA Astrophysics Data System (ADS)

Caplan, R. M.; Downs, C.; Linker, J.

2016-12-01

We present a 4-yr (06/10/2010 to 08/18/14 at 6-hr cadence) database of full-sun synchronic EUV and coronal hole (CH) maps made available on a dedicated web site (http://www.predsci.com/chd). The maps are generated using STEREO/EUVI A&B 195Å and SDO/AIA 193Å images through an automated pipeline (Caplan et al, (2016) Ap.J. 823, 53).Specifically, the original data is preprocessed with PSF-deconvolution, a nonlinear limb-brightening correction, and a nonlinear inter-instrument intensity normalization. Coronal holes are then detected in the preprocessed images using a GPU-accelerated region growing segmentation algorithm. The final results from all three instruments are then merged and projected to form full-sun sine-latitude maps. All the software used in processing the maps is provided, which can easily be adapted for use with other instruments and channels. We describe the data pipeline and show examples from the database. We also detail recent CH-detection validation experiments using synthetic EUV emission images produced from global thermodynamic MHD simulations.

Predictive landslide susceptibility mapping using spatial information in the Pechabun area of Thailand

NASA Astrophysics Data System (ADS)

Oh, Hyun-Joo; Lee, Saro; Chotikasathien, Wisut; Kim, Chang Hwan; Kwon, Ju Hyoung

2009-04-01

For predictive landslide susceptibility mapping, this study applied and verified probability model, the frequency ratio and statistical model, logistic regression at Pechabun, Thailand, using a geographic information system (GIS) and remote sensing. Landslide locations were identified in the study area from interpretation of aerial photographs and field surveys, and maps of the topography, geology and land cover were constructed to spatial database. The factors that influence landslide occurrence, such as slope gradient, slope aspect and curvature of topography and distance from drainage were calculated from the topographic database. Lithology and distance from fault were extracted and calculated from the geology database. Land cover was classified from Landsat TM satellite image. The frequency ratio and logistic regression coefficient were overlaid for landslide susceptibility mapping as each factor’s ratings. Then the landslide susceptibility map was verified and compared using the existing landslide location. As the verification results, the frequency ratio model showed 76.39% and logistic regression model showed 70.42% in prediction accuracy. The method can be used to reduce hazards associated with landslides and to plan land cover.

EMAP and EMAGE: a framework for understanding spatially organized data.

PubMed

Baldock, Richard A; Bard, Jonathan B L; Burger, Albert; Burton, Nicolas; Christiansen, Jeff; Feng, Guanjie; Hill, Bill; Houghton, Derek; Kaufman, Matthew; Rao, Jianguo; Sharpe, James; Ross, Allyson; Stevenson, Peter; Venkataraman, Shanmugasundaram; Waterhouse, Andrew; Yang, Yiya; Davidson, Duncan R

2003-01-01

The Edinburgh MouseAtlas Project (EMAP) is a time-series of mouse-embryo volumetric models. The models provide a context-free spatial framework onto which structural interpretations and experimental data can be mapped. This enables collation, comparison, and query of complex spatial patterns with respect to each other and with respect to known or hypothesized structure. The atlas also includes a time-dependent anatomical ontology and mapping between the ontology and the spatial models in the form of delineated anatomical regions or tissues. The models provide a natural, graphical context for browsing and visualizing complex data. The Edinburgh Mouse Atlas Gene-Expression Database (EMAGE) is one of the first applications of the EMAP framework and provides a spatially mapped gene-expression database with associated tools for data mapping, submission, and query. In this article, we describe the underlying principles of the Atlas and the gene-expression database, and provide a practical introduction to the use of the EMAP and EMAGE tools, including use of new techniques for whole body gene-expression data capture and mapping.

Digital images in the map revision process

NASA Astrophysics Data System (ADS)

Newby, P. R. T.

Progress towards the adoption of digital (or softcopy) photogrammetric techniques for database and map revision is reviewed. Particular attention is given to the Ordnance Survey of Great Britain, the author's former employer, where digital processes are under investigation but have not yet been introduced for routine production. Developments which may lead to increasing automation of database update processes appear promising, but because of the cost and practical problems associated with managing as well as updating large digital databases, caution is advised when considering the transition to softcopy photogrammetry for revision tasks.

Geologic map of outcrop areas of sedimentary units in the eastern part of the Hailey 1 degree x 2 degrees quadrangle and part of the southern part of the Challis 1 degree x 2 degrees quadrangle, south-central Idaho

USGS Publications Warehouse

Link, P.K.; Mahoney, J.B.; Bruner, D.J.; Batatian, L.D.; Wilson, Eric; Williams, F.J.C.

1995-01-01

The paper version of the Geologic map of outcrop areas of sedimentary units in the eastern part of the Hailey 1x2 Quadrangle and part of the southern part of the Challis 1x2 Quadrangle, south-central Idaho was compiled by Paul Link and others in 1995. The plate was compiled on a 1:100,000 scale topographic base map. TechniGraphic System, Inc. of Fort Collins Colorado digitized this map under contract for N.Shock. G.Green edited and prepared the digital version for publication as a GIS database. The digital geologic map database can be queried in many ways to produce a variety of geologic maps.

Mapping Research in the Field of Special Education on the Island of Ireland since 2000

ERIC Educational Resources Information Center

Travers, Joseph; Savage, Rosie; Butler, Cathal; O'Donnell, Margaret

2018-01-01

This paper describes the process of building a database mapping research and policy in the field of special education on the island of Ireland from 2000 to 2013. The field of study includes special educational needs, disability and inclusion. The database contains 3188 references organised thematically and forms a source for researchers to access…

MAPS: The Organization of a Spatial Database System Using Imagery, Terrain, and Map Data

DTIC Science & Technology

1983-06-01

segments which share the same pixel position. Finally, in any largo system, a logical partitioning of the database must be performed in order to avoid...34theodore roosevelt memoria entry 0; entry 1: Virginia ’northwest Washington* 2 en 11" ies for "crossover" for ’theodore roosevelt memor i entry 0

Mapping PDB chains to UniProtKB entries.

PubMed

Martin, Andrew C R

2005-12-01

UniProtKB/SwissProt is the main resource for detailed annotations of protein sequences. This database provides a jumping-off point to many other resources through the links it provides. Among others, these include other primary databases, secondary databases, the Gene Ontology and OMIM. While a large number of links are provided to Protein Data Bank (PDB) files, obtaining a regularly updated mapping between UniProtKB entries and PDB entries at the chain or residue level is not straightforward. In particular, there is no regularly updated resource which allows a UniProtKB/SwissProt entry to be identified for a given residue of a PDB file. We have created a completely automatically maintained database which maps PDB residues to residues in UniProtKB/SwissProt and UniProtKB/trEMBL entries. The protocol uses links from PDB to UniProtKB, from UniProtKB to PDB and a brute-force sequence scan to resolve PDB chains for which no annotated link is available. Finally the sequences from PDB and UniProtKB are aligned to obtain a residue-level mapping. The resource may be queried interactively or downloaded from http://www.bioinf.org.uk/pdbsws/.

Development of ground-water vulnerability database for the U.S. Environmental protection agency's hazard ranking system using a geographic information system

USGS Publications Warehouse

Clarke, John S.; Sorensen, Jerry W.; Strickland, Henry G.; Collins, George

1992-01-01

Geographic information system (GIS) methods were applied to the U.S. Environmental Protection Agency's (EPA) hazard ranking system (HRS) to evaluate the vulnerability of ground water to contamination from actual or potential releases of hazardous materials from waste-disposal sites. Computerized maps of four factors influencing ground-water vulnerability - hydraulic conductivity, sorptive capacity, depth to water, and net precipitation - were derived for the Southeastern United States from digitized copies of published maps and from computerized databases, including the U.S. Geological Survey's (USGS) national water information system. To test the accuracy of the derived data coverages used to assess ground-water vulnerability, GIS-derived values for hydraulic conductivity, depth to water, and net precipitation were compared to corresponding values assigned by EPA's field investigation teams (FIT) at 28 hazardous waste sites. For each factor, site data were divided into three physiographic groupings: (1) Coastal Plain, (2) Valley and Ridge-Interior Low Plateaus, and (3) Piedmont-Blue Ridge. The best correlation between the paired data sets was for the net precipitation factor, where most GIS-derived values were within 0 to 40% of the FIT data, and 79% were within the same HRS scoring range. For the hydraulic conductivity factor, the best correlation between GIS and FIT data was for values derived from a published surficial deposits map, where most of the values were within one order of magnitude of the FIT data, and on the average were within 1.24 orders of magnitude of the FIT data. For this map, the best match between data sets was in the Coastal Plain province, where the difference in order to magnitude averaged 0.92. For the depth-to-water factor, most of the GIS derived values were within 51 to 100% of the FIT data, and only 44 to 50% of the sites were within a common scoring range. The best correlation for depth to water was in the Coastal Plain where GIS derived values were within 8 to 100% of the FIT data.

TranslatomeDB: a comprehensive database and cloud-based analysis platform for translatome sequencing data

PubMed Central

Liu, Wanting; Xiang, Lunping; Zheng, Tingkai; Jin, Jingjie

2018-01-01

Abstract Translation is a key regulatory step, linking transcriptome and proteome. Two major methods of translatome investigations are RNC-seq (sequencing of translating mRNA) and Ribo-seq (ribosome profiling). To facilitate the investigation of translation, we built a comprehensive database TranslatomeDB (http://www.translatomedb.net/) which provides collection and integrated analysis of published and user-generated translatome sequencing data. The current version includes 2453 Ribo-seq, 10 RNC-seq and their 1394 corresponding mRNA-seq datasets in 13 species. The database emphasizes the analysis functions in addition to the dataset collections. Differential gene expression (DGE) analysis can be performed between any two datasets of same species and type, both on transcriptome and translatome levels. The translation indices translation ratios, elongation velocity index and translational efficiency can be calculated to quantitatively evaluate translational initiation efficiency and elongation velocity, respectively. All datasets were analyzed using a unified, robust, accurate and experimentally-verifiable pipeline based on the FANSe3 mapping algorithm and edgeR for DGE analyzes. TranslatomeDB also allows users to upload their own datasets and utilize the identical unified pipeline to analyze their data. We believe that our TranslatomeDB is a comprehensive platform and knowledgebase on translatome and proteome research, releasing the biologists from complex searching, analyzing and comparing huge sequencing data without needing local computational power. PMID:29106630

ANISEED 2017: extending the integrated ascidian database to the exploration and evolutionary comparison of genome-scale datasets.

PubMed

Brozovic, Matija; Dantec, Christelle; Dardaillon, Justine; Dauga, Delphine; Faure, Emmanuel; Gineste, Mathieu; Louis, Alexandra; Naville, Magali; Nitta, Kazuhiro R; Piette, Jacques; Reeves, Wendy; Scornavacca, Céline; Simion, Paul; Vincentelli, Renaud; Bellec, Maelle; Aicha, Sameh Ben; Fagotto, Marie; Guéroult-Bellone, Marion; Haeussler, Maximilian; Jacox, Edwin; Lowe, Elijah K; Mendez, Mickael; Roberge, Alexis; Stolfi, Alberto; Yokomori, Rui; Brown, C Titus; Cambillau, Christian; Christiaen, Lionel; Delsuc, Frédéric; Douzery, Emmanuel; Dumollard, Rémi; Kusakabe, Takehiro; Nakai, Kenta; Nishida, Hiroki; Satou, Yutaka; Swalla, Billie; Veeman, Michael; Volff, Jean-Nicolas; Lemaire, Patrick

2018-01-04

ANISEED (www.aniseed.cnrs.fr) is the main model organism database for tunicates, the sister-group of vertebrates. This release gives access to annotated genomes, gene expression patterns, and anatomical descriptions for nine ascidian species. It provides increased integration with external molecular and taxonomy databases, better support for epigenomics datasets, in particular RNA-seq, ChIP-seq and SELEX-seq, and features novel interactive interfaces for existing and novel datatypes. In particular, the cross-species navigation and comparison is enhanced through a novel taxonomy section describing each represented species and through the implementation of interactive phylogenetic gene trees for 60% of tunicate genes. The gene expression section displays the results of RNA-seq experiments for the three major model species of solitary ascidians. Gene expression is controlled by the binding of transcription factors to cis-regulatory sequences. A high-resolution description of the DNA-binding specificity for 131 Ciona robusta (formerly C. intestinalis type A) transcription factors by SELEX-seq is provided and used to map candidate binding sites across the Ciona robusta and Phallusia mammillata genomes. Finally, use of a WashU Epigenome browser enhances genome navigation, while a Genomicus server was set up to explore microsynteny relationships within tunicates and with vertebrates, Amphioxus, echinoderms and hemichordates. © The Author(s) 2017. Published by Oxford University Press on behalf of Nucleic Acids Research.

Digital geologic map of the Thirsty Canyon NW quadrangle, Nye County, Nevada

USGS Publications Warehouse

Minor, S.A.; Orkild, P.P.; Sargent, K.A.; Warren, R.G.; Sawyer, D.A.; Workman, J.B.

1998-01-01

This digital geologic map compilation presents new polygon (i.e., geologic map unit contacts), line (i.e., fault, fold axis, dike, and caldera wall), and point (i.e., structural attitude) vector data for the Thirsty Canyon NW 7 1/2' quadrangle in southern Nevada. The map database, which is at 1:24,000-scale resolution, provides geologic coverage of an area of current hydrogeologic and tectonic interest. The Thirsty Canyon NW quadrangle is located in southern Nye County about 20 km west of the Nevada Test Site (NTS) and 30 km north of the town of Beatty. The map area is underlain by extensive layers of Neogene (about 14 to 4.5 million years old [Ma]) mafic and silicic volcanic rocks that are temporally and spatially associated with transtensional tectonic deformation. Mapped volcanic features include part of a late Miocene (about 9.2 Ma) collapse caldera, a Pliocene (about 4.5 Ma) shield volcano, and two Pleistocene (about 0.3 Ma) cinder cones. Also documented are numerous normal, oblique-slip, and strike-slip faults that reflect regional transtensional deformation along the southern part of the Walker Lane belt. The Thirsty Canyon NW map provides new geologic information for modeling groundwater flow paths that may enter the map area from underground nuclear testing areas located in the NTS about 25 km to the east. The geologic map database comprises six component ArcINFO map coverages that can be accessed after decompressing and unbundling the data archive file (tcnw.tar.gz). These six coverages (tcnwpoly, tcnwflt, tcnwfold, tcnwdike, tcnwcald, and tcnwatt) are formatted here in ArcINFO EXPORT format. Bundled with this database are two PDF files for readily viewing and printing the map, accessory graphics, and a description of map units and compilation methods.

Physiological Parameters Database for PBPK Modeling (External Review Draft)

EPA Science Inventory

EPA released for public comment a physiological parameters database (created using Microsoft ACCESS) intended to be used in PBPK modeling. The database contains physiological parameter values for humans from early childhood through senescence. It also contains similar data for an...

Tropical Africa: Land use, biomass, and carbon estimates for 1980

DOE Office of Scientific and Technical Information (OSTI.GOV)

Brown, S.; Gaston, G.; Daniels, R.C.

1996-06-01

This document describes the contents of a digital database containing maximum potential aboveground biomass, land use, and estimated biomass and carbon data for 1980 and describes a methodology that may be used to extend this data set to 1990 and beyond based on population and land cover data. The biomass data and carbon estimates are for woody vegetation in Tropical Africa. These data were collected to reduce the uncertainty associated with the possible magnitude of historical releases of carbon from land use change. Tropical Africa is defined here as encompassing 22.7 x 10{sup 6} km{sup 2} of the earth`s landmore » surface and includes those countries that for the most part are located in Tropical Africa. Countries bordering the Mediterranean Sea and in southern Africa (i.e., Egypt, Libya, Tunisia, Algeria, Morocco, South Africa, Lesotho, Swaziland, and Western Sahara) have maximum potential biomass and land cover information but do not have biomass or carbon estimate. The database was developed using the GRID module in the ARC/INFO{sup TM} geographic information system. Source data were obtained from the Food and Agriculture Organization (FAO), the U.S. National Geophysical Data Center, and a limited number of biomass-carbon density case studies. These data were used to derive the maximum potential and actual (ca. 1980) aboveground biomass-carbon values at regional and country levels. The land-use data provided were derived from a vegetation map originally produced for the FAO by the International Institute of Vegetation Mapping, Toulouse, France.« less

pseudoMap: an innovative and comprehensive resource for identification of siRNA-mediated mechanisms in human transcribed pseudogenes.

PubMed

Chan, Wen-Ling; Yang, Wen-Kuang; Huang, Hsien-Da; Chang, Jan-Gowth

2013-01-01

RNA interference (RNAi) is a gene silencing process within living cells, which is controlled by the RNA-induced silencing complex with a sequence-specific manner. In flies and mice, the pseudogene transcripts can be processed into short interfering RNAs (siRNAs) that regulate protein-coding genes through the RNAi pathway. Following these findings, we construct an innovative and comprehensive database to elucidate siRNA-mediated mechanism in human transcribed pseudogenes (TPGs). To investigate TPG producing siRNAs that regulate protein-coding genes, we mapped the TPGs to small RNAs (sRNAs) that were supported by publicly deep sequencing data from various sRNA libraries and constructed the TPG-derived siRNA-target interactions. In addition, we also presented that TPGs can act as a target for miRNAs that actually regulate the parental gene. To enable the systematic compilation and updating of these results and additional information, we have developed a database, pseudoMap, capturing various types of information, including sequence data, TPG and cognate annotation, deep sequencing data, RNA-folding structure, gene expression profiles, miRNA annotation and target prediction. As our knowledge, pseudoMap is the first database to demonstrate two mechanisms of human TPGs: encoding siRNAs and decoying miRNAs that target the parental gene. pseudoMap is freely accessible at http://pseudomap.mbc.nctu.edu.tw/. Database URL: http://pseudomap.mbc.nctu.edu.tw/

U.S. Quaternary Fault and Fold Database Released

NASA Astrophysics Data System (ADS)

Haller, Kathleen M.; Machette, Michael N.; Dart, Richard L.; Rhea, B. Susan

2004-06-01

A comprehensive online compilation of Quaternary-age faults and folds throughout the United States was recently released by the U.S. Geological Survey, with cooperation from state geological surveys, academia, and the private sector. The Web site at http://Qfaults.cr.usgs.gov/ contains searchable databases and related geo-spatial data that characterize earthquake-related structures that could be potential seismic sources for large-magnitude (M > 6) earthquakes.

Missouri Assessment Program (MAP), Spring 2000: High School Health/Physical Education, Released Items, Grade 9.

ERIC Educational Resources Information Center

Missouri State Dept. of Elementary and Secondary Education, Jefferson City.

This document presents 10 released items from the Health/Physical Education Missouri Assessment Program (MAP) test given in the spring of 2000 to ninth graders. Items from the test sessions include: selected-response (multiple choice), constructed-response, and a performance event. The selected-response items consist of individual questions…

Geologic map of the Reyes Peak quadrangle, Ventura County, California

USGS Publications Warehouse

Minor, Scott A.

2004-01-01

New 1:24,000-scale geologic mapping in the Cuyama 30' x 60' quadrangle, in support of the USGS Southern California Areal Mapping Project (SCAMP), is contributing to a more complete understanding of the stratigraphy, structure, and tectonic evolution of the complex junction area between the NW-trending Coast Ranges and EW-trending western Transverse Ranges. The 1:24,000-scale geologic map of the Reyes Peak quadrangle, located in the eastern part of the Cuyama map area, is the final of six contiguous 7 ?' quadrangle geologic maps compiled for a more detailed portrayal and reevaluation of geologic structures and rock units shown on previous maps of the region (Carman, 1964; Dibblee, 1972; Vedder and others, 1973). SCAMP digital geologic maps of the five other contiguous quadrangles have recently been published (Minor, 1999; Kellogg, 1999, 2003; Stone and Cossette, 2000; Kellogg and Miggins, 2002). This digital compilation presents a new geologic map database for the Reyes Peak 7?' quadrangle, which is located in southern California about 75 km northwest of Los Angeles. The map database is at 1:24,000-scale resolution.

Preliminary geologic map of the Fontana 7.5' quadrangle, Riverside and San Bernardino Counties, California

USGS Publications Warehouse

Morton, Douglas M.; Digital preparation by Bovard, Kelly R.

2003-01-01

Open-File Report 03-418 is a digital geologic data set that maps and describes the geology of the Fontana 7.5’ quadrangle, Riverside and San Bernardino Counties, California. The Fontana quadrangle database is one of several 7.5’ quadrangle databases that are being produced by the Southern California Areal Mapping Project (SCAMP). These maps and databases are, in turn, part of the nation-wide digital geologic map coverage being developed by the National Cooperative Geologic Map Program of the U.S. Geological Survey (USGS). General Open-File Report 03-418 contains a digital geologic map database of the Fontana 7.5’ quadrangle, Riverside and San Bernardino Counties, California that includes: 1. ARC/INFO (Environmental Systems Research Institute, http://www.esri.com) version 7.2.1 coverages of the various elements of the geologic map. 2. A Postscript file (fon_map.ps) to plot the geologic map on a topographic base, and containing a Correlation of Map Units diagram (CMU), a Description of Map Units (DMU), and an index map. 3. An Encapsulated PostScript (EPS) file (fon_grey.eps) created in Adobe Illustrator 10.0 to plot the geologic map on a grey topographic base, and containing a Correlation of Map Units (CMU), a Description of Map Units (DMU), and an index map. 4. Portable Document Format (.pdf) files of: a. the Readme file; includes in Appendix I, data contained in fon_met.txt b. The same graphics as plotted in 2 and 3 above.Test plots have not produced precise 1:24,000-scale map sheets. Adobe Acrobat page size setting influences map scale. The Correlation of Map Units and Description of Map Units is in the editorial format of USGS Geologic Investigations Series (I-series) maps but has not been edited to comply with I-map standards. Within the geologic map data package, map units are identified by standard geologic map criteria such as formation-name, age, and lithology. Where known, grain size is indicated on the map by a subscripted letter or letters following the unit symbols as follows: lg, large boulders; b, boulder; g, gravel; a, arenaceous; s, silt; c, clay; e.g. Qyfa is a predominantly young alluvial fan deposit that is arenaceous. Multiple letters are used for more specific identification or for mixed units, e.g., Qfysa is a silty sand. In some cases, mixed units are indicated by a compound symbol; e.g., Qyf2sc. Even though this is an Open-File Report and includes the standard USGS Open-File disclaimer, the report closely adheres to the stratigraphic nomenclature of the U.S. Geological Survey. Descriptions of units can be obtained by viewing or plotting the .pdf file (4b above) or plotting the postscript files (2 or 3 above).

BAID: The Barrow Area Information Database - An Interactive Web Mapping Portal and Cyberinfrastructure Showcasing Scientific Activities in the Vicinity of Barrow, Arctic Alaska.

NASA Astrophysics Data System (ADS)

Escarzaga, S. M.; Cody, R. P.; Kassin, A.; Barba, M.; Gaylord, A. G.; Manley, W. F.; Mazza Ramsay, F. D.; Vargas, S. A., Jr.; Tarin, G.; Laney, C. M.; Villarreal, S.; Aiken, Q.; Collins, J. A.; Green, E.; Nelson, L.; Tweedie, C. E.

2015-12-01

The Barrow area of northern Alaska is one of the most intensely researched locations in the Arctic and the Barrow Area Information Database (BAID, www.barrowmapped.org) tracks and facilitates a gamut of research, management, and educational activities in the area. BAID is a cyberinfrastructure (CI) that details much of the historic and extant research undertaken within in the Barrow region in a suite of interactive web-based mapping and information portals (geobrowsers). The BAID user community and target audience for BAID is diverse and includes research scientists, science logisticians, land managers, educators, students, and the general public. BAID contains information on more than 12,000 Barrow area research sites that extend back to the 1940's and more than 640 remote sensing images and geospatial datasets. In a web-based setting, users can zoom, pan, query, measure distance, save or print maps and query results, and filter or view information by space, time, and/or other tags. Additionally, data are described with metadata that meet Federal Geographic Data Committee standards. Recent advances include the addition of more than 2000 new research sites, the addition of a query builder user interface allowing rich and complex queries, and provision of differential global position system (dGPS) and high-resolution aerial imagery support to visiting scientists. Recent field surveys include over 80 miles of coastline to document rates of erosion and the collection of high-resolution sonar data for bathymetric mapping of Elson Lagoon and near shore region of the Chukchi Sea. A network of five climate stations has been deployed across the peninsula to serve as a wireless net for the research community and to deliver near real time climatic data to the user community. Local GIS personal have also been trained to better make use of scientific data for local decision making. Links to Barrow area datasets are housed at national data archives and substantial upgrades have been made to the BAID website and web mapping applications to include the public release of a new multi-temporal Imagery Viewer that allow users to interact with and compare imagery of the Barrow area from 1949 to present.

Design of an expert system for the development and formulation of push-pull osmotic pump tablets containing poorly water-soluble drugs.

PubMed

Zhang, Zhi-hong; Dong, Hong-ye; Peng, Bo; Liu, Hong-fei; Li, Chun-lei; Liang, Min; Pan, Wei-san

2011-05-30

The purpose of this article was to build an expert system for the development and formulation of push-pull osmotic pump tablets (PPOP). Hundreds of PPOP formulations were studied according to different poorly water-soluble drugs and pharmaceutical acceptable excipients. The knowledge base including database and rule base was built based on the reported results of hundreds of PPOP formulations containing different poorly water-soluble drugs and pharmaceutical excipients and the experiences available from other researchers. The prediction model of release behavior was built using back propagation (BP) neural network, which is good at nonlinear mapping and learning function. Formulation design model was established based on the prediction model of release behavior, which was the nucleus of the inference engine. Finally, the expert system program was constructed by VB.NET associating with SQL Server. Expert system is one of the most popular aspects in artificial intelligence. To date there is no expert system available for the formulation of controlled release dosage forms yet. Moreover, osmotic pump technology (OPT) is gradually getting consummate all over the world. It is meaningful to apply expert system on OPT. Famotidine, a water insoluble drug was chosen as the model drug to validate the applicability of the developed expert system. Copyright © 2011 Elsevier B.V. All rights reserved.

Probabilistic mapping of urban flood risk: Application to extreme events in Surat, India

NASA Astrophysics Data System (ADS)

Ramirez, Jorge; Rajasekar, Umamaheshwaran; Coulthard, Tom; Keiler, Margreth

2016-04-01

Surat, India is a coastal city that lies on the banks of the river Tapti and is located downstream from the Ukai dam. Given Surat's geographic location, the population of five million people are repeatedly exposed to flooding caused by high tide combined with large emergency dam releases into the Tapti river. In 2006 such a flood event occurred when intense rainfall in the Tapti catchment caused a dam release near 25,000 m3 s-1 and flooded 90% of the city. A first step towards strengthening resilience in Surat requires a robust method for mapping potential flood risk that considers the uncertainty in future dam releases. Here, in this study we develop many combinations of dam release magnitude and duration for the Ukai dam. Afterwards we use these dam releases to drive a two dimensional flood model (CAESAR-Lisflood) of Surat that also considers tidal effects. Our flood model of Surat utilizes fine spatial resolution (30m) topography produced from an extensive differential global positioning system survey and measurements of river cross-sections. Within the city we have modelled scenarios that include extreme conditions with near maximum dam release levels (e.g. 1:250 year flood) and high tides. Results from all scenarios have been summarized into probabilistic flood risk maps for Surat. These maps are currently being integrated within the city disaster management plan for taking both mitigation and adaptation measures for different scenarios of flooding.

Database on unstable rock slopes in Norway

NASA Astrophysics Data System (ADS)

Oppikofer, Thierry; Nordahl, Bo; Bunkholt, Halvor; Nicolaisen, Magnus; Hermanns, Reginald L.; Böhme, Martina; Yugsi Molina, Freddy X.

2014-05-01

Several large rockslides have occurred in historic times in Norway causing many casualties. Most of these casualties are due to displacement waves triggered by a rock avalanche and affecting coast lines of entire lakes and fjords. The Geological Survey of Norway performs systematic mapping of unstable rock slopes in Norway and has detected up to now more than 230 unstable slopes with significant postglacial deformation. This systematic mapping aims to detect future rock avalanches before they occur. The registered unstable rock slopes are stored in a database on unstable rock slopes developed and maintained by the Geological Survey of Norway. The main aims of this database are (1) to serve as a national archive for unstable rock slopes in Norway; (2) to serve for data collection and storage during field mapping; (3) to provide decision-makers with hazard zones and other necessary information on unstable rock slopes for land-use planning and mitigation; and (4) to inform the public through an online map service. The database is organized hierarchically with a main point for each unstable rock slope to which several feature classes and tables are linked. This main point feature class includes several general attributes of the unstable rock slopes, such as site name, general and geological descriptions, executed works, recommendations, technical parameters (volume, lithology, mechanism and others), displacement rates, possible consequences, hazard and risk classification and so on. Feature classes and tables linked to the main feature class include the run-out area, the area effected by secondary effects, the hazard and risk classification, subareas and scenarios of an unstable rock slope, field observation points, displacement measurement stations, URL links for further documentation and references. The database on unstable rock slopes in Norway will be publicly consultable through the online map service on www.skrednett.no in 2014. Only publicly relevant parts of the database will be shown in the online map service (e.g. processed results of displacement measurements), while more detailed data will not (e.g. raw data of displacement measurements). Factsheets with key information on unstable rock slopes can be automatically generated and downloaded for each site, a municipality, a county or the entire country. Selected data will also be downloadable free of charge. The present database on unstable rock slopes in Norway will further evolve in the coming years as the systematic mapping conducted by the Geological Survey of Norway progresses and as available techniques and tools evolve.

Geologic map of the Richland 1:100,000 quadrangle, Washington

DOE Office of Scientific and Technical Information (OSTI.GOV)

Reidel, S.P.; Fecht, K.R.

1993-09-01

This map of the Richland 1:100,000-scale quadrangle, Washington, shows the geology of one of fifteen complete or partial 1:100,000-scale quadrangles that cover the southeast quadrant of Washington. Geologic maps of these quadrangles have been compiled by geologists with the Washington Division of Geology and Earth Resources (DGER) and Washington State University and are the principal data sources for a 1:250,000-scale geologic map of the southeast quadrant of Washington, which is in preparation. Eleven of these quadrangles are being released as DGER open-file reports. The map of the Wenatchee quadrangle has been published by the US Geological Survey, and the Mosesmore » Lake, Ritzville quadrangles have already been released.« less

High-dynamic-range imaging for cloud segmentation

NASA Astrophysics Data System (ADS)

Dev, Soumyabrata; Savoy, Florian M.; Lee, Yee Hui; Winkler, Stefan

2018-04-01

Sky-cloud images obtained from ground-based sky cameras are usually captured using a fisheye lens with a wide field of view. However, the sky exhibits a large dynamic range in terms of luminance, more than a conventional camera can capture. It is thus difficult to capture the details of an entire scene with a regular camera in a single shot. In most cases, the circumsolar region is overexposed, and the regions near the horizon are underexposed. This renders cloud segmentation for such images difficult. In this paper, we propose HDRCloudSeg - an effective method for cloud segmentation using high-dynamic-range (HDR) imaging based on multi-exposure fusion. We describe the HDR image generation process and release a new database to the community for benchmarking. Our proposed approach is the first using HDR radiance maps for cloud segmentation and achieves very good results.

Striatal and extrastriatal dopamine release in the common marmoset brain measured by positron emission tomography and [(18)F]fallypride.

PubMed

Ota, Miho; Ogawa, Shintaro; Kato, Koichi; Masuda, Chiaki; Kunugi, Hiroshi

2015-12-01

Previous studies have demonstrated that patients with schizophrenia show greater sensitivity to psychostimulants than healthy subjects. Sensitization to psychostimulants and resultant alteration of dopaminergic neurotransmission in rodents has been suggested as a useful model of schizophrenia. This study sought to examine the use of methylphenidate as a psychostimulant to induce dopamine release and that of [(18)F]fallypride as a radioligand to quantify the release in a primate model of schizophrenia. Four common marmosets were scanned by positron emission tomography twice, before and after methylphenidate challenge, to evaluate dopamine release. Four other marmosets were sensitized by repeated methamphetamine (MAP) administration. Then, they were scanned twice, before and after methylphenidate challenge, to evaluate whether MAP-sensitization induced greater sensitivity to methylphenidate. We revealed a main effect of the methylphenidate challenge but not the MAP pretreatment on the striatal binding potential. These results suggest that methylphenidate-induced striatal dopamine release in the common marmoset could be evaluated by [(18)F]fallypride. Copyright © 2015 Elsevier Ireland Ltd and the Japan Neuroscience Society. All rights reserved.

Vegetation classification and distribution mapping report Mesa Verde National Park

USGS Publications Warehouse

Thomas, Kathryn A.; McTeague, Monica L.; Ogden, Lindsay; Floyd, M. Lisa; Schulz, Keith; Friesen, Beverly A.; Fancher, Tammy; Waltermire, Robert G.; Cully, Anne

2009-01-01

The classification and distribution mapping of the vegetation of Mesa Verde National Park (MEVE) and surrounding environment was achieved through a multi-agency effort between 2004 and 2007. The National Park Service’s Southern Colorado Plateau Network facilitated the team that conducted the work, which comprised the U.S. Geological Survey’s Southwest Biological Science Center, Fort Collins Research Center, and Rocky Mountain Geographic Science Center; Northern Arizona University; Prescott College; and NatureServe. The project team described 47 plant communities for MEVE, 34 of which were described from quantitative classification based on f eld-relevé data collected in 1993 and 2004. The team derived 13 additional plant communities from field observations during the photointerpretation phase of the project. The National Vegetation Classification Standard served as a framework for classifying these plant communities to the alliance and association level. Eleven of the 47 plant communities were classified as “park specials;” that is, plant communities with insufficient data to describe them as new alliances or associations. The project team also developed a spatial vegetation map database representing MEVE, with three different map-class schemas: base, group, and management map classes. The base map classes represent the fi nest level of spatial detail. Initial polygons were developed using Definiens Professional (at the time of our use, this software was called eCognition), assisted by interpretation of 1:12,000 true-color digital orthophoto quarter quadrangles (DOQQs). These polygons (base map classes) were labeled using manual photo interpretation of the DOQQs and 1:12,000 true-color aerial photography. Field visits verified interpretation concepts. The vegetation map database includes 46 base map classes, which consist of associations, alliances, and park specials classified with quantitative analysis, additional associations and park specials noted during photointerpretation, and non-vegetated land cover, such as infrastructure, land use, and geological land cover. The base map classes consist of 5,007 polygons in the project area. A field-based accuracy assessment of the base map classes showed overall accuracy to be 43.5%. Seven map classes comprise 89.1% of the park vegetated land cover. The group map classes represent aggregations of the base map classes, approximating the group level of the National Vegetation Classification Standard, version 2 (Federal Geographic Data Committee 2007), and reflecting physiognomy and floristics. Terrestrial ecological systems, as described by NatureServe (Comer et al. 2003), were used as the fi rst approximation of the group level. The project team identified 14 group map classes for this project. The overall accuracy of the group map classes was determined using the same accuracy assessment data as for the base map classes. The overall accuracy of the group representation of vegetation was 80.3%. In consultation with park staff , the team developed management map classes, consisting of park-defined groupings of base map classes intended to represent a balance between maintaining required accuracy and providing a focus on vegetation of particular interest or import to park managers. The 23 management map classes had an overall accuracy of 73.3%. While the main products of this project are the vegetation classification and the vegetation map database, a number of ancillary digital geographic information system and database products were also produced that can be used independently or to augment the main products. These products include shapefiles of the locations of field-collected data and relational databases of field-collected data.

Thrombin Receptor-Activating Protein (TRAP)-Activated Akt Is Involved in the Release of Phosphorylated-HSP27 (HSPB1) from Platelets in DM Patients

PubMed Central

Tokuda, Haruhiko; Kuroyanagi, Gen; Tsujimoto, Masanori; Matsushima-Nishiwaki, Rie; Akamatsu, Shigeru; Enomoto, Yukiko; Iida, Hiroki; Otsuka, Takanobu; Ogura, Shinji; Iwama, Toru; Kojima, Kumi; Kozawa, Osamu

2016-01-01

It is generally known that heat shock protein 27 (HSP27) is phosphorylated through p38 mitogen-activated protein (MAP) kinase. We have previously reported that HSP27 is released from human platelets associated with collagen-induced phosphorylation. In the present study, we conducted an investigation into the effect of thrombin receptor-activating protein (TRAP) on the release of HSP27 in platelets in type 2 diabetes mellitus (DM) patients. The phosphorylated-HSP27 levels induced by TRAP were directly proportional to the aggregation of platelets. The levels of phosphorylated-HSP27 (Ser-78) were correlated with the levels of phosphorylated-p38 MAP kinase and phosphorylated-Akt in the platelets stimulated by 10 µM TRAP but not with those of phosphorylated-p44/p42 MAP kinase. The levels of HSP27 released from the TRAP (10 µM)-stimulated platelets were correlated with the levels of phosphorylated-HSP27 in the platelets. The released platelet-derived growth factor-AB (PDGF-AB) levels were in parallel with the HSP27 levels released from the platelets stimulated by 10 µM TRAP. Although the area under the curve (AUC) of small aggregates (9–25 µm) induced by 10 µM TRAP showed no significant correlation with the released HSP27 levels, AUC of medium aggregates (25–50 µm), large aggregates (50–70 µm) and light transmittance were significantly correlated with the released HSP27 levels. TRAP-induced phosphorylation of HSP27 was truly suppressed by deguelin, an inhibitor of Akt, in the platelets from a healthy subject. These results strongly suggest that TRAP-induced activation of Akt in addition to p38 MAP kinase positively regulates the release of phosphorylated-HSP27 from human platelets, which is closely related to the platelet hyper-aggregation in type 2 DM patients. PMID:27187380

Thrombin Receptor-Activating Protein (TRAP)-Activated Akt Is Involved in the Release of Phosphorylated-HSP27 (HSPB1) from Platelets in DM Patients.

PubMed

Tokuda, Haruhiko; Kuroyanagi, Gen; Tsujimoto, Masanori; Matsushima-Nishiwaki, Rie; Akamatsu, Shigeru; Enomoto, Yukiko; Iida, Hiroki; Otsuka, Takanobu; Ogura, Shinji; Iwama, Toru; Kojima, Kumi; Kozawa, Osamu

2016-05-14

It is generally known that heat shock protein 27 (HSP27) is phosphorylated through p38 mitogen-activated protein (MAP) kinase. We have previously reported that HSP27 is released from human platelets associated with collagen-induced phosphorylation. In the present study, we conducted an investigation into the effect of thrombin receptor-activating protein (TRAP) on the release of HSP27 in platelets in type 2 diabetes mellitus (DM) patients. The phosphorylated-HSP27 levels induced by TRAP were directly proportional to the aggregation of platelets. The levels of phosphorylated-HSP27 (Ser-78) were correlated with the levels of phosphorylated-p38 MAP kinase and phosphorylated-Akt in the platelets stimulated by 10 µM TRAP but not with those of phosphorylated-p44/p42 MAP kinase. The levels of HSP27 released from the TRAP (10 µM)-stimulated platelets were correlated with the levels of phosphorylated-HSP27 in the platelets. The released platelet-derived growth factor-AB (PDGF-AB) levels were in parallel with the HSP27 levels released from the platelets stimulated by 10 µM TRAP. Although the area under the curve (AUC) of small aggregates (9-25 µm) induced by 10 µM TRAP showed no significant correlation with the released HSP27 levels, AUC of medium aggregates (25-50 µm), large aggregates (50-70 µm) and light transmittance were significantly correlated with the released HSP27 levels. TRAP-induced phosphorylation of HSP27 was truly suppressed by deguelin, an inhibitor of Akt, in the platelets from a healthy subject. These results strongly suggest that TRAP-induced activation of Akt in addition to p38 MAP kinase positively regulates the release of phosphorylated-HSP27 from human platelets, which is closely related to the platelet hyper-aggregation in type 2 DM patients.

Enhanced digital mapping project : final report

DOT National Transportation Integrated Search

2004-11-19

The Enhanced Digital Map Project (EDMap) was a three-year effort launched in April 2001 to develop a range of digital map database enhancements that enable or improve the performance of driver assistance systems currently under development or conside...

Position-sensitive radiation monitoring (surface contamination monitor). Innovative technology summary report

DOE Office of Scientific and Technical Information (OSTI.GOV)

Not Available

1999-06-01

The Shonka Research Associates, Inc. Position-Sensitive Radiation Monitor both detects surface radiation and prepares electronic survey map/survey report of surveyed area automatically. The electronically recorded map can be downloaded to a personal computer for review and a map/report can be generated for inclusion in work packages. Switching from beta-gamma detection to alpha detection is relatively simple and entails moving a switch position to alpha and adjusting the voltage level to an alpha detection level. No field calibration is required when switching from beta-gamma to alpha detection. The system can be used for free-release surveys because it meets the federal detectionmore » level sensitivity limits requires for surface survey instrumentation. This technology is superior to traditionally-used floor contamination monitor (FCM) and hand-held survey instrumentation because it can precisely register locations of radioactivity and accurately correlate contamination levels to specific locations. Additionally, it can collect and store continuous radiological data in database format, which can be used to produce real-time imagery as well as automated graphics of survey data. Its flexible design can accommodate a variety of detectors. The cost of the innovative technology is 13% to 57% lower than traditional methods. This technology is suited for radiological surveys of flat surfaces at US Department of Energy (DOE) nuclear facility decontamination and decommissioning (D and D) sites or similar public or commercial sites.« less

Recently active traces of the Bartlett Springs Fault, California: a digital database

USGS Publications Warehouse

Lienkaemper, James J.

2010-01-01

The purpose of this map is to show the location of and evidence for recent movement on active fault traces within the Bartlett Springs Fault Zone, California. The location and recency of the mapped traces is primarily based on geomorphic expression of the fault as interpreted from large-scale aerial photography. In a few places, evidence of fault creep and offset Holocene strata in trenches and natural exposures have confirmed the activity of some of these traces. This publication is formatted both as a digital database for use within a geographic information system (GIS) and for broader public access as map images that may be browsed on-line or download a summary map. The report text describes the types of scientific observations used to make the map, gives references pertaining to the fault and the evidence of faulting, and provides guidance for use of and limitations of the map.

Predicting Protein Relationships to Human Pathways through a Relational Learning Approach Based on Simple Sequence Features.

PubMed

García-Jiménez, Beatriz; Pons, Tirso; Sanchis, Araceli; Valencia, Alfonso

2014-01-01

Biological pathways are important elements of systems biology and in the past decade, an increasing number of pathway databases have been set up to document the growing understanding of complex cellular processes. Although more genome-sequence data are becoming available, a large fraction of it remains functionally uncharacterized. Thus, it is important to be able to predict the mapping of poorly annotated proteins to original pathway models. We have developed a Relational Learning-based Extension (RLE) system to investigate pathway membership through a function prediction approach that mainly relies on combinations of simple properties attributed to each protein. RLE searches for proteins with molecular similarities to specific pathway components. Using RLE, we associated 383 uncharacterized proteins to 28 pre-defined human Reactome pathways, demonstrating relative confidence after proper evaluation. Indeed, in specific cases manual inspection of the database annotations and the related literature supported the proposed classifications. Examples of possible additional components of the Electron transport system, Telomere maintenance and Integrin cell surface interactions pathways are discussed in detail. All the human predicted proteins in the 2009 and 2012 releases 30 and 40 of Reactome are available at http://rle.bioinfo.cnio.es.

Environmental applications based on GIS and GRID technologies

NASA Astrophysics Data System (ADS)

Demontis, R.; Lorrai, E.; Marrone, V. A.; Muscas, L.; Spanu, V.; Vacca, A.; Valera, P.

2009-04-01

In the last decades, the collection and use of environmental data has enormously increased in a wide range of applications. Simultaneously, the explosive development of information technology and its ever wider data accessibility have made it possible to store and manipulate huge quantities of data. In this context, the GRID approach is emerging worldwide as a tool allowing to provision a computational task with administratively-distant resources. The aim of this paper is to present three environmental applications (Land Suitability, Desertification Risk Assessment, Georesources and Environmental Geochemistry) foreseen within the AGISGRID (Access and query of a distributed GIS/Database within the GRID infrastructure, http://grida3.crs4.it/enginframe/agisgrid/index.xml) activities of the GRIDA3 (Administrator of sharing resources for data analysis and environmental applications, http://grida3.crs4.it) project. This project, co-funded by the Italian Ministry of research, is based on the use of shared environmental data through GRID technologies and accessible by a WEB interface, aimed at public and private users in the field of environmental management and land use planning. The technologies used for AGISGRID include: - the client-server-middleware iRODS™ (Integrated Rule-Oriented Data System) (https://irods.org); - the EnginFrame system (http://www.nice-italy.com/main/index.php?id=32), the grid portal that supplies a frame to make available, via Intranet/Internet, the developed GRID applications; - the software GIS GRASS (Geographic Resources Analysis Support System) (http://grass.itc.it); - the relational database PostgreSQL (http://www.posgresql.org) and the spatial database extension PostGis; - the open source multiplatform Mapserver (http://mapserver.gis.umn.edu), used to represent the geospatial data through typical WEB GIS functionalities. Three GRID nodes are directly involved in the applications: the application workflow is implemented at the CRS4 (Pula, Southern Sardinia, Italy), the soil database is managed at the DISTER node (Cagliari, southern Sardinia, Italy), and the geochemical database is managed at the DIGITA node (Cagliari, southern Sardinia, Italy). The input data are files (raster ASCII format) and database tables. The raster files have been zipped and stored in iRods. The tables are imported into a PostgreSQL database and accessed by the Rule-oriented Database Access (RDA) system available for PostgreSQL in iRODS 1.1. From the EnginFrame portal it is possible to view and use the applications through three services: "Upload Data", "View Data and Metadata", and "Execute Application". The Land Suitability application, based on the FAO framework for land evaluation, produces suitability maps (at the scale 1:10,000) for 11 different possible alternative uses. The maps, with a ASCII raster format, are downloadable by the user and viewable by Mapserver. This application has been implemented in an area of southern Sardinia (Monastir) and may be useful to direct municipal urban planning towards a rational land use. The Desertification Risk Assessment application produces, by means of biophysical and socioeconomic key indicators, a final combined map showing critical, fragile, and potential Environmentally Sensitive Areas to desertification. This application has been implemented in an area of south-west Sardinia (Muravera). The final index for the sensitivity is obtained by the geometric mean among four parameters: SQI (Soil Quality Index), CQI (Climate Quality Index), VQI (Vegetation Quality Index) e MQI (Management Quality Index). The final result (ESAs = (SQI * CQI * VQI * MQI)1•4) is a map at the scale 1:50,000, with a ASCII raster format, downloadable by the user and viewable by Mapserver. This type of map may be useful to direct land planning at catchment basin level. The Georesources and Environmental Geochemistry application, whose test is in progress in the area of Muravera (south-west Sardinia) through stream sediment sampling, aims at producing maps defining, with high precision, areas (hydrographic basins) where the values of a given element exceed the lithological background (i.e. geochemically anomalous). Such a product has a double purpose. First of all, it identifies releasing sources and may be useful for the necessary remediation actions, if they insist on areas historically prone to more or less intense anthropical activities. On the other hand, if these sources are of natural origin, they could also be interpreted as ore mineral occurrences. In the latter case the study of these occurrences could lead to discover economic ore bodies of small-to-medium size (at least in the present target area) and consequently to the revival of a local mining industry.

Mars Global Digital Dune Database: MC2-MC29

USGS Publications Warehouse

Hayward, Rosalyn K.; Mullins, Kevin F.; Fenton, L.K.; Hare, T.M.; Titus, T.N.; Bourke, M.C.; Colaprete, Anthony; Christensen, P.R.

2007-01-01

Introduction The Mars Global Digital Dune Database presents data and describes the methodology used in creating the database. The database provides a comprehensive and quantitative view of the geographic distribution of moderate- to large-size dune fields from 65? N to 65? S latitude and encompasses ~ 550 dune fields. The database will be expanded to cover the entire planet in later versions. Although we have attempted to include all dune fields between 65? N and 65? S, some have likely been excluded for two reasons: 1) incomplete THEMIS IR (daytime) coverage may have caused us to exclude some moderate- to large-size dune fields or 2) resolution of THEMIS IR coverage (100m/pixel) certainly caused us to exclude smaller dune fields. The smallest dune fields in the database are ~ 1 km2 in area. While the moderate to large dune fields are likely to constitute the largest compilation of sediment on the planet, smaller stores of sediment of dunes are likely to be found elsewhere via higher resolution data. Thus, it should be noted that our database excludes all small dune fields and some moderate to large dune fields as well. Therefore the absence of mapped dune fields does not mean that such dune fields do not exist and is not intended to imply a lack of saltating sand in other areas. Where availability and quality of THEMIS visible (VIS) or Mars Orbiter Camera narrow angle (MOC NA) images allowed, we classifed dunes and included dune slipface measurements, which were derived from gross dune morphology and represent the prevailing wind direction at the last time of significant dune modification. For dunes located within craters, the azimuth from crater centroid to dune field centroid was calculated. Output from a general circulation model (GCM) is also included. In addition to polygons locating dune fields, the database includes over 1800 selected Thermal Emission Imaging System (THEMIS) infrared (IR), THEMIS visible (VIS) and Mars Orbiter Camera Narrow Angle (MOC NA) images that were used to build the database. The database is presented in a variety of formats. It is presented as a series of ArcReader projects which can be opened using the free ArcReader software. The latest version of ArcReader can be downloaded at http://www.esri.com/software/arcgis/arcreader/download.html. The database is also presented in ArcMap projects. The ArcMap projects allow fuller use of the data, but require ESRI ArcMap? software. Multiple projects were required to accommodate the large number of images needed. A fuller description of the projects can be found in the Dunes_ReadMe file and the ReadMe_GIS file in the Documentation folder. For users who prefer to create their own projects, the data is available in ESRI shapefile and geodatabase formats, as well as the open Geographic Markup Language (GML) format. A printable map of the dunes and craters in the database is available as a Portable Document Format (PDF) document. The map is also included as a JPEG file. ReadMe files are available in PDF and ASCII (.txt) files. Tables are available in both Excel (.xls) and ASCII formats.

Location and age database for selected foraminifer samples collected by Exxon Petroleum geologists in California

USGS Publications Warehouse

Brabb, Earl E.; Parker, John M.

2003-01-01

Most of the geologic maps published for central California before 1960 were made without the benefit of age determinations from microfossils. The ages of Cretaceous and Tertiary rocks in the mostly poorly exposed and structurally complex sedimentary rocks represented in the Coast Ranges are critical in determining stratigraphic succession or lack of it, and in determining whether the juxtaposition of similar appearing but different age formations means a fault is present. Since the 1930’s, at least, oil company geologists have used microfossils to assist them in geologic mapping and in determining the environments of deposition of the sediment containing the microfossils. This information has been so confidential that some companies even coded the names of foraminifers to prevent disclosure. In the past 20 years, however, the attitude of petroleum companies about this information has changed, and many of the formerly confidential materials and reports are now available. We report here on 1,964 Exxon foraminifer samples mostly from surface localities in the San Francisco Bay region, and elsewhere in California. Most but not all the samples were plotted on U. S. Geological Survey (USGS) 7.5’ topographic maps or on obsolete USGS 15’ maps. The information from the slides can be used to update geologic maps prepared without the benefit of microfossil data, to analyze the depth and temperature of ocean water covering parts of California during the Mesozoic and Cenozoic Eras, and for solving nomenclature and other scientific problems. A similar report on more than 30,000 slides for surface samples collected by Chevron geologists has been released (Brabb and Parker, 2003), and another report provides information on slides for more than 2000 oil test wells in Northern California (Brabb, Powell, and Brocher, 2001).

What is an evidence map? A systematic review of published evidence maps and their definitions, methods, and products.

PubMed

Miake-Lye, Isomi M; Hempel, Susanne; Shanman, Roberta; Shekelle, Paul G

2016-02-10

The need for systematic methods for reviewing evidence is continuously increasing. Evidence mapping is one emerging method. There are no authoritative recommendations for what constitutes an evidence map or what methods should be used, and anecdotal evidence suggests heterogeneity in both. Our objectives are to identify published evidence maps and to compare and contrast the presented definitions of evidence mapping, the domains used to classify data in evidence maps, and the form the evidence map takes. We conducted a systematic review of publications that presented results with a process termed "evidence mapping" or included a figure called an "evidence map." We identified publications from searches of ten databases through 8/21/2015, reference mining, and consulting topic experts. We abstracted the research question, the unit of analysis, the search methods and search period covered, and the country of origin. Data were narratively synthesized. Thirty-nine publications met inclusion criteria. Published evidence maps varied in their definition and the form of the evidence map. Of the 31 definitions provided, 67 % described the purpose as identification of gaps and 58 % referenced a stakeholder engagement process or user-friendly product. All evidence maps explicitly used a systematic approach to evidence synthesis. Twenty-six publications referred to a figure or table explicitly called an "evidence map," eight referred to an online database as the evidence map, and five stated they used a mapping methodology but did not present a visual depiction of the evidence. The principal conclusion of our evaluation of studies that call themselves "evidence maps" is that the implied definition of what constitutes an evidence map is a systematic search of a broad field to identify gaps in knowledge and/or future research needs that presents results in a user-friendly format, often a visual figure or graph, or a searchable database. Foundational work is needed to better standardize the methods and products of an evidence map so that researchers and policymakers will know what to expect of this new type of evidence review. Although an a priori protocol was developed, no registration was completed; this review did not fit the PROSPERO format.

Therapeutic Community Treatment of an Inmate Population with Substance Use Disorders: Post-Release Trends in Re-Arrest, Re-Incarceration, and Drug Misuse Relapse

PubMed Central

Galassi, Alexandra; Mpofu, Elias; Athanasou, James

2015-01-01

This systematic literature review maps the evidence for the effectiveness of the therapeutic community interventions (TCI) in reducing re-arrest, re-incarceration or drug misuse following release from prison, including the extent to which these effects are retained over time. The databases searched for the review included PsychINFO, Medline and Scopus and reference lists from relevant articles published between 2007 and 2014. Only quantitative studies that examined the effectiveness of TCI for a prisoner population with drug dependence at the time of initial incarceration were considered. Fourteen studies were identified for inclusion in the review. Three-quarters of the studies reported TCI were effective in reducing rates of re-incarceration. About 70% of studies that examined follow-up rates of drug misuse relapse found TCI effective in reducing rates of drug misuse amongst participants. TCI participation reduced re-arrests events in 55% of the studies. Results suggest TCI effective in the short-term rather than longer term for reducing rates of re-incarceration among participants, and to a slightly lesser extent, drug misuse relapse. PMID:26103591

A web-based system architecture for ontology-based data integration in the domain of IT benchmarking

NASA Astrophysics Data System (ADS)

Pfaff, Matthias; Krcmar, Helmut

2018-03-01

In the domain of IT benchmarking (ITBM), a variety of data and information are collected. Although these data serve as the basis for business analyses, no unified semantic representation of such data yet exists. Consequently, data analysis across different distributed data sets and different benchmarks is almost impossible. This paper presents a system architecture and prototypical implementation for an integrated data management of distributed databases based on a domain-specific ontology. To preserve the semantic meaning of the data, the ITBM ontology is linked to data sources and functions as the central concept for database access. Thus, additional databases can be integrated by linking them to this domain-specific ontology and are directly available for further business analyses. Moreover, the web-based system supports the process of mapping ontology concepts to external databases by introducing a semi-automatic mapping recommender and by visualizing possible mapping candidates. The system also provides a natural language interface to easily query linked databases. The expected result of this ontology-based approach of knowledge representation and data access is an increase in knowledge and data sharing in this domain, which will enhance existing business analysis methods.

Geologic and geophysical maps of the eastern three-fourths of the Cambria 30' x 60' quadrangle, central California Coast Ranges

USGS Publications Warehouse

Graymer, R.W.; Langenheim, V.E.; Roberts, M.A.; McDougall, Kristin

2014-01-01

The Cambria 30´ x 60´ quadrangle comprises southwestern Monterey County and northwestern San Luis Obispo County. The land area includes rugged mountains of the Santa Lucia Range extending from the northwest to the southeast part of the map; the southern part of the Big Sur coast in the northwest; broad marine terraces along the southwest coast; and broadvalleys, rolling hills, and modest mountains in the northeast. This report contains geologic, gravity anomaly, and aeromagnetic anomaly maps of the eastern three-fourths of the 1:100,000-scale Cambria quadrangle and the associated geologic and geophysical databases (ArcMap databases), as well as complete descriptions of the geologic map units and the structural relations in the mapped area. A cross section is based on both the geologic map and potential-field geophysical data. The maps are presented as an interactive, multilayer PDF, rather than more traditional pre-formatted map-sheet PDFs. Various geologic, geophysical, paleontological, and base map elements are placed on separate layers, which allows the user to combine elements interactively to create map views beyond the traditional map sheets. Four traditional map sheets (geologic map, gravity map, aeromagnetic map, paleontological locality map) are easily compiled by choosing the associated data layers or by choosing the desired map under Bookmarks.

ReactionMap: an efficient atom-mapping algorithm for chemical reactions.

PubMed

Fooshee, David; Andronico, Alessio; Baldi, Pierre

2013-11-25

Large databases of chemical reactions provide new data-mining opportunities and challenges. Key challenges result from the imperfect quality of the data and the fact that many of these reactions are not properly balanced or atom-mapped. Here, we describe ReactionMap, an efficient atom-mapping algorithm. Our approach uses a combination of maximum common chemical subgraph search and minimization of an assignment cost function derived empirically from training data. We use a set of over 259,000 balanced atom-mapped reactions from the SPRESI commercial database to train the system, and we validate it on random sets of 1000 and 17,996 reactions sampled from this pool. These large test sets represent a broad range of chemical reaction types, and ReactionMap correctly maps about 99% of the atoms and about 96% of the reactions, with a mean time per mapping of 2 s. Most correctly mapped reactions are mapped with high confidence. Mapping accuracy compares favorably with ChemAxon's AutoMapper, versions 5 and 6.1, and the DREAM Web tool. These approaches correctly map 60.7%, 86.5%, and 90.3% of the reactions, respectively, on the same data set. A ReactionMap server is available on the ChemDB Web portal at http://cdb.ics.uci.edu .

A Framework for Mapping User-Designed Forms to Relational Databases

ERIC Educational Resources Information Center

Khare, Ritu

2011-01-01

In the quest for database usability, several applications enable users to design custom forms using a graphical interface, and forward engineer the forms into new databases. The path-breaking aspect of such applications is that users are completely shielded from the technicalities of database creation. Despite this innovation, the process of…

Exploring the potential offered by legacy soil databases for ecosystem services mapping of Central African soils

NASA Astrophysics Data System (ADS)

Verdoodt, Ann; Baert, Geert; Van Ranst, Eric

2014-05-01

Central African soil resources are characterised by a large variability, ranging from stony, shallow or sandy soils with poor life-sustaining capabilities to highly weathered soils that recycle and support large amounts of biomass. Socio-economic drivers within this largely rural region foster inappropriate land use and management, threaten soil quality and finally culminate into a declining soil productivity and increasing food insecurity. For the development of sustainable land use strategies targeting development planning and natural hazard mitigation, decision makers often rely on legacy soil maps and soil profile databases. Recent development cooperation financed projects led to the design of soil information systems for Rwanda, D.R. Congo, and (ongoing) Burundi. A major challenge is to exploit these existing soil databases and convert them into soil inference systems through an optimal combination of digital soil mapping techniques, land evaluation tools, and biogeochemical models. This presentation aims at (1) highlighting some key characteristics of typical Central African soils, (2) assessing the positional, geographic and semantic quality of the soil information systems, and (3) revealing its potential impacts on the use of these datasets for thematic mapping of soil ecosystem services (e.g. organic carbon storage, pH buffering capacity). Soil map quality is assessed considering positional and semantic quality, as well as geographic completeness. Descriptive statistics, decision tree classification and linear regression techniques are used to mine the soil profile databases. Geo-matching as well as class-matching approaches are considered when developing thematic maps. Variability in inherent as well as dynamic soil properties within the soil taxonomic units is highlighted. It is hypothesized that within-unit variation in soil properties highly affects the use and interpretation of thematic maps for ecosystem services mapping. Results will mainly be based on analyses done in Rwanda, but can be complemented with ongoing research results or prospects for Burundi.

From 20th century metabolic wall charts to 21st century systems biology: database of mammalian metabolic enzymes

PubMed Central

Corcoran, Callan C.; Grady, Cameron R.; Pisitkun, Trairak; Parulekar, Jaya

2017-01-01

The organization of the mammalian genome into gene subsets corresponding to specific functional classes has provided key tools for systems biology research. Here, we have created a web-accessible resource called the Mammalian Metabolic Enzyme Database (https://hpcwebapps.cit.nih.gov/ESBL/Database/MetabolicEnzymes/MetabolicEnzymeDatabase.html) keyed to the biochemical reactions represented on iconic metabolic pathway wall charts created in the previous century. Overall, we have mapped 1,647 genes to these pathways, representing ~7 percent of the protein-coding genome. To illustrate the use of the database, we apply it to the area of kidney physiology. In so doing, we have created an additional database (Database of Metabolic Enzymes in Kidney Tubule Segments: https://hpcwebapps.cit.nih.gov/ESBL/Database/MetabolicEnzymes/), mapping mRNA abundance measurements (mined from RNA-Seq studies) for all metabolic enzymes to each of 14 renal tubule segments. We carry out bioinformatics analysis of the enzyme expression pattern among renal tubule segments and mine various data sources to identify vasopressin-regulated metabolic enzymes in the renal collecting duct. PMID:27974320

Querying XML Data with SPARQL

NASA Astrophysics Data System (ADS)

Bikakis, Nikos; Gioldasis, Nektarios; Tsinaraki, Chrisa; Christodoulakis, Stavros

SPARQL is today the standard access language for Semantic Web data. In the recent years XML databases have also acquired industrial importance due to the widespread applicability of XML in the Web. In this paper we present a framework that bridges the heterogeneity gap and creates an interoperable environment where SPARQL queries are used to access XML databases. Our approach assumes that fairly generic mappings between ontology constructs and XML Schema constructs have been automatically derived or manually specified. The mappings are used to automatically translate SPARQL queries to semantically equivalent XQuery queries which are used to access the XML databases. We present the algorithms and the implementation of SPARQL2XQuery framework, which is used for answering SPARQL queries over XML databases.

Providing open access data online to advance malaria research and control.

PubMed

Moyes, Catherine L; Temperley, William H; Henry, Andrew J; Burgert, Clara R; Hay, Simon I

2013-05-16

To advance research on malaria, the outputs from existing studies and the data that fed into them need to be made freely available. This will ensure new studies can build on the work that has gone before. These data and results also need to be made available to groups who are developing public health policies based on up-to-date evidence. The Malaria Atlas Project (MAP) has collated and geopositioned over 50,000 parasite prevalence and vector occurrence survey records contributed by over 3,000 sources including research groups, government agencies and non-governmental organizations worldwide. This paper describes the results of a project set up to release data gathered, used and generated by MAP. Requests for permission to release data online were sent to 236 groups who had contributed unpublished prevalence (parasite rate) surveys. An online explorer tool was developed so that users can visualize the spatial distribution of the vector and parasite survey data before downloading it. In addition, a consultation group was convened to provide advice on the mode and format of release for data generated by MAP's modelling work. New software was developed to produce a suite of publication-quality map images for download from the internet for use in external publications. More than 40,000 survey records can now be visualized on a set of dynamic maps and downloaded from the MAP website on a free and unrestricted basis. As new data are added and new permissions to release existing data come in, the volume of data available for download will increase. The modelled data output from MAP's own analyses are also available online in a range of formats, including image files and GIS surface data, for use in advocacy, education, further research and to help parameterize or validate other mathematical models.

A Web-Based Interactive Mapping System of State Wide School Performance: Integrating Google Maps API Technology into Educational Achievement Data

ERIC Educational Resources Information Center

Wang, Kening; Mulvenon, Sean W.; Stegman, Charles; Anderson, Travis

2008-01-01

Google Maps API (Application Programming Interface), released in late June 2005 by Google, is an amazing technology that allows users to embed Google Maps in their own Web pages with JavaScript. Google Maps API has accelerated the development of new Google Maps based applications. This article reports a Web-based interactive mapping system…

USGS ShakeMap Developments, Implementation, and Derivative Tools

NASA Astrophysics Data System (ADS)

Wald, D. J.; Lin, K.; Quitoriano, V.; Worden, B.

2007-12-01

We discuss ongoing development and enhancements of ShakeMap, a system for automatically generating maps of ground shaking and intensity in the minutes following an earthquake. The rapid availability of these maps is of particular value to emergency response organizations, utilities, insurance companies, government decision- makers, the media, and the general public. ShakeMap Version 3.2 was released in March, 2007, on a download site which allows ShakeMap developers to track operators' updates and provide follow-up information; V3.2 has now been downloaded in 15 countries. The V3.2 release supports LINUX in addition to other UNIX operating systems and adds enhancements to XML, KML, metadata, and other products. We have also added an uncertainty measure, quantified as a function of spatial location. Uncertainty is essential for evaluating the range of possible losses. Though not released in V3.2, we will describe a new quantitative uncertainty letter grading for each ShakeMap produced, allowing users to gauge the appropriate level of confidence when using rapidly produced ShakeMaps as part of their post-earthquake critical decision-making process. Since the V3.2 release, several new ground motion predictions equations have also been added to the prediction equation modules. ShakeMap is implemented in several new regions as reported in this Session. Within the U.S., robust systems serve California, Nevada, Utah, Washington and Oregon, Hawaii, and Anchorage. Additional systems are in development and efforts to provide backup capabilities for all Advanced National Seismic System (ANSS) regions at the National Earthquake Information Center are underway. Outside the U.S., this Session has descriptions of ShakeMap systems in Italy, Switzerland, Romania, and Turkey, among other countries. We also describe our predictive global ShakeMap system for the rapid evaluation of significant earthquakes globally for the Prompt Assessment of Global Earthquakes for Response (PAGER) system. These global ShakeMaps are constrained by rapidly gathered intensity data via the Internet and by finite fault and aftershock analyses for portraying fault rupture dimensions. As part of the PAGER loss calibration process we have produced an Atlas of ShakeMaps for significant earthquakes around the globe since 1973 (Allen and others, this Session); these Atlas events have additional constraints provided by archival strong motion, faulting dimensions, and macroseismic intensity data. We also describe derivative tools for further utilizing ShakeMap including ShakeCast, a fully automated system for delivering specific ShakeMap products to critical users and triggering established post-earthquake response protocols. We have released ShakeCast Version 2.0 (Lin and others, this Session), which allows RSS feeds for automatically receiving ShakeMap files, auto-launching of post-download processing scripts, and delivering notifications based on users' likely facility damage states derived from ShakeMap shaking parameters. As part of our efforts to produce estimated ShakeMaps globally, we have developed a procedure for deriving Vs30 estimates from correlations with topographic slope, and we have now implemented a global Vs30 Server, allowing users to generate Vs30 maps for custom user-selected regions around the globe (Allen and Wald, this Session). Finally, as a further derivative product of the ShakeMap Atlas project, we will present a shaking hazard Map for the past 30 years based on approximately 3,900 earthquake ShakeMaps of historic earthquakes.

Gramene 2013: comparative plant genomics resources.

PubMed

Monaco, Marcela K; Stein, Joshua; Naithani, Sushma; Wei, Sharon; Dharmawardhana, Palitha; Kumari, Sunita; Amarasinghe, Vindhya; Youens-Clark, Ken; Thomason, James; Preece, Justin; Pasternak, Shiran; Olson, Andrew; Jiao, Yinping; Lu, Zhenyuan; Bolser, Dan; Kerhornou, Arnaud; Staines, Dan; Walts, Brandon; Wu, Guanming; D'Eustachio, Peter; Haw, Robin; Croft, David; Kersey, Paul J; Stein, Lincoln; Jaiswal, Pankaj; Ware, Doreen

2014-01-01

Gramene (http://www.gramene.org) is a curated online resource for comparative functional genomics in crops and model plant species, currently hosting 27 fully and 10 partially sequenced reference genomes in its build number 38. Its strength derives from the application of a phylogenetic framework for genome comparison and the use of ontologies to integrate structural and functional annotation data. Whole-genome alignments complemented by phylogenetic gene family trees help infer syntenic and orthologous relationships. Genetic variation data, sequences and genome mappings available for 10 species, including Arabidopsis, rice and maize, help infer putative variant effects on genes and transcripts. The pathways section also hosts 10 species-specific metabolic pathways databases developed in-house or by our collaborators using Pathway Tools software, which facilitates searches for pathway, reaction and metabolite annotations, and allows analyses of user-defined expression datasets. Recently, we released a Plant Reactome portal featuring 133 curated rice pathways. This portal will be expanded for Arabidopsis, maize and other plant species. We continue to provide genetic and QTL maps and marker datasets developed by crop researchers. The project provides a unique community platform to support scientific research in plant genomics including studies in evolution, genetics, plant breeding, molecular biology, biochemistry and systems biology.

Assessment and mapping of water pollution indices in zone-III of municipal corporation of hyderabad using remote sensing and geographic information system.

PubMed

Asadi, S S; Vuppala, Padmaja; Reddy, M Anji

2005-01-01

A preliminary survey of area under Zone-III of MCH was undertaken to assess the ground water quality, demonstrate its spatial distribution and correlate with the land use patterns using advance techniques of remote sensing and geographical information system (GIS). Twenty-seven ground water samples were collected and their chemical analysis was done to form the attribute database. Water quality index was calculated from the measured parameters, based on which the study area was classified into five groups with respect to suitability of water for drinking purpose. Thematic maps viz., base map, road network, drainage and land use/land cover were prepared from IRS ID PAN + LISS III merged satellite imagery forming the spatial database. Attribute database was integrated with spatial sampling locations map in Arc/Info and maps showing spatial distribution of water quality parameters were prepared in Arc View. Results indicated that high concentrations of total dissolved solids (TDS), nitrates, fluorides and total hardness were observed in few industrial and densely populated areas indicating deteriorated water quality while the other areas exhibited moderate to good water quality.

USDA Branded Food Products Database, Release 2

USDA-ARS?s Scientific Manuscript database

The USDA Branded Food Products Database is the ongoing result of a Public-Private Partnership (PPP), whose goal is to enhance public health and the sharing of open data by complementing the USDA National Nutrient Database for Standard Reference (SR) with nutrient composition of branded foods and pri...

BrainMap VBM: An environment for structural meta-analysis.

PubMed

Vanasse, Thomas J; Fox, P Mickle; Barron, Daniel S; Robertson, Michaela; Eickhoff, Simon B; Lancaster, Jack L; Fox, Peter T

2018-05-02

The BrainMap database is a community resource that curates peer-reviewed, coordinate-based human neuroimaging literature. By pairing the results of neuroimaging studies with their relevant meta-data, BrainMap facilitates coordinate-based meta-analysis (CBMA) of the neuroimaging literature en masse or at the level of experimental paradigm, clinical disease, or anatomic location. Initially dedicated to the functional, task-activation literature, BrainMap is now expanding to include voxel-based morphometry (VBM) studies in a separate sector, titled: BrainMap VBM. VBM is a whole-brain, voxel-wise method that measures significant structural differences between or within groups which are reported as standardized, peak x-y-z coordinates. Here we describe BrainMap VBM, including the meta-data structure, current data volume, and automated reverse inference functions (region-to-disease profile) of this new community resource. CBMA offers a robust methodology for retaining true-positive and excluding false-positive findings across studies in the VBM literature. As with BrainMap's functional database, BrainMap VBM may be synthesized en masse or at the level of clinical disease or anatomic location. As a use-case scenario for BrainMap VBM, we illustrate a trans-diagnostic data-mining procedure wherein we explore the underlying network structure of 2,002 experiments representing over 53,000 subjects through independent components analysis (ICA). To reduce data-redundancy effects inherent to any database, we demonstrate two data-filtering approaches that proved helpful to ICA. Finally, we apply hierarchical clustering analysis (HCA) to measure network- and disease-specificity. This procedure distinguished psychiatric from neurological diseases. We invite the neuroscientific community to further exploit BrainMap VBM with other modeling approaches. © 2018 Wiley Periodicals, Inc.

Improvements in the Protein Identifier Cross-Reference service.

PubMed

Wein, Samuel P; Côté, Richard G; Dumousseau, Marine; Reisinger, Florian; Hermjakob, Henning; Vizcaíno, Juan A

2012-07-01

The Protein Identifier Cross-Reference (PICR) service is a tool that allows users to map protein identifiers, protein sequences and gene identifiers across over 100 different source databases. PICR takes input through an interactive website as well as Representational State Transfer (REST) and Simple Object Access Protocol (SOAP) services. It returns the results as HTML pages, XLS and CSV files. It has been in production since 2007 and has been recently enhanced to add new functionality and increase the number of databases it covers. Protein subsequences can be Basic Local Alignment Search Tool (BLAST) against the UniProt Knowledgebase (UniProtKB) to provide an entry point to the standard PICR mapping algorithm. In addition, gene identifiers from UniProtKB and Ensembl can now be submitted as input or mapped to as output from PICR. We have also implemented a 'best-guess' mapping algorithm for UniProt. In this article, we describe the usefulness of PICR, how these changes have been implemented, and the corresponding additions to the web services. Finally, we explain that the number of source databases covered by PICR has increased from the initial 73 to the current 102. New resources include several new species-specific Ensembl databases as well as the Ensembl Genome ones. PICR can be accessed at http://www.ebi.ac.uk/Tools/picr/.

Press releases, preliminary maps, and preliminary reports released by the Geologic Branch and Alaskan Branch between January 1, 1938 and January 1, 1945

USGS Publications Warehouse

Kent, Lois S.; Keroher, R.P.

1945-01-01

This pamphlet contains a complete list of all maps and reports issued by the Geologic Branch and Alaskan Branch of the Geological Survey whose release was announced by press notice during the period between January 1, 1938 and January 1, 1945. The Geologic Branch material was compiled by Lois S. Kent, and the Alaskan Branch material by R. P. Kerocher. It is expected that similar lists will be published annually hereafter. These reports and maps are the results of work carried out by Survey geologists on mineral deposits in the United States, Alaska, and Cuba during the war and the years immediately preceding the war. They were released in preliminary form as rapidly as possible in this period to avoid the delays necessarily attendant upon formal publication and to make the information contained in them promptly available to property owners and mine operators concerned with the production of strategic and critical mineral commodities.

The National Landslide Database of Great Britain: Acquisition, communication and the role of social media

NASA Astrophysics Data System (ADS)

Pennington, Catherine; Freeborough, Katy; Dashwood, Claire; Dijkstra, Tom; Lawrie, Kenneth

2015-11-01

The British Geological Survey (BGS) is the national geological agency for Great Britain that provides geoscientific information to government, other institutions and the public. The National Landslide Database has been developed by the BGS and is the focus for national geohazard research for landslides in Great Britain. The history and structure of the geospatial database and associated Geographical Information System (GIS) are explained, along with the future developments of the database and its applications. The database is the most extensive source of information on landslides in Great Britain with over 17,000 records of landslide events to date, each documented as fully as possible for inland, coastal and artificial slopes. Data are gathered through a range of procedures, including: incorporation of other databases; automated trawling of current and historical scientific literature and media reports; new field- and desk-based mapping technologies with digital data capture, and using citizen science through social media and other online resources. This information is invaluable for directing the investigation, prevention and mitigation of areas of unstable ground in accordance with Government planning policy guidelines. The national landslide susceptibility map (GeoSure) and a national landslide domains map currently under development, as well as regional mapping campaigns, rely heavily on the information contained within the landslide database. Assessing susceptibility to landsliding requires knowledge of the distribution of failures, an understanding of causative factors, their spatial distribution and likely impacts, whilst understanding the frequency and types of landsliding present is integral to modelling how rainfall will influence the stability of a region. Communication of landslide data through the Natural Hazard Partnership (NHP) and Hazard Impact Model contributes to national hazard mitigation and disaster risk reduction with respect to weather and climate. Daily reports of landslide potential are published by BGS through the NHP partnership and data collected for the National Landslide Database are used widely for the creation of these assessments. The National Landslide Database is freely available via an online GIS and is used by a variety of stakeholders for research purposes.

A digital version of the 1970 U.S. Geological Survey topographic map of the San Francisco Bay region, three sheets, 1:125,000

USGS Publications Warehouse

Aitken, Douglas S.

1997-01-01

This Open-File report is a digital topographic map database. It contains a digital version of the 1970 U.S. Geological Survey topographic map of the San Francisco Bay Region (3 sheets), at a scale of 1:125,000. These ARC/INFO coverages are in vector format. The vectorization process has distorted characters representing letters and numbers, as well as some road and other symbols, making them difficult to read in some instances. This pamphlet serves to introduce and describe the digital data. There is no paper map included in the Open-File report. The content and character of the database and methods of obtaining it are described herein.

Preliminary Seismic Probabilistic Tsunami Hazard Map for Italy

NASA Astrophysics Data System (ADS)

Lorito, Stefano; Selva, Jacopo; Basili, Roberto; Grezio, Anita; Molinari, Irene; Piatanesi, Alessio; Romano, Fabrizio; Tiberti, Mara Monica; Tonini, Roberto; Bonini, Lorenzo; Michelini, Alberto; Macias, Jorge; Castro, Manuel J.; González-Vida, José Manuel; de la Asunción, Marc

2015-04-01

We present a preliminary release of the first seismic probabilistic tsunami hazard map for Italy. The map aims to become an important tool for the Italian Department of Civil Protection (DPC), as well as a support tool for the NEAMTWS Tsunami Service Provider, the Centro Allerta Tsunami (CAT) at INGV, Rome. The map shows the offshore maximum tsunami elevation expected for several average return periods. Both crustal and subduction earthquakes are considered. The probability for each scenario (location, depth, mechanism, source size, magnitude and temporal rate) is defined on a uniform grid covering the entire Mediterranean for crustal earthquakes and on the plate interface for subduction earthquakes. Activity rates are assigned from seismic catalogues and basing on a tectonic regionalization of the Mediterranean area. The methodology explores the associated aleatory uncertainty through the innovative application of an Event Tree. Main sources of epistemic uncertainty are also addressed although in preliminary way. The whole procedure relies on a database of pre-calculated Gaussian-shaped Green's functions for the sea level elevation, to be used also as a real time hazard assessment tool by CAT. Tsunami simulations are performed using the non-linear shallow water multi-GPU code HySEA, over a 30 arcsec bathymetry (from the SRTM30+ dataset) and the maximum elevations are stored at the 50-meter isobath and then extrapolated through the Green's law at 1 meter depth. This work is partially funded by project ASTARTE - Assessment, Strategy And Risk Reduction for Tsunamis in Europe - FP7-ENV2013 6.4-3, Grant 603839, and by the Italian flagship project RITMARE.

Training Signaling Pathway Maps to Biochemical Data with Constrained Fuzzy Logic: Quantitative Analysis of Liver Cell Responses to Inflammatory Stimuli

PubMed Central

Morris, Melody K.; Saez-Rodriguez, Julio; Clarke, David C.; Sorger, Peter K.; Lauffenburger, Douglas A.

2011-01-01

Predictive understanding of cell signaling network operation based on general prior knowledge but consistent with empirical data in a specific environmental context is a current challenge in computational biology. Recent work has demonstrated that Boolean logic can be used to create context-specific network models by training proteomic pathway maps to dedicated biochemical data; however, the Boolean formalism is restricted to characterizing protein species as either fully active or inactive. To advance beyond this limitation, we propose a novel form of fuzzy logic sufficiently flexible to model quantitative data but also sufficiently simple to efficiently construct models by training pathway maps on dedicated experimental measurements. Our new approach, termed constrained fuzzy logic (cFL), converts a prior knowledge network (obtained from literature or interactome databases) into a computable model that describes graded values of protein activation across multiple pathways. We train a cFL-converted network to experimental data describing hepatocytic protein activation by inflammatory cytokines and demonstrate the application of the resultant trained models for three important purposes: (a) generating experimentally testable biological hypotheses concerning pathway crosstalk, (b) establishing capability for quantitative prediction of protein activity, and (c) prediction and understanding of the cytokine release phenotypic response. Our methodology systematically and quantitatively trains a protein pathway map summarizing curated literature to context-specific biochemical data. This process generates a computable model yielding successful prediction of new test data and offering biological insight into complex datasets that are difficult to fully analyze by intuition alone. PMID:21408212

Understanding the productive author who published papers in medicine using National Health Insurance Database: A systematic review and meta-analysis.

PubMed

Chien, Tsair-Wei; Chang, Yu; Wang, Hsien-Yi

2018-02-01

Many researchers used National Health Insurance database to publish medical papers which are often retrospective, population-based, and cohort studies. However, the author's research domain and academic characteristics are still unclear.By searching the PubMed database (Pubmed.com), we used the keyword of [Taiwan] and [National Health Insurance Research Database], then downloaded 2913 articles published from 1995 to 2017. Social network analysis (SNA), Gini coefficient, and Google Maps were applied to gather these data for visualizing: the most productive author; the pattern of coauthor collaboration teams; and the author's research domain denoted by abstract keywords and Pubmed MESH (medical subject heading) terms.Utilizing the 2913 papers from Taiwan's National Health Insurance database, we chose the top 10 research teams shown on Google Maps and analyzed one author (Dr. Kao) who published 149 papers in the database in 2015. In the past 15 years, we found Dr. Kao had 2987 connections with other coauthors from 13 research teams. The cooccurrence abstract keywords with the highest frequency are cohort study and National Health Insurance Research Database. The most coexistent MESH terms are tomography, X-ray computed, and positron-emission tomography. The strength of the author research distinct domain is very low (Gini < 0.40).SNA incorporated with Google Maps and Gini coefficient provides insight into the relationships between entities. The results obtained in this study can be applied for a comprehensive understanding of other productive authors in the field of academics.

The National Landslide Database and GIS for Great Britain: construction, development, data acquisition, application and communication

NASA Astrophysics Data System (ADS)

Pennington, Catherine; Dashwood, Claire; Freeborough, Katy

2014-05-01

The National Landslide Database has been developed by the British Geological Survey (BGS) and is the focus for national geohazard research for landslides in Great Britain. The history and structure of the geospatial database and associated Geographical Information System (GIS) are explained, along with the future developments of the database and its applications. The database is the most extensive source of information on landslides in Great Britain with over 16,500 records of landslide events, each documented as fully as possible. Data are gathered through a range of procedures, including: incorporation of other databases; automated trawling of current and historical scientific literature and media reports; new field- and desk-based mapping technologies with digital data capture, and crowd-sourcing information through social media and other online resources. This information is invaluable for the investigation, prevention and mitigation of areas of unstable ground in accordance with Government planning policy guidelines. The national landslide susceptibility map (GeoSure) and a national landslide domain map currently under development rely heavily on the information contained within the landslide database. Assessing susceptibility to landsliding requires knowledge of the distribution of failures and an understanding of causative factors and their spatial distribution, whilst understanding the frequency and types of landsliding present is integral to modelling how rainfall will influence the stability of a region. Communication of landslide data through the Natural Hazard Partnership (NHP) contributes to national hazard mitigation and disaster risk reduction with respect to weather and climate. Daily reports of landslide potential are published by BGS through the NHP and data collected for the National Landslide Database is used widely for the creation of these assessments. The National Landslide Database is freely available via an online GIS and is used by a variety of stakeholders for research purposes.

Mapping the Infrared Universe: Part 1

NASA Image and Video Library

2011-04-14

This image is a map of the portion of the sky covered by the preliminary release of WISE data. WISE surveyed the entire sky in four infrared wavelengths in 2010. This map is centered on the Milky Way galaxy.

THE FIRST PUBLIC RELEASE OF SOUTH POLE TELESCOPE DATA: MAPS OF A 95 deg{sup 2} FIELD FROM 2008 OBSERVATIONS

DOE Office of Scientific and Technical Information (OSTI.GOV)

Schaffer, K. K.; Crawford, T. M.; Benson, B. A.

2011-12-10

The South Pole Telescope (SPT) has nearly completed a 2500 deg{sup 2} survey of the southern sky in three frequency bands. Here, we present the first public release of SPT maps and associated data products. We present arcminute-resolution maps at 150 GHz and 220 GHz of an approximately 95 deg{sup 2} field centered at R.A. 82.{sup 0}7, decl. -55 Degree-Sign . The field was observed to a depth of approximately 17 {mu}K arcmin at 150 GHz and 41 {mu}K arcmin at 220 GHz during the 2008 austral winter season. Two variations on map filtering and map projection are presented, onemore » tailored for producing catalogs of galaxy clusters detected through their Sunyaev-Zel'dovich effect signature and one tailored for producing catalogs of emissive sources. We describe the data processing pipeline, and we present instrument response functions, filter transfer functions, and map noise properties. All data products described in this paper are available for download at http://pole.uchicago.edu/public/data/maps/ra5h30dec-55 and from the NASA Legacy Archive for Microwave Background Data Analysis server. This is the first step in the eventual release of data from the full 2500 deg{sup 2} SPT survey.« less

Make Your Own Mashup Maps

ERIC Educational Resources Information Center

Lucking, Robert A.; Christmann, Edwin P.; Whiting, Mervyn J.

2008-01-01

"Mashup" is a new technology term used to describe a web application that combines data or technology from several different sources. You can apply this concept in your classroom by having students create their own mashup maps. Google Maps provides you with the simple tools, map databases, and online help you'll need to quickly master this…

Geologic map and digital database of the Conejo Well 7.5 minute quadrangle, Riverside County, Southern California

USGS Publications Warehouse

Powell, Robert E.

2001-01-01

This data set maps and describes the geology of the Conejo Well 7.5 minute quadrangle, Riverside County, southern California. The quadrangle, situated in Joshua Tree National Park in the eastern Transverse Ranges physiographic and structural province, encompasses part of the northern Eagle Mountains and part of the south flank of Pinto Basin. It is underlain by a basement terrane comprising Proterozoic metamorphic rocks, Mesozoic plutonic rocks, and Mesozoic and Mesozoic or Cenozoic hypabyssal dikes. The basement terrane is capped by a widespread Tertiary erosion surface preserved in remnants in the Eagle Mountains and buried beneath Cenozoic deposits in Pinto Basin. Locally, Miocene basalt overlies the erosion surface. A sequence of at least three Quaternary pediments is planed into the north piedmont of the Eagle Mountains, each in turn overlain by successively younger residual and alluvial deposits. The Tertiary erosion surface is deformed and broken by north-northwest-trending, high-angle, dip-slip faults in the Eagle Mountains and an east-west trending system of high-angle dip- and left-slip faults. In and adjacent to the Conejo Well quadrangle, faults of the northwest-trending set displace Miocene sedimentary rocks and basalt deposited on the Tertiary erosion surface and Pliocene and (or) Pleistocene deposits that accumulated on the oldest pediment. Faults of this system appear to be overlain by Pleistocene deposits that accumulated on younger pediments. East-west trending faults are younger than and perhaps in part coeval with faults of the northwest-trending set. The Conejo Well database was created using ARCVIEW and ARC/INFO, which are geographical information system (GIS) software products of Envronmental Systems Research Institute (ESRI). The database consists of the following items: (1) a map coverage showing faults and geologic contacts and units, (2) a separate coverage showing dikes, (3) a coverage showing structural data, (4) a point coverage containing line ornamentation, and (5) a scanned topographic base at a scale of 1:24,000. The coverages include attribute tables for geologic units (polygons and regions), contacts (arcs), and site-specific data (points). The database, accompanied by a pamphlet file and this metadata file, also includes the following graphic and text products: (1) A portable document file (.pdf) containing a navigable graphic of the geologic map on a 1:24,000 topographic base. The map is accompanied by a marginal explanation consisting of a Description of Map and Database Units (DMU), a Correlation of Map and Database Units (CMU), and a key to point-and line-symbols. (2) Separate .pdf files of the DMU and CMU, individually. (3) A PostScript graphic-file containing the geologic map on a 1:24,000 topographic base accompanied by the marginal explanation. (4) A pamphlet that describes the database and how to access it. Within the database, geologic contacts , faults, and dikes are represented as lines (arcs), geologic units as polygons and regions, and site-specific data as points. Polygon, arc, and point attribute tables (.pat, .aat, and .pat, respectively) uniquely identify each geologic datum and link it to other tables (.rel) that provide more detailed geologic information.

Database resources of the National Center for Biotechnology Information: 2002 update

PubMed Central

Wheeler, David L.; Church, Deanna M.; Lash, Alex E.; Leipe, Detlef D.; Madden, Thomas L.; Pontius, Joan U.; Schuler, Gregory D.; Schriml, Lynn M.; Tatusova, Tatiana A.; Wagner, Lukas; Rapp, Barbara A.

2002-01-01

In addition to maintaining the GenBank nucleic acid sequence database, the National Center for Biotechnology Information (NCBI) provides data analysis and retrieval resources that operate on the data in GenBank and a variety of other biological data made available through NCBI’s web site. NCBI data retrieval resources include Entrez, PubMed, LocusLink and the Taxonomy Browser. Data analysis resources include BLAST, Electronic PCR, OrfFinder, RefSeq, UniGene, HomoloGene, Database of Single Nucleotide Polymorphisms (dbSNP), Human Genome Sequencing, Human MapViewer, Human¡VMouse Homology Map, Cancer Chromosome Aberration Project (CCAP), Entrez Genomes, Clusters of Orthologous Groups (COGs) database, Retroviral Genotyping Tools, SAGEmap, Gene Expression Omnibus (GEO), Online Mendelian Inheritance in Man (OMIM), the Molecular Modeling Database (MMDB) and the Conserved Domain Database (CDD). Augmenting many of the web applications are custom implementations of the BLAST program optimized to search specialized data sets. All of the resources can be accessed through the NCBI home page at http://www.ncbi.nlm.nih.gov. PMID:11752242

A procedure for matching truck crash records with hazardous material release incidents and a comparative analysis of the determinants of truck crashes with hazardous material releases.

DOT National Transportation Integrated Search

2012-06-01

In the current study, we quantified the number and location of hazardous release crashes and identified the events leading : to crashes, as well as the type of material released. This study, for the first time, combined two federal databases: the U.S...

Regulations in the field of Geo-Information

NASA Astrophysics Data System (ADS)

Felus, Y.; Keinan, E.; Regev, R.

2013-10-01

The geomatics profession has gone through a major revolution during the last two decades with the emergence of advanced GNSS, GIS and Remote Sensing technologies. These technologies have changed the core principles and working procedures of geomatics professionals. For this reason, surveying and mapping regulations, standards and specifications should be updated to reflect these changes. In Israel, the "Survey Regulations" is the principal document that regulates the professional activities in four key areas geodetic control, mapping, cadastre and Georaphic information systems. Licensed Surveyors and mapping professionals in Israel are required to work according to those regulations. This year a new set of regulations have been published and include a few major amendments as follows: In the Geodesy chapter, horizontal control is officially based on the Israeli network of Continuously Operating GNSS Reference Stations (CORS). The regulations were phrased in a manner that will allow minor datum changes to the CORS stations due to Earth Crustal Movements. Moreover, the regulations permit the use of GNSS for low accuracy height measurements. In the Cadastre chapter, the most critical change is the move to Coordinate Based Cadastre (CBC). Each parcel corner point is ranked according to its quality (accuracy and clarity of definition). The highest ranking for a parcel corner is 1. A point with a rank of 1 is defined by its coordinates alone. Any other contradicting evidence is inferior to the coordinates values. Cadastral Information is stored and managed via the National Cadastral Databases. In the Mapping and GIS chapter; the traditional paper maps (ranked by scale) are replaced by digital maps or spatial databases. These spatial databases are ranked by their quality level. Quality level is determined (similar to the ISO19157 Standard) by logical consistency, completeness, positional accuracy, attribute accuracy, temporal accuracy and usability. Metadata is another critical component of any spatial database. Every component in a map should have a metadata identification, even if the map was compiled from multiple resources. The regulations permit the use of advanced sensors and mapping techniques including LIDAR and digita l cameras that have been certified and meet the defined criteria. The article reviews these new regulations and the decision that led to them.

Geologic Map of the State of Hawai`i

USGS Publications Warehouse

Sherrod, David R.; Sinton, John M.; Watkins, Sarah E.; Brunt, Kelly M.

2007-01-01

About This Map The State's geology is presented on eight full-color map sheets, one for each of the major islands. These map sheets, the illustrative meat of the publication, can be downloaded in pdf format, ready to print. Map scale is 1:100,000 for most of the islands, so that each map is about 27 inches by 36 inches. The Island of Hawai`i, largest of the islands, is depicted at a smaller scale, 1:250,000, so that it, too, can be shown on 36-inch-wide paper. The new publication isn't limited strictly to its map depictions. Twenty years have passed since David Clague and Brent Dalrymple published a comprehensive report that summarized the geology of all the islands, and it has been even longer since the last edition of Gordon Macdonald's book, Islands in the Sea, was revised. Therefore the new statewide geologic map includes an 83-page explanatory pamphlet that revisits many of the concepts that have evolved in our geologic understanding of the eight main islands. The pamphlet includes simplified page-size geologic maps for each island, summaries of all the radiometric ages that have been gathered since about 1960, generalized depictions of geochemical analyses for each volcano's eruptive stages, and discussion of some outstanding topics that remain controversial or deserving of additional research. The pamphlet also contains a complete description of map units, which enumerates the characteristics for each of the state's many stratigraphic formations shown on the map sheets. Since the late 1980s, the audience for geologic maps has grown as desktop computers and map-based software have become increasingly powerful. Those who prefer the convenience and access offered by Geographic Information Systems (GIS) can also feast on this publication. An electronic database, suitable for most GIS software applications, is available for downloading. The GIS database is in an Earth projection widely employed throughout the State of Hawai`i, using the North American datum of 1983 and the Universal Transverse Mercator system projection to zone 4. 'This digital statewide map allows engineers, consultants, and scientists from many different fields to take advantage of the geologic database,' said John Sinton, a geology professor at the University of Hawai`i, whose new mapping of the Wai`anae Range (West O`ahu) appears on the map. Indeed, when a testing version was first made available, most requests came from biologists, archaeologists, and soil scientists interested in applying the map's GIS database to their ongoing investigations. Another area newly depicted on the map, in addition to the Wai`anae Range, is Haleakala volcano, East Maui. So too for the active lava flows of Kilauea volcano, Island of Hawai`i, where the landscape has continued to evolve in the ten years since publication of the Big Island's revised geologic map. For the other islands, much of the map is compiled from mapping published in the 1930-1960s. This reliance stems partly from shortage of funding to undertake entirely new mapping but is warranted by the exemplary mapping of those early experts. The boundaries of all map units are digitized to show correctly on modern topographic maps.

PineElm_SSRdb: a microsatellite marker database identified from genomic, chloroplast, mitochondrial and EST sequences of pineapple (Ananas comosus (L.) Merrill).

PubMed

Chaudhary, Sakshi; Mishra, Bharat Kumar; Vivek, Thiruvettai; Magadum, Santoshkumar; Yasin, Jeshima Khan

2016-01-01

Simple Sequence Repeats or microsatellites are resourceful molecular genetic markers. There are only few reports of SSR identification and development in pineapple. Complete genome sequence of pineapple available in the public domain can be used to develop numerous novel SSRs. Therefore, an attempt was made to identify SSRs from genomic, chloroplast, mitochondrial and EST sequences of pineapple which will help in deciphering genetic makeup of its germplasm resources. A total of 359511 SSRs were identified in pineapple (356385 from genome sequence, 45 from chloroplast sequence, 249 in mitochondrial sequence and 2832 from EST sequences). The list of EST-SSR markers and their details are available in the database. PineElm_SSRdb is an open source database available for non-commercial academic purpose at http://app.bioelm.com/ with a mapping tool which can develop circular maps of selected marker set. This database will be of immense use to breeders, researchers and graduates working on Ananas spp. and to others working on cross-species transferability of markers, investigating diversity, mapping and DNA fingerprinting.

In need of combined topography and bathymetry DEM

NASA Astrophysics Data System (ADS)

Kisimoto, K.; Hilde, T.

2003-04-01

In many geoscience applications, digital elevation models (DEMs) are now more commonly used at different scales and greater resolution due to the great advancement in computer technology. Increasing the accuracy/resolution of the model and the coverage of the terrain (global model) has been the goal of users as mapping technology has improved and computers get faster and cheaper. The ETOPO5 (5 arc minutes spatial resolution land and seafloor model), initially developed in 1988 by Margo Edwards, then at Washington University, St. Louis, MO, has been the only global terrain model for a long time, and it is now being replaced by three new topographic and bathymetric DEMs, i.e.; the ETOPO2 (2 arc minutes spatial resolution land and seafloor model), the GTOPO30 land model with a spatial resolution of 30 arc seconds (c.a. 1km at equator) and the 'GEBCO 1-MINUTE GLOBAL BATHYMETRIC GRID' ocean floor model with a spatial resolution of 1 arc minute (c.a. 2 km at equator). These DEMs are products of projects through which compilation and reprocessing of existing and/or new datasets were made to meet user's new requirements. These ongoing efforts are valuable and support should be continued to refine and update these DEMs. On the other hand, a different approach to create a global bathymetric (seafloor) database exists. A method to estimate the seafloor topography from satellite altimetry combined with existing ships' conventional sounding data was devised and a beautiful global seafloor database created and made public by W.H. Smith and D.T. Sandwell in 1997. The big advantage of this database is the uniformity of coverage, i.e. there is no large area where depths are missing. It has a spatial resolution of 2 arc minute. Another important effort is found in making regional, not global, seafloor databases with much finer resolutions in many countries. The Japan Hydrographic Department has compiled and released a 500m-grid topography database around Japan, J-EGG500, in 1999. Although the coverage of this database is only a small portion of the Earth, the database has been highly appreciated in the academic community, and accepted in surprise by the general public when the database was displayed in 3D imagery to show its quality. This database could be rather smoothly combined with the finer land DEM of 250m spatial resolution (Japan250m.grd, K. Kisimoto, 2000). One of the most important applications of this combined DEM of topography and bathymetry is tsunami modeling. Understanding of the coastal environment, management and development of the coastal region are other fields in need of these data. There is, however, an important issue to consider when we create a combined DEM of topography and bathymetry in finer resolutions. The problem arises from the discrepancy of the standard datum planes or reference levels used for topographic leveling and bathymetric sounding. Land topography (altitude) is defined by leveling from the single reference point determined by average mean sea level, in other words, land height is measured from the geoid. On the other hand, depth charts are made based on depth measured from locally determined reference sea surface level, and this value of sea surface level is taken from the long term average of the lowest tidal height. So, to create a combined DEM of topography and bathymetry in very fine scale, we need to avoid this inconsistency between height and depth across the coastal region. Height and depth should be physically continuous relative to a single reference datum across the coast within such new high resolution DEMs. (N.B. Coast line is not equal to 'altitude-zero line' nor 'depth-zero line'. It is defined locally as the long term average of the highest tide level.) All of this said, we still need a lot of work on the ocean side. Global coverage with detailed bathymetric mapping is still poor. Seafloor imaging and other geophysical measurements/experiments should be organized and conducted internationally and interdisciplinary ways more than ever. We always need greater technological advancement and application of this technology in marine sciences, and more enthusiastic minds of seagoing researchers as well. Recent seafloor mapping technology/quality both in bathymetry and imagery is very promising and even favorably compared with the terrain mapping. We discuss and present on recent achievement and needs on the seafloor mapping using several most up-to-date global- and regional- DEMs available for science community at the poster session.

Geology of the Cape Mendocino, Eureka, Garberville, and Southwestern Part of the Hayfork 30 x 60 Minute Quadrangles and Adjacent Offshore Area, Northern California

USGS Publications Warehouse

McLaughlin, Robert J.; Ellen, S.D.; Blake, M.C.; Jayko, Angela S.; Irwin, W.P.; Aalto, K.R.; Carver, G.A.; Clarke, S.H.; Barnes, J.B.; Cecil, J.D.; Cyr, K.A.

2000-01-01

Introduction These geologic maps and accompanying structure sections depict the geology and structure of much of northwestern California and the adjacent continental margin. The map area includes the Mendocino triple junction, which is the juncture of the North American continental plate with two plates of the Pacific ocean basin. The map area also encompasses major geographic and geologic provinces of northwestern California. The maps incorporate much previously unpublished geologic mapping done between 1980 and 1995, as well as published mapping done between about 1950 and 1978. To construct structure sections to mid-crustal depths, we integrate the surface geology with interpretations of crustal structure based on seismicity, gravity and aeromagnetic data, offshore structure, and seismic reflection and refraction data. In addition to describing major geologic and structural features of northwestern California, the geologic maps have the potential to address a number of societally relevant issues, including hazards from earthquakes, landslides, and floods and problems related to timber harvest, wildlife habitat, and changing land use. All of these topics will continue to be of interest in the region, as changing land uses and population density interact with natural conditions. In these interactions, it is critical that the policies and practices affecting man and the environment integrate an adequate understanding of the geology. This digital map database, compiled from previously published and unpublished data, and new mapping by the authors, represents the general distribution of bedrock and surficial deposits in the mapped area. Together with the accompanying text file (ceghmf.ps, ceghmf.pdf, ceghmf.txt), it provides current information on the geologic structure and stratigraphy of the area covered. The database delineates map units that are identified by general age and lithology following the stratigraphic nomenclature of the U.S. Geological Survey. The scale of the source maps limits the spatial resolution (scale) of the database to 1:100,000 or smaller.

ERK1/2 and p38 MAP kinases control prion protein fragment 90-231-induced astrocyte proliferation and microglia activation.

PubMed

Thellung, Stefano; Villa, Valentina; Corsaro, Alessandro; Pellistri, Francesca; Venezia, Valentina; Russo, Claudio; Aceto, Antonio; Robello, Mauro; Florio, Tullio

2007-11-01

Astrogliosis and microglial activation are a common feature during prion diseases, causing the release of chemoattractant and proinflammatory factors as well as reactive free radicals, involved in neuronal degeneration. The recombinant protease-resistant domain of the prion protein (PrP90-231) displays in vitro neurotoxic properties when refolded in a beta-sheet-rich conformer. Here, we report that PrP90-231 induces the secretion of several cytokines, chemokines, and nitric oxide (NO) release, in both type I astrocytes and microglial cells. PrP90-231 elicited in both cell types the activation of ERK1/2 MAP kinase that displays, in astrocytes, a rapid kinetics and a proliferative response. Conversely, in microglia, PrP90-231-dependent MAP kinase activation was delayed and long lasting, inducing functional activation and growth arrest. In microglial cells, NO release, dependent on the expression of the inducible NO synthase (iNOS), and the secretion of the chemokine CCL5 were Ca(2+) dependent and under the control of the MAP kinases ERK1/2 and p38: ERK1/2 inhibition, using PD98059, reduced iNOS expression, while p38 blockade by PD169316 inhibited CCL5 release. In summary, we demonstrate that glial cells are activated by extracellular misfolded PrP90-231 resulting in a proliferative/secretive response of astrocytes and functional activation of microglia, both dependent on MAP kinase activation. In particular, in microglia, PrP90-231 activated a complex signalling cascade involved in the regulation of NO and chemokine release. These data argue in favor of a causal role for misfolded prion protein in sustaining glial activation and, possibly, glia-mediated neuronal death.

Active, capable, and potentially active faults - a paleoseismic perspective

USGS Publications Warehouse

Machette, M.N.

2000-01-01

Maps of faults (geologically defined source zones) may portray seismic hazards in a wide range of completeness depending on which types of faults are shown. Three fault terms - active, capable, and potential - are used in a variety of ways for different reasons or applications. Nevertheless, to be useful for seismic-hazards analysis, fault maps should encompass a time interval that includes several earthquake cycles. For example, if the common recurrence in an area is 20,000-50,000 years, then maps should include faults that are 50,000-100,000 years old (two to five typical earthquake cycles), thus allowing for temporal variability in slip rate and recurrence intervals. Conversely, in more active areas such as plate boundaries, maps showing faults that are <10,000 years old should include those with at least 2 to as many as 20 paleoearthquakes. For the International Lithosphere Programs' Task Group II-2 Project on Major Active Faults of the World our maps and database will show five age categories and four slip rate categories that allow one to select differing time spans and activity rates for seismic-hazard analysis depending on tectonic regime. The maps are accompanied by a database that describes evidence for Quaternary faulting, geomorphic expression, and paleoseismic parameters (slip rate, recurrence interval and time of most recent surface faulting). These maps and databases provide an inventory of faults that would be defined as active, capable, and potentially active for seismic-hazard assessments.

1986 Year End Report for Road Following at Carnegie-Mellon

DTIC Science & Technology

1987-05-01

how to make them work efficiently. We designed a hierarchical structure and a monitor module which manages all parts of the hierarchy (see figure 1...database, called the Local Map, is managed by a program known as the Local Map Builder (LMB). Each module stores and retrieves information in the...knowledge-intensive modules, and a database manager that synchronizes the modules-is characteristic of a traditional blackboard system. Such a system is

Geologic map of Alaska

USGS Publications Warehouse

Wilson, Frederic H.; Hults, Chad P.; Mull, Charles G.; Karl, Susan M.

2015-12-31

This Alaska compilation is unique in that it is integrated with a rich database of information provided in the spatial datasets and standalone attribute databases. Within the spatial files every line and polygon is attributed to its original source; the references to these sources are contained in related tables, as well as in stand-alone tables. Additional attributes include typical lithology, geologic setting, and age range for the map units. Also included are tables of radiometric ages.

Computer-Aided Clinical Trial Recruitment Based on Domain-Specific Language Translation: A Case Study of Retinopathy of Prematurity

PubMed Central

2017-01-01

Reusing the data from healthcare information systems can effectively facilitate clinical trials (CTs). How to select candidate patients eligible for CT recruitment criteria is a central task. Related work either depends on DBA (database administrator) to convert the recruitment criteria to native SQL queries or involves the data mapping between a standard ontology/information model and individual data source schema. This paper proposes an alternative computer-aided CT recruitment paradigm, based on syntax translation between different DSLs (domain-specific languages). In this paradigm, the CT recruitment criteria are first formally represented as production rules. The referenced rule variables are all from the underlying database schema. Then the production rule is translated to an intermediate query-oriented DSL (e.g., LINQ). Finally, the intermediate DSL is directly mapped to native database queries (e.g., SQL) automated by ORM (object-relational mapping). PMID:29065644

e23D: database and visualization of A-to-I RNA editing sites mapped to 3D protein structures.

PubMed

Solomon, Oz; Eyal, Eran; Amariglio, Ninette; Unger, Ron; Rechavi, Gidi

2016-07-15

e23D, a database of A-to-I RNA editing sites from human, mouse and fly mapped to evolutionary related protein 3D structures, is presented. Genomic coordinates of A-to-I RNA editing sites are converted to protein coordinates and mapped onto 3D structures from PDB or theoretical models from ModBase. e23D allows visualization of the protein structure, modeling of recoding events and orientation of the editing with respect to nearby genomic functional sites from databases of disease causing mutations and genomic polymorphism. http://www.sheba-cancer.org.il/e23D CONTACT: oz.solomon@live.biu.ac.il or Eran.Eyal@sheba.health.gov.il. © The Author 2016. Published by Oxford University Press. All rights reserved. For Permissions, please e-mail: journals.permissions@oup.com.

Computer-Aided Clinical Trial Recruitment Based on Domain-Specific Language Translation: A Case Study of Retinopathy of Prematurity.

PubMed

Zhang, Yinsheng; Zhang, Guoming; Shang, Qian

2017-01-01

Reusing the data from healthcare information systems can effectively facilitate clinical trials (CTs). How to select candidate patients eligible for CT recruitment criteria is a central task. Related work either depends on DBA (database administrator) to convert the recruitment criteria to native SQL queries or involves the data mapping between a standard ontology/information model and individual data source schema. This paper proposes an alternative computer-aided CT recruitment paradigm, based on syntax translation between different DSLs (domain-specific languages). In this paradigm, the CT recruitment criteria are first formally represented as production rules. The referenced rule variables are all from the underlying database schema. Then the production rule is translated to an intermediate query-oriented DSL (e.g., LINQ). Finally, the intermediate DSL is directly mapped to native database queries (e.g., SQL) automated by ORM (object-relational mapping).

GEOGRAPHIC INFORMATION SYSTEM APPROACH FOR PLAY PORTFOLIOS TO IMPROVE OIL PRODUCTION IN THE ILLINOIS BASIN

DOE Office of Scientific and Technical Information (OSTI.GOV)

Beverly Seyler; John Grube

2004-12-10

Oil and gas have been commercially produced in Illinois for over 100 years. Existing commercial production is from more than fifty-two named pay horizons in Paleozoic rocks ranging in age from Middle Ordovician to Pennsylvanian. Over 3.2 billion barrels of oil have been produced. Recent calculations indicate that remaining mobile resources in the Illinois Basin may be on the order of several billion barrels. Thus, large quantities of oil, potentially recoverable using current technology, remain in Illinois oil fields despite a century of development. Many opportunities for increased production may have been missed due to complex development histories, multiple stackedmore » pays, and commingled production which makes thorough exploitation of pays and the application of secondary or improved/enhanced recovery strategies difficult. Access to data, and the techniques required to evaluate and manage large amounts of diverse data are major barriers to increased production of critical reserves in the Illinois Basin. These constraints are being alleviated by the development of a database access system using a Geographic Information System (GIS) approach for evaluation and identification of underdeveloped pays. The Illinois State Geological Survey has developed a methodology that is being used by industry to identify underdeveloped areas (UDAs) in and around petroleum reservoirs in Illinois using a GIS approach. This project utilizes a statewide oil and gas Oracle{reg_sign} database to develop a series of Oil and Gas Base Maps with well location symbols that are color-coded by producing horizon. Producing horizons are displayed as layers and can be selected as separate or combined layers that can be turned on and off. Map views can be customized to serve individual needs and page size maps can be printed. A core analysis database with over 168,000 entries has been compiled and assimilated into the ISGS Enterprise Oracle database. Maps of wells with core data have been generated. Data from over 1,700 Illinois waterflood units and waterflood areas have been entered into an Access{reg_sign} database. The waterflood area data has also been assimilated into the ISGS Oracle database for mapping and dissemination on the ArcIMS website. Formation depths for the Beech Creek Limestone, Ste. Genevieve Limestone and New Albany Shale in all of the oil producing region of Illinois have been calculated and entered into a digital database. Digital contoured structure maps have been constructed, edited and added to the ILoil website as map layers. This technology/methodology addresses the long-standing constraints related to information access and data management in Illinois by significantly simplifying the laborious process that industry presently must use to identify underdeveloped pay zones in Illinois.« less

De-MA: a web Database for electron Microprobe Analyses to assist EMP lab manager and users

NASA Astrophysics Data System (ADS)

Allaz, J. M.

2012-12-01

Lab managers and users of electron microprobe (EMP) facilities require comprehensive, yet flexible documentation structures, as well as an efficient scheduling mechanism. A single on-line database system for managing reservations, and providing information on standards, quantitative and qualitative setups (element mapping, etc.), and X-ray data has been developed for this purpose. This system is particularly useful in multi-user facilities where experience ranges from beginners to the highly experienced. New users and occasional facility users will find these tools extremely useful in developing and maintaining high quality, reproducible, and efficient analyses. This user-friendly database is available through the web, and uses MySQL as a database and PHP/HTML as script language (dynamic website). The database includes several tables for standards information, X-ray lines, X-ray element mapping, PHA, element setups, and agenda. It is configurable for up to five different EMPs in a single lab, each of them having up to five spectrometers and as many diffraction crystals as required. The installation should be done on a web server supporting PHP/MySQL, although installation on a personal computer is possible using third-party freeware to create a local Apache server, and to enable PHP/MySQL. Since it is web-based, any user outside the EMP lab can access this database anytime through any web browser and on any operating system. The access can be secured using a general password protection (e.g. htaccess). The web interface consists of 6 main menus. (1) "Standards" lists standards defined in the database, and displays detailed information on each (e.g. material type, name, reference, comments, and analyses). Images such as EDS spectra or BSE can be associated with a standard. (2) "Analyses" lists typical setups to use for quantitative analyses, allows calculation of mineral composition based on a mineral formula, or calculation of mineral formula based on a fixed amount of oxygen, or of cation (using an analysis in element or oxide weight-%); this latter includes re-calculation of H2O/CO2 based on stoichiometry, and oxygen correction for F and Cl. Another option offers a list of any available standards and possible peak or background interferences for a series of elements. (3) "X-ray maps" lists the different setups recommended for element mapping using WDS, and a map calculator to facilitate maps setups and to estimate the total mapping time. (4) "X-ray data" lists all x-ray lines for a specific element (K, L, M, absorption edges, and satellite peaks) in term of energy, wavelength and peak position. A check for possible interferences on peak or background is also possible. Theoretical x-ray peak positions for each crystal are calculated based on the 2d spacing of each crystal and the wavelength of each line. (5) "Agenda" menu displays the reservation dates for each month and for each EMP lab defined. It also offers a reservation request option, this request being sent by email to the EMP manager for approval. (6) Finally, "Admin" is password restricted, and contains all necessary options to manage the database through user-friendly forms. The installation of this database is made easy and knowledge of HTML, PHP, or MySQL is unnecessary to install, configure, manage, or use it. A working database is accessible at http://cub.geoloweb.ch.

The Lunar Mapping and Modeling Project Update

NASA Technical Reports Server (NTRS)

Noble, S.; French, R.; Nall, M.; Muery, K.

2010-01-01

The Lunar Mapping and Modeling Project (LMMP) is managing the development of a suite of lunar mapping and modeling tools and data products that support lunar exploration activities, including the planning, design, development, test, and operations associated with crewed and/or robotic operations on the lunar surface. In addition, LMMP should prove to be a convenient and useful tool for scientific analysis and for education and public outreach (E/PO) activities. LMMP will utilize data predominately from the Lunar Reconnaissance Orbiter, but also historical and international lunar mission data (e.g. Lunar Prospector, Clementine, Apollo, Lunar Orbiter, Kaguya, and Chandrayaan-1) as available and appropriate. LMMP will provide such products as image mosaics, DEMs, hazard assessment maps, temperature maps, lighting maps and models, gravity models, and resource maps. We are working closely with the LRO team to prevent duplication of efforts and ensure the highest quality data products. A beta version of the LMMP software was released for limited distribution in December 2009, with the public release of version 1 expected in the Fall of 2010.

Factors reducing the expected deflection in initial orientation in clock-shifted homing pigeons.

PubMed

Gagliardo, Anna; Odetti, Francesca; Ioalè, Paolo

2005-02-01

To orient from familiar sites, homing pigeons can rely on both an olfactory map and visual familiar landmarks. The latter can in principle be used in two different ways: either within a topographical map exploited for piloting or in a so-called mosaic map associated with a compass bearing. One way to investigate the matter is to put the compass and the topographical information in conflict by releasing clock-shifted pigeons from familiar locations. Although the compass orientation is in general dominant over a piloting strategy, a stronger or weaker tendency to correct towards the home direction by clock-shifted pigeons released from very familiar sites has often been observed. To investigate which factors are involved in the reduction of the deviation due to clock-shift, we performed a series of releases with intact and anosmic pigeons from familiar sites in unshifted and clock-shifted conditions and a series of releases from the same sites with naive clock-shifted birds. Our data suggest that the following factors have a role in reducing deviation due to the clock-shift: familiarity with the release site, the lack of olfactory information and some unknown site-dependent features.

Map and database of Quaternary faults in Venezuela and its offshore regions

USGS Publications Warehouse

Audemard, F.A.; Machette, M.N.; Cox, J.W.; Dart, R.L.; Haller, K.M.

2000-01-01

As part of the International Lithosphere Program’s “World Map of Major Active Faults,” the U.S. Geological Survey is assisting in the compilation of a series of digital maps of Quaternary faults and folds in Western Hemisphere countries. The maps show the locations, ages, and activity rates of major earthquake-related features such as faults and fault-related folds. They are accompanied by databases that describe these features and document current information on their activity in the Quaternary. The project is a key part of the Global Seismic Hazards Assessment Program (ILP Project II-0) for the International Decade for Natural Hazard Disaster Reduction.The project is sponsored by the International Lithosphere Program and funded by the USGS’s National Earthquake Hazards Reduction Program. The primary elements of the project are general supervision and interpretation of geologic/tectonic information, data compilation and entry for fault catalog, database design and management, and digitization and manipulation of data in †ARCINFO. For the compilation of data, we engaged experts in Quaternary faulting, neotectonics, paleoseismology, and seismology.

NADM Conceptual Model 1.0 -- A Conceptual Model for Geologic Map Information

USGS Publications Warehouse

,

2004-01-01

Executive Summary -- The NADM Data Model Design Team was established in 1999 by the North American Geologic Map Data Model Steering Committee (NADMSC) with the purpose of drafting a geologic map data model for consideration as a standard for developing interoperable geologic map-centered databases by state, provincial, and federal geological surveys. The model is designed to be a technology-neutral conceptual model that can form the basis for a web-based interchange format using evolving information technology (e.g., XML, RDF, OWL), and guide implementation of geoscience databases in a common conceptual framework. The intended purpose is to allow geologic information sharing between geologic map data providers and users, independent of local information system implementation. The model emphasizes geoscience concepts and relationships related to information presented on geologic maps. Design has been guided by an informal requirements analysis, documentation of existing databases, technology developments, and other standardization efforts in the geoscience and computer-science communities. A key aspect of the model is the notion that representation of the conceptual framework (ontology) that underlies geologic map data must be part of the model, because this framework changes with time and understanding, and varies between information providers. The top level of the model distinguishes geologic concepts, geologic representation concepts, and metadata. The geologic representation part of the model provides a framework for representing the ontology that underlies geologic map data through a controlled vocabulary, and for establishing the relationships between this vocabulary and a geologic map visualization or portrayal. Top-level geologic classes in the model are Earth material (substance), geologic unit (parts of the Earth), geologic age, geologic structure, fossil, geologic process, geologic relation, and geologic event.

Geologic and geophysical maps of the El Casco 7.5′ quadrangle, Riverside County, southern California, with accompanying geologic-map database

USGS Publications Warehouse

Matti, J.C.; Morton, D.M.; Langenheim, V.E.

2015-01-01

Geologic information contained in the El Casco database is general-purpose data applicable to land-related investigations in the earth and biological sciences. The term “general-purpose” means that all geologic-feature classes have minimal information content adequate to characterize their general geologic characteristics and to interpret their general geologic history. However, no single feature class has enough information to definitively characterize its properties and origin. For this reason the database cannot be used for site-specific geologic evaluations, although it can be used to plan and guide investigations at the site-specific level.

The National Map - Orthoimagery Layer

USGS Publications Warehouse

,

2007-01-01

Many Federal, State, and local agencies use a common set of framework geographic information databases as a tool for economic and community development, land and natural resource management, and health and safety services. Emergency management and homeland security applications rely on this information. Private industry, nongovernmental organizations, and individual citizens use the same geographic data. Geographic information underpins an increasingly large part of the Nation's economy. The U.S. Geological Survey (USGS) is developing The National Map to be a seamless, continually maintained, and nationally consistent set of online, public domain, framework geographic information databases. The National Map will serve as a foundation for integrating, sharing, and using data easily and consistently. The data will be the source of revised paper topographic maps. The National Map includes digital orthorectified imagery; elevation data; vector data for hydrography, transportation, boundary, and structure features; geographic names; and land cover information.

Map and database of Quaternary faults and folds in Colombia and its offshore regions

USGS Publications Warehouse

Paris, Gabriel; Machette, Michael N.; Dart, Richard L.; Haller, Kathleen M.

2000-01-01

As part of the International Lithosphere Program’s “World Map of Major Active Faults,” the U.S. Geological Survey (USGS) is assisting in the compilation of a series of digital maps of Quaternary faults and folds in Western Hemisphere countries. The maps show the locations, ages, and activity rates of major earthquake-related features such as faults and fault-related folds. They are accompanied by databases that describe these features and document current information on their activity in the Quaternary. Top date, the project has published fault and fold maps for Costa Rica (Montero and others, 1998), Panama (Cowan and others, 1998), Venezuela (Audemard and others, 2000), Bolovia/Chile (Lavenu, and others, 2000), and Argentina (Costa and others, 2000). The project is a key part of the Global Seismic Hazards Assessment Program (ILP Project II-0) for the International Decade for Natural Hazard Disaster Reduction.

Conservation and the 4 Rs, which are rescue, rehabilitation, release, and research.

PubMed

Pyke, Graham H; Szabo, Judit K

2018-02-01

Vertebrate animals can be injured or threatened with injury through human activities, thus warranting their "rescue." Details of wildlife rescue, rehabilitation, release, and associated research (our 4 Rs) are often recorded in large databases, resulting in a wealth of available information. This information has huge research potential and can contribute to understanding of animal biology, anthropogenic impacts on wildlife, and species conservation. However, such databases have been little used, few studies have evaluated factors influencing success of rehabilitation and/or release, recommended actions to conserve threatened species have rarely arisen, and direct benefits for species conservation are yet to be demonstrated. We therefore recommend that additional research be based on data from rescue, rehabilitation, and release of animals that is broader in scope than previous research and would have community support. © 2017 Society for Conservation Biology.

Geologic map of Chickasaw National Recreation Area, Murray County, Oklahoma

USGS Publications Warehouse

Blome, Charles D.; Lidke, David J.; Wahl, Ronald R.; Golab, James A.

2013-01-01

This 1:24,000-scale geologic map is a compilation of previous geologic maps and new geologic mapping of areas in and around Chickasaw National Recreation Area. The geologic map includes revisions of numerous unit contacts and faults and a number of previously “undifferentiated” rock units were subdivided in some areas. Numerous circular-shaped hills in and around Chickasaw National Recreation Area are probably the result of karst-related collapse and may represent the erosional remnants of large, exhumed sinkholes. Geospatial registration of existing, smaller scale (1:72,000- and 1:100,000-scale) geologic maps of the area and construction of an accurate Geographic Information System (GIS) database preceded 2 years of fieldwork wherein previously mapped geology (unit contacts and faults) was verified and new geologic mapping was carried out. The geologic map of Chickasaw National Recreation Area and this pamphlet include information pertaining to how the geologic units and structural features in the map area relate to the formation of the northern Arbuckle Mountains and its Arbuckle-Simpson aquifer. The development of an accurate geospatial GIS database and the use of a handheld computer in the field greatly increased both the accuracy and efficiency in producing the 1:24,000-scale geologic map.

Geologic Field Notes, Geochemical Analyses, and Field Photographs of Outcrops and Rock Samples from the Big Delta B-1 Quadrangle, East-Central Alaska

USGS Publications Warehouse

Day, Warren C.; O'Neill, J. Michael

2008-01-01

The U.S. Geological Survey, in cooperation with the Alaska Department of Natural Resources Division of Mining, Land, and Water, has released a geologic map of the Big Delta B-1 quadrangle of east-central Alaska (Day and others, 2007). This companion report presents the major element oxide and trace element geochemical analyses, including those for gold, silver, and base metals, for representative rock units and for grab samples from quartz veins and mineralized zones within the quadrangle. Also included are field station locations, field notes, structural data, and field photographs based primarily on observations by W.C. Day with additions by J.M. O'Neill and B.M. Gamble, all of the U.S. Geological Survey. The data are provided in both Microsoft Excel spread sheet format and as a Microsoft Access database.

Using collaborative tools for energy corridor planning.

DOE Office of Scientific and Technical Information (OSTI.GOV)

Kuiper, J. A.; Cantwell, B.; Hlohowskyj, I.

2008-01-01

In November 2007, the Draft Programmatic Environmental Impact Statement on Designation of Energy Corridors on Federal Land in the Western 11 States was released. The draft proposes a network of 6055 miles of energy corridors on lands managed by seven different federal agencies. Determining the proposed locations of the corridors was a large collaborative effort among the agencies and included local, state, and federal land managers. To connect this geographically dispersed group of people, the project team employed a variety of approaches to communicate corridor siting issues, including sharing GIS layers and electronic maps, a downloadable GIS database and ArcReadermore » project, workshops, and Internet webcast teleconferences. This collaborative approach allowed difficult siting issues to be understood and discussed from many perspectives, which resulted in rapid and effective decision making. The result was a proposed corridor system that avoids many sensitive resources and protected lands while accommodating expected energy development.« less

LSST Data Management

NASA Astrophysics Data System (ADS)

O'Mullane, William; LSST Data Management Team

2018-01-01

The Large Synoptic Survey Telescope (LSST) is an 8-m optical ground-based telescope being constructed on Cerro Pachon in Chile. LSST will survey half the sky every few nights in six optical bands. The data will be transferred to the data center in North America and within 60 seconds it will be reduced using difference imaging and an alert list be generated for the community. Additionally, annual data releases will be constructed from all the data during the 10-year mission, producing catalogs and deep co-added images with unprecedented time resolution for such a large region of sky. In the paper we present the current status of the LSST stack including the data processing components, Qserv database and data visualization software, describe how to obtain it, and provide a summary of the development road map. We are also discuss the move to Python3 and timeline for dropping Python2.

Linking NCBI to Wikipedia: a wiki-based approach.

PubMed

Page, Roderic D M

2011-03-31

The NCBI Taxonomy underpins many bioinformatics and phyloinformatics databases, but by itself provides limited information on the taxa it contains. One readily available source of information on many taxa is Wikipedia. This paper describes iPhylo Linkout, a Semantic wiki that maps taxa in NCBI's taxonomy database onto corresponding pages in Wikipedia. Storing the mapping in a wiki makes it easy to edit, correct, or otherwise annotate the links between NCBI and Wikipedia. The mapping currently comprises some 53,000 taxa, and is available at http://iphylo.org/linkout. The links between NCBI and Wikipedia are also made available to NCBI users through the NCBI LinkOut service.

Design and implementation of a CORBA-based genome mapping system prototype.

PubMed

Hu, J; Mungall, C; Nicholson, D; Archibald, A L

1998-01-01

CORBA (Common Object Request Broker Architecture), as an open standard, is considered to be a good solution for the development and deployment of applications in distributed heterogeneous environments. This technology can be applied in the bioinformatics area to enhance utilization, management and interoperation between biological resources. This paper investigates issues in developing CORBA applications for genome mapping information systems in the Internet environment with emphasis on database connectivity and graphical user interfaces. The design and implementation of a CORBA prototype for an animal genome mapping database are described. The prototype demonstration is available via: http://www.ri.bbsrc.ac.uk/ark_corba/. jian.hu@bbsrc.ac.uk

GIS applications for military operations in coastal zones

USGS Publications Warehouse

Fleming, S.; Jordan, T.; Madden, M.; Usery, E.L.; Welch, R.

2009-01-01

In order to successfully support current and future US military operations in coastal zones, geospatial information must be rapidly integrated and analyzed to meet ongoing force structure evolution and new mission directives. Coastal zones in a military-operational environment are complex regions that include sea, land and air features that demand high-volume databases of extreme detail within relatively narrow geographic corridors. Static products in the form of analog maps at varying scales traditionally have been used by military commanders and their operational planners. The rapidly changing battlefield of 21st Century warfare, however, demands dynamic mapping solutions. Commercial geographic information system (GIS) software for military-specific applications is now being developed and employed with digital databases to provide customized digital maps of variable scale, content and symbolization tailored to unique demands of military units. Research conducted by the Center for Remote Sensing and Mapping Science at the University of Georgia demonstrated the utility of GIS-based analysis and digital map creation when developing large-scale (1:10,000) products from littoral warfare databases. The methodology employed-selection of data sources (including high resolution commercial images and Lidar), establishment of analysis/modeling parameters, conduct of vehicle mobility analysis, development of models and generation of products (such as a continuous sea-land DEM and geo-visualization of changing shorelines with tidal levels)-is discussed. Based on observations and identified needs from the National Geospatial-Intelligence Agency, formerly the National Imagery and Mapping Agency, and the Department of Defense, prototype GIS models for military operations in sea, land and air environments were created from multiple data sets of a study area at US Marine Corps Base Camp Lejeune, North Carolina. Results of these models, along with methodologies for developing large-scale littoral warfare databases, aid the National Geospatial-Intelligence Agency in meeting littoral warfare analysis, modeling and map generation requirements for US military organizations. ?? 2008 International Society for Photogrammetry and Remote Sensing, Inc. (ISPRS).

GIS applications for military operations in coastal zones

NASA Astrophysics Data System (ADS)

Fleming, S.; Jordan, T.; Madden, M.; Usery, E. L.; Welch, R.

In order to successfully support current and future US military operations in coastal zones, geospatial information must be rapidly integrated and analyzed to meet ongoing force structure evolution and new mission directives. Coastal zones in a military-operational environment are complex regions that include sea, land and air features that demand high-volume databases of extreme detail within relatively narrow geographic corridors. Static products in the form of analog maps at varying scales traditionally have been used by military commanders and their operational planners. The rapidly changing battlefield of 21st Century warfare, however, demands dynamic mapping solutions. Commercial geographic information system (GIS) software for military-specific applications is now being developed and employed with digital databases to provide customized digital maps of variable scale, content and symbolization tailored to unique demands of military units. Research conducted by the Center for Remote Sensing and Mapping Science at the University of Georgia demonstrated the utility of GIS-based analysis and digital map creation when developing large-scale (1:10,000) products from littoral warfare databases. The methodology employed-selection of data sources (including high resolution commercial images and Lidar), establishment of analysis/modeling parameters, conduct of vehicle mobility analysis, development of models and generation of products (such as a continuous sea-land DEM and geo-visualization of changing shorelines with tidal levels)-is discussed. Based on observations and identified needs from the National Geospatial-Intelligence Agency, formerly the National Imagery and Mapping Agency, and the Department of Defense, prototype GIS models for military operations in sea, land and air environments were created from multiple data sets of a study area at US Marine Corps Base Camp Lejeune, North Carolina. Results of these models, along with methodologies for developing large-scale littoral warfare databases, aid the National Geospatial-Intelligence Agency in meeting littoral warfare analysis, modeling and map generation requirements for US military organizations.

TranslatomeDB: a comprehensive database and cloud-based analysis platform for translatome sequencing data.

PubMed

Liu, Wanting; Xiang, Lunping; Zheng, Tingkai; Jin, Jingjie; Zhang, Gong

2018-01-04

Translation is a key regulatory step, linking transcriptome and proteome. Two major methods of translatome investigations are RNC-seq (sequencing of translating mRNA) and Ribo-seq (ribosome profiling). To facilitate the investigation of translation, we built a comprehensive database TranslatomeDB (http://www.translatomedb.net/) which provides collection and integrated analysis of published and user-generated translatome sequencing data. The current version includes 2453 Ribo-seq, 10 RNC-seq and their 1394 corresponding mRNA-seq datasets in 13 species. The database emphasizes the analysis functions in addition to the dataset collections. Differential gene expression (DGE) analysis can be performed between any two datasets of same species and type, both on transcriptome and translatome levels. The translation indices translation ratios, elongation velocity index and translational efficiency can be calculated to quantitatively evaluate translational initiation efficiency and elongation velocity, respectively. All datasets were analyzed using a unified, robust, accurate and experimentally-verifiable pipeline based on the FANSe3 mapping algorithm and edgeR for DGE analyzes. TranslatomeDB also allows users to upload their own datasets and utilize the identical unified pipeline to analyze their data. We believe that our TranslatomeDB is a comprehensive platform and knowledgebase on translatome and proteome research, releasing the biologists from complex searching, analyzing and comparing huge sequencing data without needing local computational power. © The Author(s) 2017. Published by Oxford University Press on behalf of Nucleic Acids Research.

The PyCASSO database: spatially resolved stellar population properties for CALIFA galaxies

NASA Astrophysics Data System (ADS)

de Amorim, A. L.; García-Benito, R.; Cid Fernandes, R.; Cortijo-Ferrero, C.; González Delgado, R. M.; Lacerda, E. A. D.; López Fernández, R.; Pérez, E.; Vale Asari, N.

2017-11-01

The Calar Alto Legacy Integral Field Area (CALIFA) survey, a pioneer in integral field spectroscopy legacy projects, has fostered many studies exploring the information encoded on the spatially resolved data on gaseous and stellar features in the optical range of galaxies. We describe a value-added catalogue of stellar population properties for CALIFA galaxies analysed with the spectral synthesis code starlight and processed with the pycasso platform. Our public database (http://pycasso.ufsc.br/, mirror at http://pycasso.iaa.es/) comprises 445 galaxies from the CALIFA Data Release 3 with COMBO data. The catalogue provides maps for the stellar mass surface density, mean stellar ages and metallicities, stellar dust attenuation, star formation rates, and kinematics. Example applications both for individual galaxies and for statistical studies are presented to illustrate the power of this data set. We revisit and update a few of our own results on mass density radial profiles and on the local mass-metallicity relation. We also show how to employ the catalogue for new investigations, and show a pseudo Schmidt-Kennicutt relation entirely made with information extracted from the stellar continuum. Combinations to other databases are also illustrated. Among other results, we find a very good agreement between star formation rate surface densities derived from the stellar continuum and the H α emission. This public catalogue joins the scientific community's effort towards transparency and reproducibility, and will be useful for researchers focusing on (or complementing their studies with) stellar properties of CALIFA galaxies.

SpaceTime Environmental Image Information for Scene Understanding

DTIC Science & Technology

2016-04-01

public Internet resources such as Google,65 MapQuest,66 Bing,67 and Yahoo Maps.68 Approved for public release; distribution unlimited. 9 Table 3...azimuth angle 3 Terrain and location: USACE AGC — Satellite/aerial imagery and terrain analysis 4 Terrain and location: Google, MapQuest, Bing, Yahoo ...Maps. [accessed 2015 Dec]. https://www.bing.com/maps/. 68. YAHOO ! Maps. [accessed 2015 Dec]. https://maps.yahoo.com/b/. 69. 557th Weather Wing. US

A new catalog of planetary maps

NASA Technical Reports Server (NTRS)

Batson, R. M.; Inge, J. L.

1991-01-01

A single, concise reference to all existing planetary maps, including lunar ones, is being prepared that will allow map users to identify and locate maps of their areas of interest. This will be the first such comprehensive listing of planetary maps. Although the USGS shows index maps on the collar of each map sheet, periodically publishes index maps of Mars, and provides informal listings of the USGS map database, no tabulation exists that identifies all planetary maps, including those published by DMA and other organizations. The catalog will consist of a booklet containing small-scale image maps with superimposed quadrangle boundaries and map data tabulations.

A digital geologic map database for the state of Oklahoma

USGS Publications Warehouse

Heran, William D.; Green, Gregory N.; Stoeser, Douglas B.

2003-01-01

This dataset is a composite of part or all of the 12 1:250,000 scale quadrangles that make up Oklahoma. The result looks like a geologic map of the State of Oklahoma. But it is only an Oklahoma shaped map clipped from the 1:250,000 geologic maps. This is not a new geologic map. No new mapping took place. The geologic information from each quadrangle is available within the composite dataset.

From 20th century metabolic wall charts to 21st century systems biology: database of mammalian metabolic enzymes.

PubMed

Corcoran, Callan C; Grady, Cameron R; Pisitkun, Trairak; Parulekar, Jaya; Knepper, Mark A

2017-03-01

The organization of the mammalian genome into gene subsets corresponding to specific functional classes has provided key tools for systems biology research. Here, we have created a web-accessible resource called the Mammalian Metabolic Enzyme Database ( https://hpcwebapps.cit.nih.gov/ESBL/Database/MetabolicEnzymes/MetabolicEnzymeDatabase.html) keyed to the biochemical reactions represented on iconic metabolic pathway wall charts created in the previous century. Overall, we have mapped 1,647 genes to these pathways, representing ~7 percent of the protein-coding genome. To illustrate the use of the database, we apply it to the area of kidney physiology. In so doing, we have created an additional database ( Database of Metabolic Enzymes in Kidney Tubule Segments: https://hpcwebapps.cit.nih.gov/ESBL/Database/MetabolicEnzymes/), mapping mRNA abundance measurements (mined from RNA-Seq studies) for all metabolic enzymes to each of 14 renal tubule segments. We carry out bioinformatics analysis of the enzyme expression pattern among renal tubule segments and mine various data sources to identify vasopressin-regulated metabolic enzymes in the renal collecting duct. Copyright © 2017 the American Physiological Society.

New database facilitates characterization of flavonoid intake, sources, and positive associations with diet quality among U.S. adults

USDA-ARS?s Scientific Manuscript database

Epidemiologic studies show inverse associations between flavonoid intake and chronic disease risk. However, a lack of comprehensive databases of the flavonoid content of foods has hindered efforts to fully characterize population intake. Using a newly released database of flavonoid values, we soug...

The ASTRAL Compendium in 2004

DOE R&D Accomplishments Database

Chandonia, John-Marc; Hon, Gary; Walker, Nigel S.; Lo Conte, Loredana; Koehl, Patrice; Levitt, Michael; Brenner, Steven E.

2003-09-15

The ASTRAL compendium provides several databases and tools to aid in the analysis of protein structures, particularly through the use of their sequences. Partially derived from the SCOP database of protein structure domains, it includes sequences for each domain and other resources useful for studying these sequences and domain structures. The current release of ASTRAL contains 54,745 domains, more than three times as many as the initial release four years ago. ASTRAL has undergone major transformations in the past two years. In addition to several complete updates each year, ASTRAL is now updated on a weekly basis with preliminary classifications of domains from newly released PDB structures. These classifications are available as a stand-alone database, as well as available integrated into other ASTRAL databases such as representative subsets. To enhance the utility of ASTRAL to structural biologists, all SCOP domains are now made available as PDB-style coordinate files as well as sequences. In addition to sequences and representative subsets based on SCOP domains, sequences and subsets based on PDB chains are newly included in ASTRAL. Several search tools have been added to ASTRAL to facilitate retrieval of data by individual users and automated methods.

Archetype relational mapping - a practical openEHR persistence solution.

PubMed

Wang, Li; Min, Lingtong; Wang, Rui; Lu, Xudong; Duan, Huilong

2015-11-05

One of the primary obstacles to the widespread adoption of openEHR methodology is the lack of practical persistence solutions for future-proof electronic health record (EHR) systems as described by the openEHR specifications. This paper presents an archetype relational mapping (ARM) persistence solution for the archetype-based EHR systems to support healthcare delivery in the clinical environment. First, the data requirements of the EHR systems are analysed and organized into archetype-friendly concepts. The Clinical Knowledge Manager (CKM) is queried for matching archetypes; when necessary, new archetypes are developed to reflect concepts that are not encompassed by existing archetypes. Next, a template is designed for each archetype to apply constraints related to the local EHR context. Finally, a set of rules is designed to map the archetypes to data tables and provide data persistence based on the relational database. A comparison study was conducted to investigate the differences among the conventional database of an EHR system from a tertiary Class A hospital in China, the generated ARM database, and the Node + Path database. Five data-retrieving tests were designed based on clinical workflow to retrieve exams and laboratory tests. Additionally, two patient-searching tests were designed to identify patients who satisfy certain criteria. The ARM database achieved better performance than the conventional database in three of the five data-retrieving tests, but was less efficient in the remaining two tests. The time difference of query executions conducted by the ARM database and the conventional database is less than 130 %. The ARM database was approximately 6-50 times more efficient than the conventional database in the patient-searching tests, while the Node + Path database requires far more time than the other two databases to execute both the data-retrieving and the patient-searching tests. The ARM approach is capable of generating relational databases using archetypes and templates for archetype-based EHR systems, thus successfully adapting to changes in data requirements. ARM performance is similar to that of conventionally-designed EHR systems, and can be applied in a practical clinical environment. System components such as ARM can greatly facilitate the adoption of openEHR architecture within EHR systems.

DBMap: a TreeMap-based framework for data navigation and visualization of brain research registry

NASA Astrophysics Data System (ADS)

Zhang, Ming; Zhang, Hong; Tjandra, Donny; Wong, Stephen T. C.

2003-05-01

The purpose of this study is to investigate and apply a new, intuitive and space-conscious visualization framework to facilitate efficient data presentation and exploration of large-scale data warehouses. We have implemented the DBMap framework for the UCSF Brain Research Registry. Such a novel utility would facilitate medical specialists and clinical researchers in better exploring and evaluating a number of attributes organized in the brain research registry. The current UCSF Brain Research Registry consists of a federation of disease-oriented database modules, including Epilepsy, Brain Tumor, Intracerebral Hemorrphage, and CJD (Creuzfeld-Jacob disease). These database modules organize large volumes of imaging and non-imaging data to support Web-based clinical research. While the data warehouse supports general information retrieval and analysis, there lacks an effective way to visualize and present the voluminous and complex data stored. This study investigates whether the TreeMap algorithm can be adapted to display and navigate categorical biomedical data warehouse or registry. TreeMap is a space constrained graphical representation of large hierarchical data sets, mapped to a matrix of rectangles, whose size and color represent interested database fields. It allows the display of a large amount of numerical and categorical information in limited real estate of computer screen with an intuitive user interface. The paper will describe, DBMap, the proposed new data visualization framework for large biomedical databases. Built upon XML, Java and JDBC technologies, the prototype system includes a set of software modules that reside in the application server tier and provide interface to backend database tier and front-end Web tier of the brain registry.

The UMIST database for astrochemistry 2006

NASA Astrophysics Data System (ADS)

Woodall, J.; Agúndez, M.; Markwick-Kemper, A. J.; Millar, T. J.

2007-05-01

Aims:We present a new version of the UMIST Database for Astrochemistry, the fourth such version to be released to the public. The current version contains some 4573 binary gas-phase reactions, an increase of 10% from the previous (1999) version, among 420 species, of which 23 are new to the database. Methods: Major updates have been made to ion-neutral reactions, neutral-neutral reactions, particularly at low temperature, and dissociative recombination reactions. We have included for the first time the interstellar chemistry of fluorine. In addition to the usual database, we have also released a reaction set in which the effects of dipole-enhanced ion-neutral rate coefficients are included. Results: These two reactions sets have been used in a dark cloud model and the results of these models are presented and discussed briefly. The database and associated software are available on the World Wide Web at www.udfa.net. Tables 1, 2, 4 and 9 are only available in electronic form at http://www.aanda.org

National Solar Radiation Database 1991-2005 Update: User's Manual

DOE Office of Scientific and Technical Information (OSTI.GOV)

Wilcox, S.

2007-04-01

This manual describes how to obtain and interpret the data products from the updated 1991-2005 National Solar Radiation Database (NSRDB). This is an update of the original 1961-1990 NSRDB released in 1992.

A CubeSat Mission for Mapping Spot Beams of Geostationary Communications Satellites

DTIC Science & Technology

2015-03-26

A CUBESAT MISSION FOR MAPPING SPOT BEAMS OF GEOSTATIONARY COMMUNICATIONS SATELLITES THESIS...copyright protection in the United States A CUBESAT MISSION FOR MAPPING SPOT BEAMS OF GEOSTATIONARY COMMUNICATIONS SATELLITES THESIS...PUBLIC RELEASE; DISTRIBUTION UNLIMTED AFIT-ENY-MS-15-M-247 A CUBESAT MISSION FOR MAPPING SPOT BEAMS OF GEOSTATIONARY COMMUNICATIONS

Release of the World Digital Magnetic Anomaly Map version 2 (WDMAM v2) scheduled

NASA Astrophysics Data System (ADS)

Dyment, Jérôme; Lesur, Vincent; Choi, Yujin; Hamoudi, Mohamed; Thébault, Erwan; Catalan, Manuel

2015-04-01

The World Digital Magnetic Anomaly Map is an international initiative carried out under the auspices of the International Association of Geomagnetism and Aeronomy (IAGA) and the Commission for the Geological Map of the World (CGMW). A first version of the map has been published and distributed eight years ago (WDMAM v1; Korhonen et al., 2007). After a call for an improved second version of the map in 2011, the slow process of data compilation, map preparation, evaluation and finalization is near completion, and the WDMAM v2 will be released at the International Union of Geophysics and Geodesy (IUGG) meeting to be held in Prag in June-July 2015. In this presentation we display several shortcomings of the WDMAM v1, both on continental and oceanic areas, that are hopefully alleviated in the WDMAM v2, and discuss the process leading to the new map. We reiterate a long-standing call for aeromagnetic and marine magnetic data contribution, and explore future directions to pursue the effort toward a more complete, higher resolution magnetic anomaly map of the World.

Chapter 4 - The LANDFIRE Prototype Project reference database

Treesearch

John F. Caratti

2006-01-01

This chapter describes the data compilation process for the Landscape Fire and Resource Management Planning Tools Prototype Project (LANDFIRE Prototype Project) reference database (LFRDB) and explains the reference data applications for LANDFIRE Prototype maps and models. The reference database formed the foundation for all LANDFIRE tasks. All products generated by the...

Transport Statistics - Transport - UNECE

Science.gov Websites

Statistics and Data Online Infocards Database SDG Papers E-Road Census Traffic Census Map Traffic Census 2015 available. Two new datasets have been added to the transport statistics database: bus and coach statistics Database Evaluations Follow UNECE Facebook Rss Twitter You tube Contact us Instagram Flickr Google+ Â

[Effects of soil data and map scale on assessment of total phosphorus storage in upland soils.

PubMed

Li, Heng Rong; Zhang, Li Ming; Li, Xiao di; Yu, Dong Sheng; Shi, Xue Zheng; Xing, Shi He; Chen, Han Yue

2016-06-01

Accurate assessment of total phosphorus storage in farmland soils is of great significance to sustainable agricultural and non-point source pollution control. However, previous studies haven't considered the estimation errors from mapping scales and various databases with different sources of soil profile data. In this study, a total of 393×10 4 hm 2 of upland in the 29 counties (or cities) of North Jiangsu was cited as a case for study. Analysis was performed of how the four sources of soil profile data, namely, "Soils of County", "Soils of Prefecture", "Soils of Province" and "Soils of China", and the six scales, i.e. 1:50000, 1:250000, 1:500000, 1:1000000, 1:4000000 and1:10000000, used in the 24 soil databases established for the four soil journals, affected assessment of soil total phosphorus. Compared with the most detailed 1:50000 soil database established with 983 upland soil profiles, relative deviation of the estimates of soil total phosphorus density (STPD) and soil total phosphorus storage (STPS) from the other soil databases varied from 4.8% to 48.9% and from 1.6% to 48.4%, respectively. The estimated STPD and STPS based on the 1:50000 database of "Soils of County" and most of the estimates based on the databases of each scale in "Soils of County" and "Soils of Prefecture" were different, with the significance levels of P＜0.001 or P＜0.05. Extremely significant differences (P＜0.001) existed between the estimates based on the 1:50000 database of "Soils of County" and the estimates based on the databases of each scale in "Soils of Province" and "Soils of China". This study demonstrated the significance of appropriate soil data sources and appropriate mapping scales in estimating STPS.

Helicopter electromagnetic and magnetic geophysical survey data, Swedeburg and Sprague study areas, eastern Nebraska, May 2009

USGS Publications Warehouse

Smith, B.D.; Abraham, J.D.; Cannia, J.C.; Minsley, B.J.; Ball, L.B.; Steele, G.V.; Deszcz-Pan, M.

2011-01-01

This report is a release of digital data from a helicopter electromagnetic and magnetic survey conducted by Fugro Airborne Surveys in areas of eastern Nebraska as part of a joint hydrologic study by the Lower Platte North and Lower Platte South Natural Resources Districts, and the U.S. Geological Survey. The survey flight lines covered 1,418.6 line km (882 line mile). The survey was flown from April 22 to May 2, 2009. The objective of the contracted survey was to improve the understanding of the relation between surface water and groundwater systems critical to developing groundwater models used in management programs for water resources. The electromagnetic equipment consisted of six different coil-pair orientations that measured resistivity at separate frequencies from about 400 hertz to about 140,000 hertz. The electromagnetic data were converted to georeferenced electrical resistivity grids and maps for each frequency that represent different approximate depths of investigation for each survey area. The electrical resistivity data were input into a numerical inversion to estimate resistivity variations with depth. In addition to the electromagnetic data, total field magnetic data and digital elevation data were collected. Data released in this report consist of flight line data, digital grids, digital databases of the inverted electrical resistivity with depth, and digital maps of the apparent resistivity and total magnetic field. The range of subsurface investigation is comparable to the depth of shallow aquifers. The survey areas, Swedeburg and Sprague, were chosen based on results from test flights in 2007 in eastern Nebraska and needs of local water managers. The geophysical and hydrologic information from U.S. Geological Survey studies are being used by resource managers to develop groundwater resource plans for the area.

Pattern-based, multi-scale segmentation and regionalization of EOSD land cover

NASA Astrophysics Data System (ADS)

Niesterowicz, Jacek; Stepinski, Tomasz F.

2017-10-01

The Earth Observation for Sustainable Development of Forests (EOSD) map is a 25 m resolution thematic map of Canadian forests. Because of its large spatial extent and relatively high resolution the EOSD is difficult to analyze using standard GIS methods. In this paper we propose multi-scale segmentation and regionalization of EOSD as new methods for analyzing EOSD on large spatial scales. Segments, which we refer to as forest land units (FLUs), are delineated as tracts of forest characterized by cohesive patterns of EOSD categories; we delineated from 727 to 91,885 FLUs within the spatial extent of EOSD depending on the selected scale of a pattern. Pattern of EOSD's categories within each FLU is described by 1037 landscape metrics. A shapefile containing boundaries of all FLUs together with an attribute table listing landscape metrics make up an SQL-searchable spatial database providing detailed information on composition and pattern of land cover types in Canadian forest. Shapefile format and extensive attribute table pertaining to the entire legend of EOSD are designed to facilitate broad range of investigations in which assessment of composition and pattern of forest over large areas is needed. We calculated four such databases using different spatial scales of pattern. We illustrate the use of FLU database for producing forest regionalization maps of two Canadian provinces, Quebec and Ontario. Such maps capture the broad scale variability of forest at the spatial scale of the entire province. We also demonstrate how FLU database can be used to map variability of landscape metrics, and thus the character of landscape, over the entire Canada.

Preliminary maps of Quaternary deposits and liquefaction susceptibility, nine-county San Francisco Bay region, California: a digital database

USGS Publications Warehouse

Knudsen, Keith L.; Sowers, Janet M.; Witter, Robert C.; Wentworth, Carl M.; Helley, Edward J.; Nicholson, Robert S.; Wright, Heather M.; Brown, Katherine H.

2000-01-01

This report presents a preliminary map and database of Quaternary deposits and liquefaction susceptibility for the nine-county San Francisco Bay region, together with a digital compendium of ground effects associated with past earthquakes in the region. The report consists of (1) a spatial database of fivedata layers (Quaternary deposits, quadrangle index, and three ground effects layers) and two text layers (a labels and leaders layer for Quaternary deposits and for ground effects), (2) two small-scale colored maps (Quaternary deposits and liquefaction susceptibility), (3) a text describing the Quaternary map, liquefaction interpretation, and the ground effects compendium, and (4) the databse description pamphlet. The nine counties surrounding San Francisco Bay straddle the San Andreas fault system, which exposes the region to serious earthquake hazard (Working Group on California Earthquake Probabilities, 1999). Much of the land adjacent to the Bay and the major rivers and streams is underlain by unconsolidated deposits that are particularly vulnerable to earthquake shaking and liquefaction of water-saturated granular sediment. This new map provides a modern and regionally consistent treatment of Quaternary surficial deposits that builds on the pioneering mapping of Helley and Lajoie (Helley and others, 1979) and such intervening work as Atwater (1982), Helley and others (1994), and Helley and Graymer (1997a and b). Like these earlier studies, the current mapping uses geomorphic expression, pedogenic soils, and inferred depositional environments to define and distinguish the map units. In contrast to the twelve map units of Helley and Lajoie, however, this new map uses a complex stratigraphy of some forty units, which permits a more realistic portrayal of the Quaternary depositional system. The two colored maps provide a regional summary of the new mapping at a scale of 1:275,000, a scale that is sufficient to show the general distribution and relationships of the map units but cannot distinguish the more detailed elements that are present in the database. The report is the product of years of cooperative work by the USGS National Earthquake Hazards Reduction Program (NEHRP) and National Cooperative Geologic Mapping Program, William Lettis and & Associates, Inc. (WLA) and, more recently, by the California Division of Mines and Geology as well. An earlier version was submitted to the Geological Survey by WLA as a final report for a NEHRP grant (Knudsen and others, 2000). The mapping has been carried out by WLA geologists under contract to the NEHRP Earthquake Program (Grants #14-08-0001-G2129, 1434-94-G-2499, 1434-HQ-97-GR-03121, and 99-HQ-GR-0095) and with other limited support from the County of Napa, and recently also by the California Division of Mines and Geology. The current map consists of this new mapping and revisions of previous USGS mapping.

Real-time terrain storage generation from multiple sensors towards mobile robot operation interface.

PubMed

Song, Wei; Cho, Seoungjae; Xi, Yulong; Cho, Kyungeun; Um, Kyhyun

2014-01-01

A mobile robot mounted with multiple sensors is used to rapidly collect 3D point clouds and video images so as to allow accurate terrain modeling. In this study, we develop a real-time terrain storage generation and representation system including a nonground point database (PDB), ground mesh database (MDB), and texture database (TDB). A voxel-based flag map is proposed for incrementally registering large-scale point clouds in a terrain model in real time. We quantize the 3D point clouds into 3D grids of the flag map as a comparative table in order to remove the redundant points. We integrate the large-scale 3D point clouds into a nonground PDB and a node-based terrain mesh using the CPU. Subsequently, we program a graphics processing unit (GPU) to generate the TDB by mapping the triangles in the terrain mesh onto the captured video images. Finally, we produce a nonground voxel map and a ground textured mesh as a terrain reconstruction result. Our proposed methods were tested in an outdoor environment. Our results show that the proposed system was able to rapidly generate terrain storage and provide high resolution terrain representation for mobile mapping services and a graphical user interface between remote operators and mobile robots.

Real-Time Terrain Storage Generation from Multiple Sensors towards Mobile Robot Operation Interface

PubMed Central

Cho, Seoungjae; Xi, Yulong; Cho, Kyungeun

2014-01-01

A mobile robot mounted with multiple sensors is used to rapidly collect 3D point clouds and video images so as to allow accurate terrain modeling. In this study, we develop a real-time terrain storage generation and representation system including a nonground point database (PDB), ground mesh database (MDB), and texture database (TDB). A voxel-based flag map is proposed for incrementally registering large-scale point clouds in a terrain model in real time. We quantize the 3D point clouds into 3D grids of the flag map as a comparative table in order to remove the redundant points. We integrate the large-scale 3D point clouds into a nonground PDB and a node-based terrain mesh using the CPU. Subsequently, we program a graphics processing unit (GPU) to generate the TDB by mapping the triangles in the terrain mesh onto the captured video images. Finally, we produce a nonground voxel map and a ground textured mesh as a terrain reconstruction result. Our proposed methods were tested in an outdoor environment. Our results show that the proposed system was able to rapidly generate terrain storage and provide high resolution terrain representation for mobile mapping services and a graphical user interface between remote operators and mobile robots. PMID:25101321

Comparison of ASTER Global Emissivity Database (ASTER-GED) With In-Situ Measurement In Italian Vulcanic Areas

NASA Astrophysics Data System (ADS)

Silvestri, M.; Musacchio, M.; Buongiorno, M. F.; Amici, S.; Piscini, A.

2015-12-01

LP DAAC released the Advanced Spaceborne Thermal Emission and Reflection Radiometer (ASTER) Global Emissivity Database (GED) datasets on April 2, 2014. The database was developed by the National Aeronautics and Space Administration's (NASA) Jet Propulsion Laboratory (JPL), California Institute of Technology. The database includes land surface emissivities derived from ASTER data acquired over the contiguous United States, Africa, Arabian Peninsula, Australia, Europe, and China. In this work we compare ground measurements of emissivity acquired by means of Micro-FTIR (Fourier Thermal Infrared spectrometer) instrument with the ASTER emissivity map extract from ASTER-GED and the emissivity obtained by using single ASTER data. Through this analysis we want to investigate differences existing between the ASTER-GED dataset (average from 2000 to 2008 seasoning independent) and fall in-situ emissivity measurement. Moreover the role of different spatial resolution characterizing ASTER and MODIS, 90mt and 1km respectively, by comparing them with in situ measurements. Possible differences can be due also to the different algorithms used for the emissivity estimation, Temperature and Emissivity Separation algorithm for ASTER TIR band( Gillespie et al, 1998) and the classification-based emissivity method (Snyder and al, 1998) for MODIS. In-situ emissivity measurements have been collected during dedicated fields campaign on Mt. Etna vulcano and Solfatara of Pozzuoli. Gillespie, A. R., Matsunaga, T., Rokugawa, S., & Hook, S. J. (1998). Temperature and emissivity separation from Advanced Spaceborne Thermal Emission and Reflection Radiometer (ASTER) images. IEEE Transactions on Geoscience and Remote Sensing, 36, 1113-1125. Snyder, W.C., Wan, Z., Zhang, Y., & Feng, Y.-Z. (1998). Classification-based emissivity for land surface temperature measurement from space. International Journal of Remote Sensing, 19, 2753-2574.

Geographical Distribution of Woody Biomass Carbon in Tropical Africa: An Updated Database for 2000 (NDP-055.2007, NDP-055b))

DOE Data Explorer

Gibbs, Holly K. [Center for Sustainability and the Global Environment (SAGE), University of Wisconsin, Madison, WI (USA); Brown, Sandra [Winrock International, Arlington, VA (USA); Olsen, L. M. [Carbon Dioxide Information Analysis Center (CDIAC), Oak Ridge National Laboratory, Oak Ridge, TN (USA); Boden, Thomas A. [Carbon Dioxide Information Analysis Center (CDIAC), Oak Ridge National Laboratory, Oak Ridge, TN (USA)

2007-09-01

Maps of biomass density are critical inputs for estimating carbon emissions from deforestation and degradation of tropical forests. Brown and Gatson (1996) pioneered methods to use GIS analysis to map forest biomass based on forest inventory data (ndp055). This database is an update of ndp055 (which represent conditions in circa 1980) and accounts for land cover changes occurring up to the year 2000.

CMD: a Cotton Microsatellite Database resource for Gossypium genomics

PubMed Central

Blenda, Anna; Scheffler, Jodi; Scheffler, Brian; Palmer, Michael; Lacape, Jean-Marc; Yu, John Z; Jesudurai, Christopher; Jung, Sook; Muthukumar, Sriram; Yellambalase, Preetham; Ficklin, Stephen; Staton, Margaret; Eshelman, Robert; Ulloa, Mauricio; Saha, Sukumar; Burr, Ben; Liu, Shaolin; Zhang, Tianzhen; Fang, Deqiu; Pepper, Alan; Kumpatla, Siva; Jacobs, John; Tomkins, Jeff; Cantrell, Roy; Main, Dorrie

2006-01-01

Background The Cotton Microsatellite Database (CMD) is a curated and integrated web-based relational database providing centralized access to publicly available cotton microsatellites, an invaluable resource for basic and applied research in cotton breeding. Description At present CMD contains publication, sequence, primer, mapping and homology data for nine major cotton microsatellite projects, collectively representing 5,484 microsatellites. In addition, CMD displays data for three of the microsatellite projects that have been screened against a panel of core germplasm. The standardized panel consists of 12 diverse genotypes including genetic standards, mapping parents, BAC donors, subgenome representatives, unique breeding lines, exotic introgression sources, and contemporary Upland cottons with significant acreage. A suite of online microsatellite data mining tools are accessible at CMD. These include an SSR server which identifies microsatellites, primers, open reading frames, and GC-content of uploaded sequences; BLAST and FASTA servers providing sequence similarity searches against the existing cotton SSR sequences and primers, a CAP3 server to assemble EST sequences into longer transcripts prior to mining for SSRs, and CMap, a viewer for comparing cotton SSR maps. Conclusion The collection of publicly available cotton SSR markers in a centralized, readily accessible and curated web-enabled database provides a more efficient utilization of microsatellite resources and will help accelerate basic and applied research in molecular breeding and genetic mapping in Gossypium spp. PMID:16737546

Spatial Databases for CalVO Volcanoes: Current Status and Future Directions

NASA Astrophysics Data System (ADS)

Ramsey, D. W.

2013-12-01

The U.S. Geological Survey (USGS) California Volcano Observatory (CalVO) aims to advance scientific understanding of volcanic processes and to lessen harmful impacts of volcanic activity in California and Nevada. Within CalVO's area of responsibility, ten volcanoes or volcanic centers have been identified by a national volcanic threat assessment in support of developing the U.S. National Volcano Early Warning System (NVEWS) as posing moderate, high, or very high threats to surrounding communities based on their recent eruptive histories and their proximity to vulnerable people, property, and infrastructure. To better understand the extent of potential hazards at these and other volcanoes and volcanic centers, the USGS Volcano Science Center (VSC) is continually compiling spatial databases of volcano information, including: geologic mapping, hazards assessment maps, locations of geochemical and geochronological samples, and the distribution of volcanic vents. This digital mapping effort has been ongoing for over 15 years and early databases are being converted to match recent datasets compiled with new data models designed for use in: 1) generating hazard zones, 2) evaluating risk to population and infrastructure, 3) numerical hazard modeling, and 4) display and query on the CalVO as well as other VSC and USGS websites. In these capacities, spatial databases of CalVO volcanoes and their derivative map products provide an integrated and readily accessible framework of VSC hazards science to colleagues, emergency managers, and the general public.

Software Engineering Laboratory (SEL) database organization and user's guide, revision 2

NASA Technical Reports Server (NTRS)

Morusiewicz, Linda; Bristow, John

1992-01-01

The organization of the Software Engineering Laboratory (SEL) database is presented. Included are definitions and detailed descriptions of the database tables and views, the SEL data, and system support data. The mapping from the SEL and system support data to the base table is described. In addition, techniques for accessing the database through the Database Access Manager for the SEL (DAMSEL) system and via the ORACLE structured query language (SQL) are discussed.

Software Engineering Laboratory (SEL) database organization and user's guide

NASA Technical Reports Server (NTRS)

So, Maria; Heller, Gerard; Steinberg, Sandra; Spiegel, Douglas

1989-01-01

The organization of the Software Engineering Laboratory (SEL) database is presented. Included are definitions and detailed descriptions of the database tables and views, the SEL data, and system support data. The mapping from the SEL and system support data to the base tables is described. In addition, techniques for accessing the database, through the Database Access Manager for the SEL (DAMSEL) system and via the ORACLE structured query language (SQL), are discussed.

SkyMapper Southern Survey: First Data Release (DR1)

NASA Astrophysics Data System (ADS)

Wolf, Christian; Onken, Christopher A.; Luvaul, Lance C.; Schmidt, Brian P.; Bessell, Michael S.; Chang, Seo-Won; Da Costa, Gary S.; Mackey, Dougal; Martin-Jones, Tony; Murphy, Simon J.; Preston, Tim; Scalzo, Richard A.; Shao, Li; Smillie, Jon; Tisserand, Patrick; White, Marc C.; Yuan, Fang

2018-02-01

We present the first data release of the SkyMapper Southern Survey, a hemispheric survey carried out with the SkyMapper Telescope at Siding Spring Observatory in Australia. Here, we present the survey strategy, data processing, catalogue construction, and database schema. The first data release dataset includes over 66 000 images from the Shallow Survey component, covering an area of 17 200 deg2 in all six SkyMapper passbands uvgriz, while the full area covered by any passband exceeds 20 000 deg2. The catalogues contain over 285 million unique astrophysical objects, complete to roughly 18 mag in all bands. We compare our griz point-source photometry with Pan-STARRS1 first data release and note an RMS scatter of 2%. The internal reproducibility of SkyMapper photometry is on the order of 1%. Astrometric precision is better than 0.2 arcsec based on comparison with Gaia first data release. We describe the end-user database, through which data are presented to the world community, and provide some illustrative science queries.

Geologic map of the Patagonia Mountains, Santa Cruz County, Arizona

USGS Publications Warehouse

Graybeal, Frederick T.; Moyer, Lorre A.; Vikre, Peter; Dunlap, Pamela; Wallis, John C.

2015-01-01

Several spatial databases provide data for the geologic map of the Patagonia Mountains in Arizona. The data can be viewed and queried in ArcGIS 10, a geographic information system; a geologic map is also available in PDF format. All products are available online only.

Digital Geological Mapping for Earth Science Students

NASA Astrophysics Data System (ADS)

England, Richard; Smith, Sally; Tate, Nick; Jordan, Colm

2010-05-01

This SPLINT (SPatial Literacy IN Teaching) supported project is developing pedagogies for the introduction of teaching of digital geological mapping to Earth Science students. Traditionally students are taught to make geological maps on a paper basemap with a notebook to record their observations. Learning to use a tablet pc with GIS based software for mapping and data recording requires emphasis on training staff and students in specific GIS and IT skills and beneficial adjustments to the way in which geological data is recorded in the field. A set of learning and teaching materials are under development to support this learning process. Following the release of the British Geological Survey's Sigma software we have been developing generic methodologies for the introduction of digital geological mapping to students that already have experience of mapping by traditional means. The teaching materials introduce the software to the students through a series of structured exercises. The students learn the operation of the software in the laboratory by entering existing observations, preferably data that they have collected. Through this the students benefit from being able to reflect on their previous work, consider how it might be improved and plan new work. Following this they begin fieldwork in small groups using both methods simultaneously. They are able to practise what they have learnt in the classroom and review the differences, advantages and disadvantages of the two methods, while adding to the work that has already been completed. Once the field exercises are completed students use the data that they have collected in the production of high quality map products and are introduced to the use of integrated digital databases which they learn to search and extract information from. The relatively recent development of the technologies which underpin digital mapping also means that many academic staff also require training before they are able to deliver the course materials. Consequently, a set of staff training materials are being developed in parallel to those for the students. These focus on the operation of the software and an introduction to the structure of the exercises. The presentation will review the teaching exercises and student and staff responses to their introduction.

The Hazard Notification System (HANS)

NASA Astrophysics Data System (ADS)

Snedigar, S. F.; Venezky, D. Y.

2009-12-01

The Volcano Hazards Program (VHP) has developed a Hazard Notification System (HANS) for distributing volcanic activity information collected by scientists to airlines, emergency services, and the general public. In the past year, data from HANS have been used by airlines to make decisions about diverting or canceling flights during the eruption of Mount Redoubt. HANS was developed to provide a single system that each of the five U.S. volcano observatories could use for communicating and storing volcanic information about the 160+ potentially active U.S. volcanoes. The data that cover ten tables and nearly 100 fields are now stored in similar formats, and the information can be released in styles requested by our agency partners, such as the International Civil Aviation Organization (ICAO). Currently, HANS has about 4500 reports stored; on average, two - three reports are added daily. HANS (at its most basic form) consists of a user interface for entering data into one of many release types (Daily Status Reports, Weekly Updates, Volcano Activity Notifications, etc.); a database holding previous releases as well as observatory information such as email address lists and volcano boilerplates; and a transmission system for formatting releases and sending them out by email or other web related system. The user interface to HANS is completely web based, providing access to our observatory scientists from any online PC. The underlying database stores the observatory information and drives the observatory and program websites' dynamic updates and archived information releases. HANS also runs scripts for generating several different feeds including the program home page Volcano Status Map. Each observatory has the capability of running an instance of HANS. There are currently three instances of HANS and each instance is synchronized to all other instances using a master-slave environment. Information can be entered on any node; slave nodes transmit data to the master node, and the master retransmits that data to all slave nodes. All data transfer between instances uses the Simple Object Access Protocol (SOAP) as the envelope in which data are transmitted between nodes. The HANS data synchronization not only works as a backup feature, but also acts as a simple fault-tolerant system. Information from any observatory can be entered on any instance, and still be transmitted to the specified observatory's distribution list, which provides added flexibility if there is a disruption in access from an area that needs to send an update. Additionally, having the same information available on our multiple websites is necessary for communicating our scientists' most up-to-date information.

The Protein Disease Database of human body fluids: II. Computer methods and data issues.

PubMed

Lemkin, P F; Orr, G A; Goldstein, M P; Creed, G J; Myrick, J E; Merril, C R

1995-01-01

The Protein Disease Database (PDD) is a relational database of proteins and diseases. With this database it is possible to screen for quantitative protein abnormalities associated with disease states. These quantitative relationships use data drawn from the peer-reviewed biomedical literature. Assays may also include those observed in high-resolution electrophoretic gels that offer the potential to quantitate many proteins in a single test as well as data gathered by enzymatic or immunologic assays. We are using the Internet World Wide Web (WWW) and the Web browser paradigm as an access method for wide distribution and querying of the Protein Disease Database. The WWW hypertext transfer protocol and its Common Gateway Interface make it possible to build powerful graphical user interfaces that can support easy-to-use data retrieval using query specification forms or images. The details of these interactions are totally transparent to the users of these forms. Using a client-server SQL relational database, user query access, initial data entry and database maintenance are all performed over the Internet with a Web browser. We discuss the underlying design issues, mapping mechanisms and assumptions that we used in constructing the system, data entry, access to the database server, security, and synthesis of derived two-dimensional gel image maps and hypertext documents resulting from SQL database searches.

Levelling and merging of two discrete national-scale geochemical databases: A case study showing the surficial expression of metalliferous black shales

USGS Publications Warehouse

Smith, Steven M.; Neilson, Ryan T.; Giles, Stuart A.

2015-01-01

Government-sponsored, national-scale, soil and sediment geochemical databases are used to estimate regional and local background concentrations for environmental issues, identify possible anthropogenic contamination, estimate mineral endowment, explore for new mineral deposits, evaluate nutrient levels for agriculture, and establish concentration relationships with human or animal health. Because of these different uses, it is difficult for any single database to accommodate all the needs of each client. Smith et al. (2013, p. 168) reviewed six national-scale soil and sediment geochemical databases for the United States (U.S.) and, for each, evaluated “its appropriateness as a national-scale geochemical database and its usefulness for national-scale geochemical mapping.” Each of the evaluated databases has strengths and weaknesses that were listed in that review.Two of these U.S. national-scale geochemical databases are similar in their sample media and collection protocols but have different strengths—primarily sampling density and analytical consistency. This project was implemented to determine whether those databases could be merged to produce a combined dataset that could be used for mineral resource assessments. The utility of the merged database was tested to see whether mapped distributions could identify metalliferous black shales at a national scale.

Development of an aquatic pathogen database (AquaPathogen X) and its utilization in tracking emerging fish virus pathogens in North America

USGS Publications Warehouse

Emmenegger, E.J.; Kentop, E.; Thompson, T.M.; Pittam, S.; Ryan, A.; Keon, D.; Carlino, J.A.; Ranson, J.; Life, R.B.; Troyer, R.M.; Garver, K.A.; Kurath, G.

2011-01-01

The AquaPathogen X database is a template for recording information on individual isolates of aquatic pathogens and is freely available for download (http://wfrc.usgs.gov). This database can accommodate the nucleotide sequence data generated in molecular epidemiological studies along with the myriad of abiotic and biotic traits associated with isolates of various pathogens (e.g. viruses, parasites and bacteria) from multiple aquatic animal host species (e.g. fish, shellfish and shrimp). The cataloguing of isolates from different aquatic pathogens simultaneously is a unique feature to the AquaPathogen X database, which can be used in surveillance of emerging aquatic animal diseases and elucidation of key risk factors associated with pathogen incursions into new water systems. An application of the template database that stores the epidemiological profiles of fish virus isolates, called Fish ViroTrak, was also developed. Exported records for two aquatic rhabdovirus species emerging in North America were used in the implementation of two separate web-accessible databases: the Molecular Epidemiology of Aquatic Pathogens infectious haematopoietic necrosis virus (MEAP-IHNV) database (http://gis.nacse.org/ihnv/) released in 2006 and the MEAP- viral haemorrhagic septicaemia virus (http://gis.nacse.org/vhsv/) database released in 2010.

Acoustic mapping of shallow water gas releases using shipborne multibeam systems

NASA Astrophysics Data System (ADS)

Urban, Peter; Köser, Kevin; Weiß, Tim; Greinert, Jens

2015-04-01

Water column imaging (WCI) shipborne multibeam systems are effective tools for investigating marine free gas (bubble) release. Like single- and splitbeam systems they are very sensitive towards gas bubbles in the water column, and have the advantage of the wide swath opening angle, 120° or more allowing a better mapping and possible 3D investigations of targets in the water column. On the downside, WCI data are degraded by specific noise from side-lobe effects and are usually not calibrated for target backscattering strength analysis. Most approaches so far concentrated on manual investigations of bubbles in the water column data. Such investigations allow the detection of bubble streams (flares) and make it possible to get an impression about the strength of detected flares/the gas release. Because of the subjective character of these investigations it is difficult to understand how well an area has been investigated by a flare mapping survey and subjective impressions about flare strength can easily be fooled by the many acoustic effects multibeam systems create. Here we present a semi-automated approach that uses the behavior of bubble streams in varying water currents to detect and map their exact source positions. The focus of the method is application of objective rules for flare detection, which makes it possible to extract information about the quality of the seepage mapping survey, perform automated noise reduction and create acoustic maps with quality discriminators indicating how well an area has been mapped.

Deciphering the evolution of the last Eurasian ice sheets

NASA Astrophysics Data System (ADS)

Hughes, Anna; Gyllencreutz, Richard; Mangerud, Jan; Svendsen, John Inge

2016-04-01

Glacial geologists need ice sheet-scale chronological reconstructions of former ice extent to set individual records in a wider context and compare interpretations of ice sheet response to records of past environmental changes. Ice sheet modellers require empirical reconstructions on size and volume of past ice sheets that are fully documented, specified in time and include uncertainty estimates for model validation or constraints. Motivated by these demands, in 2005 we started a project (Database of the Eurasian Deglaciation, DATED) to compile and archive all published dates relevant to constraining the build-up and retreat of the last Eurasian ice sheets, including the British-Irish, Scandinavian and Svalbard-Barents-Kara Seas ice sheets (BIIS, SIS and SBKIS respectively). Over 5000 dates were assessed for reliability and used together with published ice-sheet margin positions to reconstruct time-slice maps of the ice sheets' extent, with uncertainty bounds, every 1000 years between 25-10 kyr ago and at four additional periods back to 40 kyr ago. Ten years after the idea for a database was conceived, the first version of results (DATED-1) has now been released (Hughes et al. 2016). We observe that: i) both the BIIS and SBKIS achieve maximum extent, and commence retreat earlier than the larger SIS; ii) the eastern terrestrial margin of the SIS reached its maximum extent up to 7000 years later than the westernmost marine margin; iii) the combined maximum ice volume (~24 m sea-level equivalent) was reached c. 21 ka; iv) large uncertainties exist; predominantly across marine sectors (e.g. the timing of coalescence and separation of the SIS and BKIS) but also in well-studied areas due to conflicting yet equally robust data. In just three years since the DATED-1 census (1 January 2013), the volume of new information (from both dates and mapped glacial geomorphology) has grown significantly (~1000 new dates). Here, we present the DATED-1 results in the context of the climatic changes of the last glacial, discuss the implications of emerging post-census data, and describe plans for the next version of the database, DATED-2. Hughes, A. L. C., Gyllencreutz, R., Lohne, Ø. S., Mangerud, J., Svendsen, J. I. 2016: The last Eurasian ice sheets - a chronological database and time-slice reconstruction, DATED-1. Boreas, 45, 1-45. 10.1111/bor.12142

Engineering With Nature Geographic Project Mapping Tool (EWN ProMap)

DTIC Science & Technology

2015-07-01

EWN ProMap database provides numerous case studies for infrastructure projects such as breakwaters, river engineering dikes, and seawalls that have...the EWN Project Mapping Tool (EWN ProMap) is to assist users in their search for case study information that can be valuable for developing EWN ideas...Essential elements of EWN include: (1) using science and engineering to produce operational efficiencies supporting sustainable delivery of

The Alaska Volcano Observatory Website a Tool for Information Management and Dissemination

NASA Astrophysics Data System (ADS)

Snedigar, S. F.; Cameron, C. E.; Nye, C. J.

2006-12-01

The Alaska Volcano Observatory's (AVO's) website served as a primary information management tool during the 2006 eruption of Augustine Volcano. The AVO website is dynamically generated from a database back- end. This system enabled AVO to quickly and easily update the website, and provide content based on user- queries to the database. During the Augustine eruption, the new AVO website was heavily used by members of the public (up to 19 million hits per day), and this was largely because the AVO public pages were an excellent source of up-to-date information. There are two different, yet fully integrated parts of the website. An external, public site (www.avo.alaska.edu) allows the general public to track eruptive activity by viewing the latest photographs, webcam images, webicorder graphs, and official information releases about activity at the volcano, as well as maps, previous eruption information, bibliographies, and rich information about other Alaska volcanoes. The internal half of the website hosts diverse geophysical and geological data (as browse images) in a format equally accessible by AVO staff in different locations. In addition, an observation log allows users to enter information about anything from satellite passes to seismic activity to ash fall reports into a searchable database. The individual(s) on duty at the watch office use forms on the internal website to post a summary of the latest activity directly to the public website, ensuring that the public website is always up to date. The internal website also serves as a starting point for monitoring Alaska's volcanoes. AVO's extensive image database allows AVO personnel to upload many photos, diagrams, and videos which are then available to be browsed by anyone in the AVO community. Selected images are viewable from the public page. The primary webserver is housed at the University of Alaska Fairbanks, and holds a MySQL database with over 200 tables and several thousand lines of php code gluing the database and website together. The database currently holds 95 GB of data. Webcam images and webicorder graphs are pulled from servers in Anchorage every few minutes. Other servers in Fairbanks generate earthquake location plots and spectrograms.

Using a spatial and tabular database to generate statistics from terrain and spectral data for soil surveys

USGS Publications Warehouse

Horvath , E.A.; Fosnight, E.A.; Klingebiel, A.A.; Moore, D.G.; Stone, J.E.; Reybold, W.U.; Petersen, G.W.

1987-01-01

A methodology has been developed to create a spatial database by referencing digital elevation, Landsat multispectral scanner data, and digitized soil premap delineations of a number of adjacent 7.5-min quadrangle areas to a 30-m Universal Transverse Mercator projection. Slope and aspect transformations are calculated from elevation data and grouped according to field office specifications. An unsupervised classification is performed on a brightness and greenness transformation of the spectral data. The resulting spectral, slope, and aspect maps of each of the 7.5-min quadrangle areas are then plotted and submitted to the field office to be incorporated into the soil premapping stages of a soil survey. A tabular database is created from spatial data by generating descriptive statistics for each data layer within each soil premap delineation. The tabular data base is then entered into a data base management system to be accessed by the field office personnel during the soil survey and to be used for subsequent resource management decisions.Large amounts of data are collected and archived during resource inventories for public land management. Often these data are stored as stacks of maps or folders in a file system in someone's office, with the maps in a variety of formats, scales, and with various standards of accuracy depending on their purpose. This system of information storage and retrieval is cumbersome at best when several categories of information are needed simultaneously for analysis or as input to resource management models. Computers now provide the resource scientist with the opportunity to design increasingly complex models that require even more categories of resource-related information, thus compounding the problem.Recently there has been much emphasis on the use of geographic information systems (GIS) as an alternative method for map data archives and as a resource management tool. Considerable effort has been devoted to the generation of tabular databases, such as the U.S. Department of Agriculture's SCS/S015 (Soil Survey Staff, 1983), to archive the large amounts of information that are collected in conjunction with mapping of natural resources in an easily retrievable manner.During the past 4 years the U.S. Geological Survey's EROS Data Center, in a cooperative effort with the Bureau of Land Management (BLM) and the Soil Conservation Service (SCS), developed a procedure that uses spatial and tabular databases to generate elevation, slope, aspect, and spectral map products that can be used during soil premapping. The procedure results in tabular data, residing in a database management system, that are indexed to the final soil delineations and help quantify soil map unit composition.The procedure was developed and tested on soil surveys on over 600 000 ha in Wyoming, Nevada, and Idaho. A transfer of technology from the EROS Data Center to the BLM will enable the Denver BLM Service Center to use this procedure in soil survey operations on BLM lands. Also underway is a cooperative effort between the EROS Data Center and SCS to define and evaluate maps that can be produced as derivatives of digital elevation data for 7.5-min quadrangle areas, such as those used during the premapping stage of the soil surveys mentioned above, the idea being to make such products routinely available.The procedure emphasizes the applications of digital elevation and spectral data to order-three soil surveys on rangelands, and will:Incorporate digital terrain and spectral data into a spatial database for soil surveys.Provide hardcopy products (that can be generated from digital elevation model and spectral data) that are useful during the soil pre-mapping process.Incorporate soil premaps into a spatial database that can be accessed during the soil survey process along with terrain and spectral data.Summarize useful quantitative information for soil mapping and for making interpretations for resource management.

Analysis of national and regional landslide inventories in Europe

NASA Astrophysics Data System (ADS)

Hervás, J.; Van Den Eeckhaut, M.

2012-04-01

A landslide inventory can be defined as a detailed register of the distribution and characteristics of past landslides in an area. Today most landslide inventories have the form of digital databases including landslide distribution maps and associated alphanumeric information for each landslide. While landslide inventories are of the utmost importance for land use planning and risk management through the generation of landslide zonation (susceptibility, hazard and risk) maps, landslide databases are thought to greatly differ from one country to another and often also within the same country. This hampers the generation of comparable, harmonised landslide zonation maps at national and continental scales, which is needed for policy and decision making at EU level as regarded for instance in the INSPIRE Directive and the Thematic Strategy for Soil Protection. In order to have a clear understanding of the landslide inventories available in Europe and their potential to produce landslide zonation maps as well as to draw recommendations to improve harmonisation and interoperability between landslide databases, we have surveyed 37 countries. In total, information has been collected and analysed for 24 national databases in 22 countries (Albania, Andorra, Austria, Bosnia and Herzegovina, Bulgaria, Czech Republic, Former Yugoslav Republic of Macedonia, France, Greece, Hungary, Iceland, Ireland, Italy, Norway, Poland, Portugal, Slovakia, Slovenia, Spain, Sweden, Switzerland and UK) and 22 regional databases in 10 countries. At the moment, over 633,000 landslides are recorded in national databases, representing on average less than 50% of the estimated landslides occurred in these countries. The sample of regional databases included over 103,000 landslides, with an estimated completeness substantially higher than that of national databases, as more attention can be paid for data collection over smaller regions. Yet, both for national and regional coverage, the data collection methods only occasionally included advanced technologies such as remote sensing. With regard to the inventory maps of most databases, the analysis illustrates the high variability of scales (between 1:10 000 and 1:1 M for national inventories, and from 1:10 000 to 1:25 000 for regional inventories), landslide classification systems and representation symbology. It also shows the difficulties to precisely locate landslides referred to in historical documents only. In addition, information on landslide magnitude, geometrical characteristics and age reported in national and regional databases greatly differs, even within the same database, as it strongly depends on the objectives of the database, the data collection methods used, the resources employed and the remaining landslide expression. In particular, landslide initiation and/or reactivation dates are generally estimated in less than 25% of records, thus making hazard and hence risk assessment difficult. In most databases, scarce information on landslide impact (damage and casualties) further hinders risk assessment at regional and national scales. Estimated landslide activity, which is very relevant to early warning and emergency management, is only included in half of the national databases and restricted to part of the landslides registered. Moreover, the availability of this information is not substantially higher in regional databases than in national ones. Most landslide databases further included information on geo-environmental characteristics at the landslide site, which is very important for modelling landslide zoning. Although a number of national and regional agencies provide free web-GIS visualisation services, the potential of existing landslide databases is often not fully exploited as, in many cases, access by the general public and external researchers is restricted. Additionally, the availability of information only in the national or local language is common to most national and regional databases, thus hampering consultation for most foreigners. Finally, some suggestions for a minimum set of attributes to be collected and made available by European countries for building up a continental landslide database in support of EU policies are presented. This study has been conducted in the framework of the EU-FP7 project SafeLand (Grant Agreement 22647).

Extending GIS Technology to Study Karst Features of Southeastern Minnesota

NASA Astrophysics Data System (ADS)

Gao, Y.; Tipping, R. G.; Alexander, E. C.; Alexander, S. C.

2001-12-01

This paper summarizes ongoing research on karst feature distribution of southeastern Minnesota. The main goals of this interdisciplinary research are: 1) to look for large-scale patterns in the rate and distribution of sinkhole development; 2) to conduct statistical tests of hypotheses about the formation of sinkholes; 3) to create management tools for land-use managers and planners; and 4) to deliver geomorphic and hydrogeologic criteria for making scientifically valid land-use policies and ethical decisions in karst areas of southeastern Minnesota. Existing county and sub-county karst feature datasets of southeastern Minnesota have been assembled into a large GIS-based database capable of analyzing the entire data set. The central database management system (DBMS) is a relational GIS-based system interacting with three modules: GIS, statistical and hydrogeologic modules. ArcInfo and ArcView were used to generate a series of 2D and 3D maps depicting karst feature distributions in southeastern Minnesota. IRIS ExplorerTM was used to produce satisfying 3D maps and animations using data exported from GIS-based database. Nearest-neighbor analysis has been used to test sinkhole distributions in different topographic and geologic settings. All current nearest-neighbor analyses testify that sinkholes in southeastern Minnesota are not evenly distributed in this area (i.e., they tend to be clustered). More detailed statistical methods such as cluster analysis, histograms, probability estimation, correlation and regression have been used to study the spatial distributions of some mapped karst features of southeastern Minnesota. A sinkhole probability map for Goodhue County has been constructed based on sinkhole distribution, bedrock geology, depth to bedrock, GIS buffer analysis and nearest-neighbor analysis. A series of karst features for Winona County including sinkholes, springs, seeps, stream sinks and outcrop has been mapped and entered into the Karst Feature Database of Southeastern Minnesota. The Karst Feature Database of Winona County is being expanded to include all the mapped karst features of southeastern Minnesota. Air photos from 1930s to 1990s of Spring Valley Cavern Area in Fillmore County were scanned and geo-referenced into our GIS system. This technology has been proved to be very useful to identify sinkholes and study the rate of sinkhole development.

Mapping small molecule binding data to structural domains

PubMed Central

2012-01-01

Background Large-scale bioactivity/SAR Open Data has recently become available, and this has allowed new analyses and approaches to be developed to help address the productivity and translational gaps of current drug discovery. One of the current limitations of these data is the relative sparsity of reported interactions per protein target, and complexities in establishing clear relationships between bioactivity and targets using bioinformatics tools. We detail in this paper the indexing of targets by the structural domains that bind (or are likely to bind) the ligand within a full-length protein. Specifically, we present a simple heuristic to map small molecule binding to Pfam domains. This profiling can be applied to all proteins within a genome to give some indications of the potential pharmacological modulation and regulation of all proteins. Results In this implementation of our heuristic, ligand binding to protein targets from the ChEMBL database was mapped to structural domains as defined by profiles contained within the Pfam-A database. Our mapping suggests that the majority of assay targets within the current version of the ChEMBL database bind ligands through a small number of highly prevalent domains, and conversely the majority of Pfam domains sampled by our data play no currently established role in ligand binding. Validation studies, carried out firstly against Uniprot entries with expert binding-site annotation and secondly against entries in the wwPDB repository of crystallographic protein structures, demonstrate that our simple heuristic maps ligand binding to the correct domain in about 90 percent of all assessed cases. Using the mappings obtained with our heuristic, we have assembled ligand sets associated with each Pfam domain. Conclusions Small molecule binding has been mapped to Pfam-A domains of protein targets in the ChEMBL bioactivity database. The result of this mapping is an enriched annotation of small molecule bioactivity data and a grouping of activity classes following the Pfam-A specifications of protein domains. This is valuable for data-focused approaches in drug discovery, for example when extrapolating potential targets of a small molecule with known activity against one or few targets, or in the assessment of a potential target for drug discovery or screening studies. PMID:23282026

Where can cone penetrometer technology be applied? Development of a map of Europe regarding the soil penetrability.

PubMed

Fleischer, Matthias; van Ree, Derk; Leven, Carsten

2014-01-01

Over the past decades, significant efforts have been invested in the development of push-in technology for site characterization and monitoring for geotechnical and environmental purposes and have especially been undertaken in the Netherlands and Germany. These technologies provide the opportunity for faster, cheaper, and collection of more reliable subsurface data. However, to maximize the technology both from a development and implementation point of view, it is necessary to have an overview of the areas suitable for the application of this type of technology. Such an overview is missing and cannot simply be read from existing maps and material. This paper describes the development of a map showing the feasibility or applicability of Direct Push/Cone Penetrometer Technology (DPT/CPT) in Europe which depends on the subsurface and its extremely varying properties throughout Europe. Subsurface penetrability is dependent on a range of factors that have not been mapped directly or can easily be inferred from existing databases, especially the maximum depth reachable would be of interest. Among others, it mainly depends on the geology, the soil mechanical properties, the type of equipment used as well as soil-forming processes. This study starts by looking at different geological databases available at the European scale. Next, a scheme has been developed linking geological properties mapped to geotechnical properties to determine basic penetrability categories. From this, a map of soil penetrability is developed and presented. Validating the output by performing field tests was beyond the scope of this study, but for the country of the Netherlands, this map has been compared against a database containing actual cone penetrometer depth data to look for possible contradictory results that would negate the approach. The map for the largest part of Europe clearly shows that there is a much wider potential for the application of Direct Push Technology than is currently seen. The study also shows that there is a lack of large-scale databases that contain depth-resolved data as well as soil mechanical and physical properties that can be used for engineering purposes in relation to the subsurface.

Release of the gPhoton Database of GALEX Photon Events

NASA Astrophysics Data System (ADS)

Fleming, Scott W.; Million, Chase; Shiao, Bernie; Tucker, Michael; Loyd, R. O. Parke

2016-01-01

The GALEX spacecraft surveyed much of the sky in two ultraviolet bands between 2003 and 2013 with non-integrating microchannel plate detectors. The Mikulski Archive for Space Telescopes (MAST) has made more than one trillion photon events observed by the spacecraft available, stored as a 130 TB database, along with an open-source, python-based software package to query this database and create calibrated lightcurves or images from these data at user-defined spatial and temporal scales. In particular, MAST users can now conduct photometry at the intra-visit level (timescales of seconds and minutes). The software, along with the fully populated database, was officially released in Aug. 2015, and improvements to both software functionality and data calibration are ongoing. We summarize the current calibration status of the gPhoton software, along with examples of early science enabled by gPhoton that include stellar flares, AGN, white dwarfs, exoplanet hosts, novae, and nearby galaxies.

Some thoughts on cartographic and geographic information systems for the 1980's

USGS Publications Warehouse

Starr, L.E.; Anderson, Kirk E.

1981-01-01

The U.S. Geological Survey is adopting computer techniques to meet the expanding need for cartographic base category data. Digital methods are becoming increasingly important in the mapmaking process, and the demand is growing for physical, social, and economic data. Recognizing these emerging needs, the National Mapping Division began, several years ago, an active program to develop advanced digital methods to support cartographic and geographic data processing. An integrated digital cartographic database would meet the anticipated needs. Such a database would contain data from various sources, and could provide a variety of standard and customized map and digital data file products. This cartographic database soon will be technologically feasible. The present trends in the economics of cartographic and geographic data handling and the growing needs for integrated physical, social, and economic data make such a database virtually mandatory.

BioBarcode: a general DNA barcoding database and server platform for Asian biodiversity resources.

PubMed

Lim, Jeongheui; Kim, Sang-Yoon; Kim, Sungmin; Eo, Hae-Seok; Kim, Chang-Bae; Paek, Woon Kee; Kim, Won; Bhak, Jong

2009-12-03

DNA barcoding provides a rapid, accurate, and standardized method for species-level identification using short DNA sequences. Such a standardized identification method is useful for mapping all the species on Earth, particularly when DNA sequencing technology is cheaply available. There are many nations in Asia with many biodiversity resources that need to be mapped and registered in databases. We have built a general DNA barcode data processing system, BioBarcode, with open source software - which is a general purpose database and server. It uses mySQL RDBMS 5.0, BLAST2, and Apache httpd server. An exemplary database of BioBarcode has around 11,300 specimen entries (including GenBank data) and registers the biological species to map their genetic relationships. The BioBarcode database contains a chromatogram viewer which improves the performance in DNA sequence analyses. Asia has a very high degree of biodiversity and the BioBarcode database server system aims to provide an efficient bioinformatics protocol that can be freely used by Asian researchers and research organizations interested in DNA barcoding. The BioBarcode promotes the rapid acquisition of biological species DNA sequence data that meet global standards by providing specialized services, and provides useful tools that will make barcoding cheaper and faster in the biodiversity community such as standardization, depository, management, and analysis of DNA barcode data. The system can be downloaded upon request, and an exemplary server has been constructed with which to build an Asian biodiversity system http://www.asianbarcode.org.

Effective Use of Java Data Objects in Developing Database Applications; Advantages and Disadvantages

DTIC Science & Technology

2004-06-01

DATA OBJECTS IN DEVELOPING DATABASE APPLICATIONS. ADVANTAGES AND DISADVANTAGES Paschalis Zilidis June 2004 Thesis Advisor: Thomas...Objects in Developing Database Applications. Advantages and Disadvantages 6. AUTHOR(S) Paschalis ZILIDIS 5. FUNDING NUMBERS 7. PERFORMING...database for the backend datastore. The major disadvantage of this approach is the well-known “impedance mismatch” in which some form of mapping is

GIS Database and Google Map of the Population at Risk of Cholangiocarcinoma in Mueang Yang District, Nakhon Ratchasima Province of Thailand.

PubMed

Kaewpitoon, Soraya J; Rujirakul, Ratana; Joosiri, Apinya; Jantakate, Sirinun; Sangkudloa, Amnat; Kaewthani, Sarochinee; Chimplee, Kanokporn; Khemplila, Kritsakorn; Kaewpitoon, Natthawut

2016-01-01

Cholangiocarcinoma (CCA) is a serious problem in Thailand, particularly in the northeastern and northern regions. Database of population at risk are need required for monitoring, surveillance, home health care, and home visit. Therefore, this study aimed to develop a geographic information system (GIS) database and Google map of the population at risk of CCA in Mueang Yang district, Nakhon Ratchasima province, northeastern Thailand during June to October 2015. Populations at risk were screened using the Korat CCA verbal screening test (KCVST). Software included Microsoft Excel, ArcGIS, and Google Maps. The secondary data included the point of villages, sub-district boundaries, district boundaries, point of hospital in Mueang Yang district, used for created the spatial databese. The populations at risk for CCA and opisthorchiasis were used to create an arttribute database. Data were tranfered to WGS84 UTM ZONE 48. After the conversion, all of the data were imported into Google Earth using online web pages www.earthpoint.us. Some 222 from a 4,800 population at risk for CCA constituted a high risk group. Geo-visual display available at following www.google.com/maps/d/u/0/ edit?mid=zPxtcHv_iDLo.kvPpxl5mAs90 and hl=th. Geo-visual display 5 layers including: layer 1, village location and number of the population at risk for CCA; layer 2, sub-district health promotion hospital in Mueang Yang district and number of opisthorchiasis; layer 3, sub-district district and the number of population at risk for CCA; layer 4, district hospital and the number of population at risk for CCA and number of opisthorchiasis; and layer 5, district and the number of population at risk for CCA and number of opisthorchiasis. This GIS database and Google map production process is suitable for further monitoring, surveillance, and home health care for CCA sufferers.

ReMatch: a web-based tool to construct, store and share stoichiometric metabolic models with carbon maps for metabolic flux analysis.

PubMed

Pitkänen, Esa; Akerlund, Arto; Rantanen, Ari; Jouhten, Paula; Ukkonen, Esko

2008-08-25

ReMatch is a web-based, user-friendly tool that constructs stoichiometric network models for metabolic flux analysis, integrating user-developed models into a database collected from several comprehensive metabolic data resources, including KEGG, MetaCyc and CheBI. Particularly, ReMatch augments the metabolic reactions of the model with carbon mappings to facilitate (13)C metabolic flux analysis. The construction of a network model consisting of biochemical reactions is the first step in most metabolic modelling tasks. This model construction can be a tedious task as the required information is usually scattered to many separate databases whose interoperability is suboptimal, due to the heterogeneous naming conventions of metabolites in different databases. Another, particularly severe data integration problem is faced in (13)C metabolic flux analysis, where the mappings of carbon atoms from substrates into products in the model are required. ReMatch has been developed to solve the above data integration problems. First, ReMatch matches the imported user-developed model against the internal ReMatch database while considering a comprehensive metabolite name thesaurus. This, together with wild card support, allows the user to specify the model quickly without having to look the names up manually. Second, ReMatch is able to augment reactions of the model with carbon mappings, obtained either from the internal database or given by the user with an easy-touse tool. The constructed models can be exported into 13C-FLUX and SBML file formats. Further, a stoichiometric matrix and visualizations of the network model can be generated. The constructed models of metabolic networks can be optionally made available to the other users of ReMatch. Thus, ReMatch provides a common repository for metabolic network models with carbon mappings for the needs of metabolic flux analysis community. ReMatch is freely available for academic use at http://www.cs.helsinki.fi/group/sysfys/software/rematch/.

An offline-online Web-GIS Android application for fast data acquisition of landslide hazard and risk

NASA Astrophysics Data System (ADS)

Olyazadeh, Roya; Sudmeier-Rieux, Karen; Jaboyedoff, Michel; Derron, Marc-Henri; Devkota, Sanjaya

2017-04-01

Regional landslide assessments and mapping have been effectively pursued by research institutions, national and local governments, non-governmental organizations (NGOs), and different stakeholders for some time, and a wide range of methodologies and technologies have consequently been proposed. Land-use mapping and hazard event inventories are mostly created by remote-sensing data, subject to difficulties, such as accessibility and terrain, which need to be overcome. Likewise, landslide data acquisition for the field navigation can magnify the accuracy of databases and analysis. Open-source Web and mobile GIS tools can be used for improved ground-truthing of critical areas to improve the analysis of hazard patterns and triggering factors. This paper reviews the implementation and selected results of a secure mobile-map application called ROOMA (Rapid Offline-Online Mapping Application) for the rapid data collection of landslide hazard and risk. This prototype assists the quick creation of landslide inventory maps (LIMs) by collecting information on the type, feature, volume, date, and patterns of landslides using open-source Web-GIS technologies such as Leaflet maps, Cordova, GeoServer, PostgreSQL as the real DBMS (database management system), and PostGIS as its plug-in for spatial database management. This application comprises Leaflet maps coupled with satellite images as a base layer, drawing tools, geolocation (using GPS and the Internet), photo mapping, and event clustering. All the features and information are recorded into a GeoJSON text file in an offline version (Android) and subsequently uploaded to the online mode (using all browsers) with the availability of Internet. Finally, the events can be accessed and edited after approval by an administrator and then be visualized by the general public.

The Education and Public Engagement (EPE) Component of the Ocean Observatories Initiative (OOI): Enabling Near Real-Time Data Use in Undergraduate Classrooms

NASA Astrophysics Data System (ADS)

Glenn, S. M.; Companion, C.; Crowley, M.; deCharon, A.; Fundis, A. T.; Kilb, D. L.; Levenson, S.; Lichtenwalner, C. S.; McCurdy, A.; McDonnell, J. D.; Overoye, D.; Risien, C. M.; Rude, A.; Wieclawek, J., III

2011-12-01

The National Science Foundation's Ocean Observatories Initiative (OOI) is constructing observational and computer infrastructure that will provide sustained ocean measurements to study climate variability, ocean circulation, ecosystem dynamics, air-sea exchange, seafloor processes, and plate-scale geodynamics over the next ~25-30 years. To accomplish this, the Consortium for Ocean Leadership established four Implementing Organizations: (1) Regional Scale Nodes; (2) Coastal and Global Scale Nodes; (3) Cyberinfrastructure (CI); and (4) Education and Public Engagement (EPE). The EPE, which we represent, was just recently established to provide a new layer of cyber-interactivity for educators to bring near real-time data, images and videos of our Earth's oceans into their learning environments. Our focus over the next four years is engaging educators of undergraduates and free-choice learners. Demonstration projects of the OOI capabilities will use an Integrated Education Toolkit to access OOI data through the Cyberinfrastructure's On Demand Measurement Processing capability. We will present our plans to develop six education infrastructure software modules: Education Web Services (middleware), Visualization Tools, Concept Map and Lab/Lesson Builders, Collaboration Tools, and an Education Resources Database. The software release of these tools is staggered to coincide with other major OOI releases. The first release will include stand-alone versions of the first four EPE modules (Fall 2012). Next, all six EPE modules will be integrated within the OOI cyber-framework (Fall 2013). The last release will include advanced capabilities for all six modules within a collaborative network that leverages the CI's Integrated Observatory Network (Fall 2014). We are looking for undergraduate and informal science educators to provide feedback and guidance on the project, please contact us if you are interested in partnering with us.

Ensemble of ground subsidence hazard maps using fuzzy logic

NASA Astrophysics Data System (ADS)

Park, Inhye; Lee, Jiyeong; Saro, Lee

2014-06-01

Hazard maps of ground subsidence around abandoned underground coal mines (AUCMs) in Samcheok, Korea, were constructed using fuzzy ensemble techniques and a geographical information system (GIS). To evaluate the factors related to ground subsidence, a spatial database was constructed from topographic, geologic, mine tunnel, land use, groundwater, and ground subsidence maps. Spatial data, topography, geology, and various ground-engineering data for the subsidence area were collected and compiled in a database for mapping ground-subsidence hazard (GSH). The subsidence area was randomly split 70/30 for training and validation of the models. The relationships between the detected ground-subsidence area and the factors were identified and quantified by frequency ratio (FR), logistic regression (LR) and artificial neural network (ANN) models. The relationships were used as factor ratings in the overlay analysis to create ground-subsidence hazard indexes and maps. The three GSH maps were then used as new input factors and integrated using fuzzy-ensemble methods to make better hazard maps. All of the hazard maps were validated by comparison with known subsidence areas that were not used directly in the analysis. As the result, the ensemble model was found to be more effective in terms of prediction accuracy than the individual model.

Hippocampal lesions do not disrupt navigational map retention in homing pigeons under conditions when map acquisition is hippocampal dependent.

PubMed

Gagliardo, Anna; Ioalè, Paolo; Odetti, Francesca; Kahn, Meghan C; Bingman, Verner P

2004-08-12

In contrast to map-like navigation by familiar landmarks, understanding the relationship between the avian hippocampal formation (HF) and the homing pigeon navigational map has remained a challenge. With the goal of filling an empirical gap, we performed an experiment in which young homing pigeons learned a navigational map while being held in an outdoor aviary, and then half the birds were subjected to HF ablation. The question was whether HF lesion would impair retention of a navigational map learned under conditions known to require participation of HF. The pigeons, which had never flown from the aviary before, together with an additional control group that learned a navigational map with free-flight experience, were then released from two distant release sites. Contrary to expectation, the HF-lesioned birds oriented in a homeward direction in manner indistinguishable from the intact control pigeons raised in the same outdoor aviary. HF lesion did not result in a navigational map retention deficit. Together with previous results, it is now clear that regardless of the learning environment present during acquisition, HF plays no necessary role in the subsequent retention or operation of the homing pigeon navigational map.

Next Generation Clustered Heat Maps | Informatics Technology for Cancer Research (ITCR)

Cancer.gov

Next-Generation (Clustered) Heat Maps are interactive heat maps that enable the user to zoom and pan across the heatmap, alter its color scheme, generate production quality PDFs, and link out from rows, columns, and individual heatmap entries to related statistics, databases and other information.

Geologic map of the Sauvie Island quadrangle, Multnomah and Columbia Counties, Oregon, and Clark County, Washington

USGS Publications Warehouse

Evarts, Russell C.; O'Connor, Jim; Cannon, Charles M.

2016-03-02

This map contributes to a U.S. Geological Survey program to improve the geologic database for the Portland region of the Pacific Northwest urban corridor. The map and ancillary data will support assessments of seismic risk, ground-failure hazards, and resource availability.

12 CFR 1204.7 - Are there any exemptions from the Privacy Act?

Code of Federal Regulations, 2012 CFR

2012-01-01

... & Evaluative Files Database,” “FHFA-OIG Investigative & Evaluative MIS Database,” “FHFA-OIG Hotline Database... investigation or evaluation. (ii) From 5 U.S.C. 552a(d)(1), because release of investigative or evaluative... or evaluative techniques and procedures. (iii) From 5 U.S.C. 552a(d)(2), because amendment or...

12 CFR 1204.7 - Are there any exemptions from the Privacy Act?

Code of Federal Regulations, 2014 CFR

2014-01-01

... & Evaluative Files Database,” “FHFA-OIG Investigative & Evaluative MIS Database,” “FHFA-OIG Hotline Database... investigation or evaluation. (ii) From 5 U.S.C. 552a(d)(1), because release of investigative or evaluative... or evaluative techniques and procedures. (iii) From 5 U.S.C. 552a(d)(2), because amendment or...

12 CFR 1204.7 - Are there any exemptions from the Privacy Act?

Code of Federal Regulations, 2013 CFR

2013-01-01

... & Evaluative Files Database,” “FHFA-OIG Investigative & Evaluative MIS Database,” “FHFA-OIG Hotline Database... investigation or evaluation. (ii) From 5 U.S.C. 552a(d)(1), because release of investigative or evaluative... or evaluative techniques and procedures. (iii) From 5 U.S.C. 552a(d)(2), because amendment or...

Database Creation and Statistical Analysis: Finding Connections Between Two or More Secondary Storage Device

DTIC Science & Technology

2017-09-01

NAVAL POSTGRADUATE SCHOOL MONTEREY, CALIFORNIA THESIS DATABASE CREATION AND STATISTICAL ANALYSIS: FINDING CONNECTIONS BETWEEN TWO OR MORE SECONDARY...BLANK ii Approved for public release. Distribution is unlimited. DATABASE CREATION AND STATISTICAL ANALYSIS: FINDING CONNECTIONS BETWEEN TWO OR MORE...Problem and Motivation . . . . . . . . . . . . . . . . . . . 1 1.2 DOD Applicability . . . . . . . . . . . . . . . . .. . . . . . . 2 1.3 Research

MaizeGDB update: New tools, data, and interface for the maize model organism database

USDA-ARS?s Scientific Manuscript database

MaizeGDB is a highly curated, community-oriented database and informatics service to researchers focused on the crop plant and model organism Zea mays ssp. mays. Although some form of the maize community database has existed over the last 25 years, there have only been two major releases. In 1991, ...

Map and digital database of sedimentary basins and indications of petroleum in the Central Alaska Province

USGS Publications Warehouse

Troutman, Sandra M.; Stanley, Richard G.

2003-01-01

This database and accompanying text depict historical and modern reported occurrences of petroleum both in wells and at the surface within the boundaries of the Central Alaska Province. These data were compiled from previously published and unpublished sources and were prepared for use in the 2002 U.S. Geological Survey petroleum assessment of Central Alaska, Yukon Flats region. Indications of petroleum are described as oil or gas shows in wells, oil or gas seeps, or outcrops of oil shale or oil-bearing rock and include confirmed and unconfirmed reports. The scale of the source map limits the spatial resolution (scale) of the database to 1:2,500,000 or smaller.

DIMA 3.0: Domain Interaction Map.

PubMed

Luo, Qibin; Pagel, Philipp; Vilne, Baiba; Frishman, Dmitrij

2011-01-01

Domain Interaction MAp (DIMA, available at http://webclu.bio.wzw.tum.de/dima) is a database of predicted and known interactions between protein domains. It integrates 5807 structurally known interactions imported from the iPfam and 3did databases and 46,900 domain interactions predicted by four computational methods: domain phylogenetic profiling, domain pair exclusion algorithm correlated mutations and domain interaction prediction in a discriminative way. Additionally predictions are filtered to exclude those domain pairs that are reported as non-interacting by the Negatome database. The DIMA Web site allows to calculate domain interaction networks either for a domain of interest or for entire organisms, and to explore them interactively using the Flash-based Cytoscape Web software.

Preliminary integrated geologic map databases for the United States : Central states : Montana, Wyoming, Colorado, New Mexico, Kansas, Oklahoma, Texas, Missouri, Arkansas, and Louisiana

USGS Publications Warehouse

Stoeser, Douglas B.; Green, Gregory N.; Morath, Laurie C.; Heran, William D.; Wilson, Anna B.; Moore, David W.; Van Gosen, Bradley S.

2005-01-01

The growth in the use of Geographic Information Systems (GIS) has highlighted the need for regional and national digital geologic maps attributed with age and lithology information. Such maps can be conveniently used to generate derivative maps for purposes including mineral-resource assessment, metallogenic studies, tectonic studies, and environmental research. This Open-File Report is a preliminary version of part of a series of integrated state geologic map databases that cover the entire United States. The only national-scale digital geologic maps that portray most or all of the United States for the conterminous U.S. are the digital version of the King and Beikman (1974a, b) map at a scale of 1:2,500,000, as digitized by Schruben and others (1994) and the digital version of the Geologic Map of North America (Reed and others, 2005a, b) compiled at a scale of 1:5,000,000 which is currently being prepared by the U.S. Geological Survey. The present series of maps is intended to provide the next step in increased detail. State geologic maps that range in scale from 1:100,000 to 1:1,000,000 are available for most of the country, and digital versions of these state maps are the basis of this product. In a few cases, new digital compilations were prepared (e.g. OH, SC, SD) or existing paper maps were digitized (e.g. KY, TX). For Alaska and Hawaii, new regional maps are being compiled and ultimately new state maps will be produced. The digital geologic maps are presented in standardized formats as ARC/INFO (.e00) export files and as ArcView shape (.shp) files. Accompanying these spatial databases are a set of five supplemental data tables that relate the map units to detailed lithologic and age information. The maps for the CONUS have been fitted to a common set of state boundaries based on the 1:100,000 topographic map series of the United States Geological Survey (USGS). When the individual state maps are merged, the combined attribute tables can be used directly with the merged maps to make derivative maps. No attempt has been made to reconcile differences in mapped geology across state lines. This is the first version of this product and it will be subsequently updated to include four additional states (North Dakota, South Dakota, Nebraska, and Iowa)

Assessing the importance of terrain parameters on glide avalanche release

NASA Astrophysics Data System (ADS)

Peitzsch, E.; Hendrikx, J.; Fagre, D. B.

2013-12-01

Glide snow avalanches are dangerous and difficult to predict. Despite recent research there is still a lack of understanding regarding the controls of glide avalanche release. Glide avalanches often occur in similar terrain or the same locations annually and observations suggest that topography may be critical. Thus, to gain an understanding of the terrain component of these types of avalanches we examined terrain parameters associated with glide avalanche release as well as areas of consistent glide crack formation but no subsequent avalanches. Glide avalanche occurrences visible from the Going-to-the-Sun Road corridor in Glacier National Park, Montana from 2003-2013 were investigated using an avalanche database derived of daily observations each year from April 1 to June 15. This yielded 192 glide avalanches in 53 distinct avalanche paths. Each avalanche occurrence was digitized in a GIS using satellite, oblique, and aerial imagery as reference. Topographical parameters such as area, slope, aspect, elevation and elevation were then derived for the entire dataset utilizing GIS tools and a 10m DEM. Land surface substrate and surface geology were derived from National Park Service Inventory and Monitoring maps and U.S. Geological Survey surface geology maps, respectively. Surface roughness and glide factor were calculated using a four level classification index. . Then, each avalanche occurrence was aggregated to general avalanche release zones and the frequencies were compared. For this study, glide avalanches released in elevations ranging from 1300 to 2700 m with a mean aspect of 98 degrees (east) and a mean slope angle of 38 degrees. The mean profile curvature for all glide avalanches was 0.15 and a plan curvature of -0.01, suggesting a fairly linear surface (i.e. neither convex nor concave). The glide avalanches occurred in mostly bedrock made up of dolomite and limestone slabs and talus deposits with very few occurring in alpine meadows. However, not all glide avalanches failed as cohesive slabs on this bedrock surface. Consequently, surface roughness proved to be a useful descriptive variable to discriminate between slopes that avalanched and those that did not. Annual 'repeat offender' glide avalanche paths were characterized by smooth outcropping rock plates with stratification planes parallel to the slope. Combined with aspect these repeat offenders were also members of the highest glide category. Using this understanding of the role of topographic parameters on glide avalanche activity, a spatial terrain based model was developed to identify other areas with high glide avalanche potential outside of our immediate observation area.

Assessing the importance of terrain parameters on glide avalanche release

USGS Publications Warehouse

Peitzsch, Erich H.; Hendrikx, Jordy; Fagre, Daniel B.

2014-01-01

Glide snow avalanches are dangerous and difficult to predict. Despite recent research there is still a lack of understanding regarding the controls of glide avalanche release. Glide avalanches often occur in similar terrain or the same locations annually and observations suggest that topography may be critical. Thus, to gain an understanding of the terrain component of these types of avalanches we examined terrain parameters associated with glide avalanche release as well as areas of consistent glide crack formation but no subsequent avalanches. Glide avalanche occurrences visible from the Going-to-the-Sun Road corridor in Glacier National Park, Montana from 2003-2013 were investigated using an avalanche database derived of daily observations each year from April 1 to June 15. This yielded 192 glide avalanches in 53 distinct avalanche paths. Each avalanche occurrence was digitized in a GIS using satellite, oblique, and aerial imagery as reference. Topographical parameters such as area, slope, aspect, elevation and elevation were then derived for the entire dataset utilizing GIS tools and a 10m DEM. Land surface substrate and surface geology were derived from National Park Service Inventory and Monitoring maps and U.S. Geological Survey surface geology maps, respectively. Surface roughness and glide factor were calculated using a four level classification index. . Then, each avalanche occurrence was aggregated to general avalanche release zones and the frequencies were compared. For this study, glide avalanches released in elevations ranging from 1300 to 2700 m with a mean aspect of 98 degrees (east) and a mean slope angle of 38 degrees. The mean profile curvature for all glide avalanches was 0.15 and a plan curvature of -0.01, suggesting a fairly linear surface (i.e. neither convex nor concave). The glide avalanches occurred in mostly bedrock made up of dolomite and limestone slabs and talus deposits with very few occurring in alpine meadows. However, not all glide avalanches failed as cohesive slabs on this bedrock surface. Consequently, surface roughness proved to be a useful descriptive variable to discriminate between slopes that avalanched and those that did not. Annual 'repeat offender' glide avalanche paths were characterized by smooth outcropping rock plates with stratification planes parallel to the slope. Combined with aspect these repeat offenders were also members of the highest glide category. Using this understanding of the role of topographic parameters on glide avalanche activity, a spatial terrain based model was developed to identify other areas with high glide avalanche potential outside of our immediate observation area.

GrainGenes: Changing Times, Changing Databases, Digital Evolution.

USDA-ARS?s Scientific Manuscript database

The GrainGenes database is one of few agricultural databases that had an early start on the Internet and that has changed with the times. Initial goals were to collect a wide range of data relating to the developing maps and attributes of small grains crops, and to make them easily accessible. The ...

Reasons for 2011 Release of the Evaluated Nuclear Data Library (ENDL2011.0)

DOE Office of Scientific and Technical Information (OSTI.GOV)

Brown, D.; Escher, J.; Hoffman, R.

LLNL's Computational Nuclear Physics Group and Nuclear Theory and Modeling Group have collaborated to create the 2011 release of the Evaluated Nuclear Data Library (ENDL2011). ENDL2011 is designed to sup- port LLNL's current and future nuclear data needs. This database is currently the most complete nuclear database for Monte Carlo and deterministic transport of neutrons and charged particles, surpassing ENDL2009.0 [1]. The ENDL2011 release [2] contains 918 transport-ready eval- uations in the neutron sub-library alone. ENDL2011 was assembled with strong support from the ASC program, leveraged with support from NNSA science campaigns and the DOE/Offce of Science US Nuclear Datamore » Pro- gram.« less

Modernization and multiscale databases at the U.S. geological survey

USGS Publications Warehouse

Morrison, J.L.

1992-01-01

The U.S. Geological Survey (USGS) has begun a digital cartographic modernization program. Keys to that program are the creation of a multiscale database, a feature-based file structure that is derived from a spatial data model, and a series of "templates" or rules that specify the relationships between instances of entities in reality and features in the database. The database will initially hold data collected from the USGS standard map products at scales of 1:24,000, 1:100,000, and 1:2,000,000. The spatial data model is called the digital line graph-enhanced model, and the comprehensive rule set consists of collection rules, product generation rules, and conflict resolution rules. This modernization program will affect the USGS mapmaking process because both digital and graphic products will be created from the database. In addition, non-USGS map users will have more flexibility in uses of the databases. These remarks are those of the session discussant made in response to the six papers and the keynote address given in the session. ?? 1992.

Database resources of the National Center for Biotechnology Information

PubMed Central

Wheeler, David L.; Church, Deanna M.; Lash, Alex E.; Leipe, Detlef D.; Madden, Thomas L.; Pontius, Joan U.; Schuler, Gregory D.; Schriml, Lynn M.; Tatusova, Tatiana A.; Wagner, Lukas; Rapp, Barbara A.

2001-01-01

In addition to maintaining the GenBank® nucleic acid sequence database, the National Center for Biotechnology Information (NCBI) provides data analysis and retrieval resources that operate on the data in GenBank and a variety of other biological data made available through NCBI’s Web site. NCBI data retrieval resources include Entrez, PubMed, LocusLink and the Taxonomy Browser. Data analysis resources include BLAST, Electronic PCR, OrfFinder, RefSeq, UniGene, HomoloGene, Database of Single Nucleotide Polymorphisms (dbSNP), Human Genome Sequencing, Human MapViewer, GeneMap’99, Human–Mouse Homology Map, Cancer Chromosome Aberration Project (CCAP), Entrez Genomes, Clusters of Orthologous Groups (COGs) database, Retroviral Genotyping Tools, Cancer Genome Anatomy Project (CGAP), SAGEmap, Gene Expression Omnibus (GEO), Online Mendelian Inheri­tance in Man (OMIM), the Molecular Modeling Database (MMDB) and the Conserved Domain Database (CDD). Augmenting many of the Web applications are custom implementations of the BLAST program optimized to search specialized data sets. All of the resources can be accessed through the NCBI home page at: http://www.ncbi.nlm.nih.gov. PMID:11125038

Database resources of the National Center for Biotechnology

PubMed Central

Wheeler, David L.; Church, Deanna M.; Federhen, Scott; Lash, Alex E.; Madden, Thomas L.; Pontius, Joan U.; Schuler, Gregory D.; Schriml, Lynn M.; Sequeira, Edwin; Tatusova, Tatiana A.; Wagner, Lukas

2003-01-01

In addition to maintaining the GenBank(R) nucleic acid sequence database, the National Center for Biotechnology Information (NCBI) provides data analysis and retrieval resources for the data in GenBank and other biological data made available through NCBI's Web site. NCBI resources include Entrez, PubMed, PubMed Central (PMC), LocusLink, the NCBITaxonomy Browser, BLAST, BLAST Link (BLink), Electronic PCR (e-PCR), Open Reading Frame (ORF) Finder, References Sequence (RefSeq), UniGene, HomoloGene, ProtEST, Database of Single Nucleotide Polymorphisms (dbSNP), Human/Mouse Homology Map, Cancer Chromosome Aberration Project (CCAP), Entrez Genomes and related tools, the Map Viewer, Model Maker (MM), Evidence Viewer (EV), Clusters of Orthologous Groups (COGs) database, Retroviral Genotyping Tools, SAGEmap, Gene Expression Omnibus (GEO), Online Mendelian Inheritance in Man (OMIM), the Molecular Modeling Database (MMDB), the Conserved Domain Database (CDD), and the Conserved Domain Architecture Retrieval Tool (CDART). Augmenting many of the Web applications are custom implementations of the BLAST program optimized to search specialized data sets. All of the resources can be accessed through the NCBI home page at: http://www.ncbi.nlm.nih.gov. PMID:12519941

Drainage identification analysis and mapping, phase 2.

DOT National Transportation Integrated Search

2017-01-01

Drainage Identification, Analysis and Mapping System (DIAMS) is a computerized database that captures and : stores relevant information associated with all aboveground and underground hydraulic structures belonging to : the New Jersey Department of T...

Haz-Map Glossary

MedlinePlus

... lung. Radiation Accident Large-scale accidents from atomic bomb testing fallout released iodine-131 and strontium-90. ... lung. Radiation Accident Large-scale accidents from atomic bomb testing fallout released iodine-131 and strontium-90. ...

Karst mapping in the United States: Past, present and future

USGS Publications Warehouse

Weary, David J.; Doctor, Daniel H.

2015-01-01

The earliest known comprehensive karst map of the entire USA was published by Stringfield and LeGrand (1969), based on compilations of William E. Davies of the U.S. Geological Survey (USGS). Various versions of essentially the same map have been published since. The USGS recently published new digital maps and databases depicting the extent of known karst, potential karst, and pseudokarst areas of the United States of America including Puerto Rico and the U.S. Virgin Islands (Weary and Doctor, 2014). These maps are based primarily on the extent of potentially karstic soluble rock types, and rocks with physical properties conducive to the formation of pseudokarst features. These data were compiled and refined from multiple sources at various spatial resolutions, mostly as digital data supplied by state geological surveys. The database includes polygons delineating areas with potential for karst and that are tagged with attributes intended to facilitate classification of karst regions. Approximately 18% of the surface of the fifty United States is underlain by significantly soluble bedrock. In the eastern United States the extent of outcrop of soluble rocks provides a good first-approximation of the distribution of karst and potential karst areas. In the arid western states, the extent of soluble rock outcrop tends to overestimate the extent of regions that might be considered as karst under current climatic conditions, but the new dataset encompasses those regions nonetheless. This database will be revised as needed, and the present map will be updated as new information is incorporated.

A Spatiotemporal Database to Track Human Scrub Typhus Using the VectorMap Application

PubMed Central

Kelly, Daryl J.; Foley, Desmond H.; Richards, Allen L.

2015-01-01

Scrub typhus is a potentially fatal mite-borne febrile illness, primarily of the Asia-Pacific Rim. With an endemic area greater than 13 million km2 and millions of people at risk, scrub typhus remains an underreported, often misdiagnosed febrile illness. A comprehensive, updatable map of the true distribution of cases has been lacking, and therefore the true risk of disease within the very large endemic area remains unknown. The purpose of this study was to establish a database and map to track human scrub typhus. An online search using PubMed and the United States Armed Forces Pest Management Board Literature Retrieval System was performed to identify articles describing human scrub typhus cases both within and outside the traditionally accepted endemic regions. Using World Health Organization guidelines, stringent criteria were used to establish diagnoses for inclusion in the database. The preliminary screening of 181 scrub typhus publications yielded 145 publications that met the case criterion, 267 case records, and 13 serosurvey records that could be georeferenced, describing 13,739 probable or confirmed human cases in 28 countries. A map service has been established within VectorMap (www.vectormap.org) to explore the role that relative location of vectors, hosts, and the pathogen play in the transmission of mite-borne scrub typhus. The online display of scrub typhus cases in VectorMap illustrates their presence and provides an up-to-date geographic distribution of proven scrub typhus cases. PMID:26678263

A Spatiotemporal Database to Track Human Scrub Typhus Using the VectorMap Application.

PubMed

Kelly, Daryl J; Foley, Desmond H; Richards, Allen L

2015-12-01

Scrub typhus is a potentially fatal mite-borne febrile illness, primarily of the Asia-Pacific Rim. With an endemic area greater than 13 million km2 and millions of people at risk, scrub typhus remains an underreported, often misdiagnosed febrile illness. A comprehensive, updatable map of the true distribution of cases has been lacking, and therefore the true risk of disease within the very large endemic area remains unknown. The purpose of this study was to establish a database and map to track human scrub typhus. An online search using PubMed and the United States Armed Forces Pest Management Board Literature Retrieval System was performed to identify articles describing human scrub typhus cases both within and outside the traditionally accepted endemic regions. Using World Health Organization guidelines, stringent criteria were used to establish diagnoses for inclusion in the database. The preliminary screening of 181 scrub typhus publications yielded 145 publications that met the case criterion, 267 case records, and 13 serosurvey records that could be georeferenced, describing 13,739 probable or confirmed human cases in 28 countries. A map service has been established within VectorMap (www.vectormap.org) to explore the role that relative location of vectors, hosts, and the pathogen play in the transmission of mite-borne scrub typhus. The online display of scrub typhus cases in VectorMap illustrates their presence and provides an up-to-date geographic distribution of proven scrub typhus cases.

Applying manifold learning techniques to the CAESAR database

NASA Astrophysics Data System (ADS)

Mendoza-Schrock, Olga; Patrick, James; Arnold, Gregory; Ferrara, Matthew

2010-04-01

Understanding and organizing data is the first step toward exploiting sensor phenomenology for dismount tracking. What image features are good for distinguishing people and what measurements, or combination of measurements, can be used to classify the dataset by demographics including gender, age, and race? A particular technique, Diffusion Maps, has demonstrated the potential to extract features that intuitively make sense [1]. We want to develop an understanding of this tool by validating existing results on the Civilian American and European Surface Anthropometry Resource (CAESAR) database. This database, provided by the Air Force Research Laboratory (AFRL) Human Effectiveness Directorate and SAE International, is a rich dataset which includes 40 traditional, anthropometric measurements of 4400 human subjects. If we could specifically measure the defining features for classification, from this database, then the future question will then be to determine a subset of these features that can be measured from imagery. This paper briefly describes the Diffusion Map technique, shows potential for dimension reduction of the CAESAR database, and describes interesting problems to be further explored.

Benchmarking database performance for genomic data.

PubMed

Khushi, Matloob

2015-06-01

Genomic regions represent features such as gene annotations, transcription factor binding sites and epigenetic modifications. Performing various genomic operations such as identifying overlapping/non-overlapping regions or nearest gene annotations are common research needs. The data can be saved in a database system for easy management, however, there is no comprehensive database built-in algorithm at present to identify overlapping regions. Therefore I have developed a novel region-mapping (RegMap) SQL-based algorithm to perform genomic operations and have benchmarked the performance of different databases. Benchmarking identified that PostgreSQL extracts overlapping regions much faster than MySQL. Insertion and data uploads in PostgreSQL were also better, although general searching capability of both databases was almost equivalent. In addition, using the algorithm pair-wise, overlaps of >1000 datasets of transcription factor binding sites and histone marks, collected from previous publications, were reported and it was found that HNF4G significantly co-locates with cohesin subunit STAG1 (SA1).Inc. © 2015 Wiley Periodicals, Inc.

Rice proteome analysis: a step toward functional analysis of the rice genome.

PubMed

Komatsu, Setsuko; Tanaka, Naoki

2005-03-01

The technique of proteome analysis using 2-DE has the power to monitor global changes that occur in the protein complement of tissues and subcellular compartments. In this review, we describe construction of the rice proteome database, the cataloging of rice proteins, and the functional characterization of some of the proteins identified. Initially, proteins extracted from various tissues and organelles were separated by 2-DE and an image analyzer was used to construct a display or reference map of the proteins. The rice proteome database currently contains 23 reference maps based on 2-DE of proteins from different rice tissues and subcellular compartments. These reference maps comprise 13 129 rice proteins, and the amino acid sequences of 5092 of these proteins are entered in the database. Major proteins involved in growth or stress responses have been identified by using a proteomics approach and some of these proteins have unique functions. Furthermore, initial work has also begun on analyzing the phosphoproteome and protein-protein interactions in rice. The information obtained from the rice proteome database will aid in the molecular cloning of rice genes and in predicting the function of unknown proteins.

Proteome reference map and regulation network of neonatal rat cardiomyocyte

PubMed Central

Li, Zi-jian; Liu, Ning; Han, Qi-de; Zhang, You-yi

2011-01-01

Aim: To study and establish a proteome reference map and regulation network of neonatal rat cardiomyocyte. Methods: Cultured cardiomyocytes of neonatal rats were used. All proteins expressed in the cardiomyocytes were separated and identified by two-dimensional polyacrylamide gel electrophoresis (2-DE) and matrix-assisted laser desorption/ionization-time of flight mass spectrometry (MALDI-TOF MS). Biological networks and pathways of the neonatal rat cardiomyocytes were analyzed using the Ingenuity Pathway Analysis (IPA) program (www.ingenuity.com). A 2-DE database was made accessible on-line by Make2ddb package on a web server. Results: More than 1000 proteins were separated on 2D gels, and 148 proteins were identified. The identified proteins were used for the construction of an extensible markup language-based database. Biological networks and pathways were constructed to analyze the functions associate with cardiomyocyte proteins in the database. The 2-DE database of rat cardiomyocyte proteins can be accessed at http://2d.bjmu.edu.cn. Conclusion: A proteome reference map and regulation network of the neonatal rat cardiomyocytes have been established, which may serve as an international platform for storage, analysis and visualization of cardiomyocyte proteomic data. PMID:21841810

MagnaportheDB: a federated solution for integrating physical and genetic map data with BAC end derived sequences for the rice blast fungus Magnaporthe grisea.

PubMed

Martin, Stanton L; Blackmon, Barbara P; Rajagopalan, Ravi; Houfek, Thomas D; Sceeles, Robert G; Denn, Sheila O; Mitchell, Thomas K; Brown, Douglas E; Wing, Rod A; Dean, Ralph A

2002-01-01

We have created a federated database for genome studies of Magnaporthe grisea, the causal agent of rice blast disease, by integrating end sequence data from BAC clones, genetic marker data and BAC contig assembly data. A library of 9216 BAC clones providing >25-fold coverage of the entire genome was end sequenced and fingerprinted by HindIII digestion. The Image/FPC software package was then used to generate an assembly of 188 contigs covering >95% of the genome. The database contains the results of this assembly integrated with hybridization data of genetic markers to the BAC library. AceDB was used for the core database engine and a MySQL relational database, populated with numerical representations of BAC clones within FPC contigs, was used to create appropriately scaled images. The database is being used to facilitate sequencing efforts. The database also allows researchers mapping known genes or other sequences of interest, rapid and easy access to the fundamental organization of the M.grisea genome. This database, MagnaportheDB, can be accessed on the web at http://www.cals.ncsu.edu/fungal_genomics/mgdatabase/int.htm.

Coupling AVHRR imagery with biogeochemical models of methane emission from rice crops

NASA Astrophysics Data System (ADS)

Paliouras, Eleni Joyce

2000-10-01

Rice is a staple food source for much of the world and most of it is grown in paddies which remain flooded for a large part of the growing season. This anaerobic environment is ideal for the activities of methanogenic bacteria, that are responsible for the production of methane gas, some of which is released into the atmosphere. In order to better understand the role that rice cropping plays in the levels of atmospheric methane, several models have been developed to predict the methane flux from the paddies. These models generally utilize some type of nominal plant growth curve based on one or two pieces of ground truth data. Ideally, satellite data could be used instead to provide these models with an estimate of biomass change over the growing season, eliminating the need for related ground truth. A technique proposed to accomplish this is presented here, and results that demonstrate its success when applied to rice cropping areas of Texas are discussed. Also presented is a method for utilizing satellite data to map rice cropping areas that could eventually aid in a scheme for populating a GIS-type database with information on exact rice cropping areas. Such a database could then be directly tied to the methane emission models to obtain flux estimates for extensive regional areas.

Emissions & Generation Resource Integrated Database (eGRID), eGRID2010

EPA Pesticide Factsheets

The Emissions & Generation Resource Integrated Database (eGRID) is a comprehensive source of data on the environmental characteristics of almost all electric power generated in the United States. These environmental characteristics include air emissions for nitrogen oxides, sulfur dioxide, carbon dioxide, methane, and nitrous oxide; emissions rates; net generation; resource mix; and many other attributes.eGRID2010 contains the complete release of year 2007 data, as well as years 2005 and 2004 data. Excel spreadsheets, full documentation, summary data, eGRID subregion and NERC region representational maps, and GHG emission factors are included in this data set. The Archived data in eGRID2002 contain years 1996 through 2000 data.For year 2007 data, the first Microsoft Excel workbook, Plant, contains boiler, generator, and plant spreadsheets. The second Microsoft Excel workbook, Aggregation, contains aggregated data by state, electric generating company, parent company, power control area, eGRID subregion, NERC region, and U.S. total levels. The third Microsoft Excel workbook, ImportExport, contains state import-export data, as well as U.S. generation and consumption data for years 2007, 2005, and 2004. For eGRID data for years 2005 and 2004, a user friendly web application, eGRIDweb, is available to select, view, print, and export specified data.

Down-Regulation by Resveratrol of Basic Fibroblast Growth Factor-Stimulated Osteoprotegerin Synthesis through Suppression of Akt in Osteoblasts

PubMed Central

Kuroyanagi, Gen; Otsuka, Takanobu; Yamamoto, Naohiro; Matsushima-Nishiwaki, Rie; Nakakami, Akira; Mizutani, Jun; Kozawa, Osamu; Tokuda, Haruhiko

2014-01-01

It is firmly established that resveratrol, a natural food compound abundantly found in grape skins and red wine, has beneficial properties for human health. In the present study, we investigated the effect of basic fibroblast growth factor (FGF-2) on osteoprotegerin (OPG) synthesis in osteoblast-like MC3T3-E1 cells and whether resveratrol affects the OPG synthesis. FGF-2 stimulated both the OPG release and the expression of OPG mRNA. Resveratrol significantly suppressed the FGF-2-stimulated OPG release and the mRNA levels of OPG. SRT1720, an activator of SIRT1, reduced the FGF-2-induced OPG release and the OPG mRNA expression. PD98059, an inhibitor of upstream kinase activating p44/p42 mitogen-activated protein (MAP) kinase, had little effect on the FGF-2-stimulated OPG release. On the other hand, SB203580, an inhibitor of p38 MAP kinase, SP600125, an inhibitor of stress-activated protein kinase/c-Jun N-terminal kinase (SAPK/JNK), and Akt inhibitor suppressed the OPG release induced by FGF-2. Resveratrol failed to affect the FGF-2-induced phosphorylation of p44/p42 MAP kinase, p38 MAP kinase or SAPK/JNK. The phosphorylation of Akt induced by FGF-2 was significantly suppressed by resveratrol or SRT1720. These findings strongly suggest that resveratrol down-regulates FGF-2-stimulated OPG synthesis through the suppression of the Akt pathway in osteoblasts and that the inhibitory effect of resveratrol is mediated at least in part by SIRT1 activation. PMID:25290095

Caching strategies for improving performance of web-based Geographic applications

NASA Astrophysics Data System (ADS)

Liu, M.; Brodzik, M.; Collins, J. A.; Lewis, S.; Oldenburg, J.

2012-12-01

The NASA Operation IceBridge mission collects airborne remote sensing measurements to bridge the gap between NASA's Ice, Cloud and Land Elevation Satellite (ICESat) mission and the upcoming ICESat-2 mission. The IceBridge Data Portal from the National Snow and Ice Data Center provides an intuitive web interface for accessing IceBridge mission observations and measurements. Scientists and users usually do not have knowledge about the individual campaigns but are interested in data collected in a specific place. We have developed a high-performance map interface to allow users to quickly zoom to an area of interest and see any Operation IceBridge overflights. The map interface consists of two layers: the user can pan and zoom on the base map layer; the flight line layer that overlays the base layer provides all the campaign missions that intersect with the current map view. The user can click on the flight campaigns and download the data as needed. The OpenGIS® Web Map Service Interface Standard (WMS) provides a simple HTTP interface for requesting geo-registered map images from one or more distributed geospatial databases. Web Feature Service (WFS) provides an interface allowing requests for geographical features across the web using platform-independent calls. OpenLayers provides vector support (points, polylines and polygons) to build a WMS/WFS client for displaying both layers on the screen. Map Server, an open source development environment for building spatially enabled internet applications, is serving the WMS and WFS spatial data to OpenLayers. Early releases of the portal displayed unacceptably poor load time performance for flight lines and the base map tiles. This issue was caused by long response times from the map server in generating all map tiles and flight line vectors. We resolved the issue by implementing various caching strategies on top of the WMS and WFS services, including the use of Squid (www.squid-cache.org) to cache frequently-used content. Our presentation includes the architectural design of the application, and how we use OpenLayers, WMS and WFS with Squid to build a responsive web application capable of efficiently displaying geospatial data to allow the user to quickly interact with the displayed information. We describe the design, implementation and performance improvement of our caching strategies, and the tools and techniques developed to assist our data caching strategies.

Baseline Geochemical Data for Medical Researchers in Kentucky

NASA Astrophysics Data System (ADS)

Anderson, W.

2017-12-01

According to the Centers for Disease Control, Kentucky has the highest cancer incidence and death rates in the country. New efforts by geochemists and medical researchers are examining ways to diagnose the origin and sources of carcinogenesis. In an effort to determine if naturally occurring geochemical or mineral elements contributes to the cancer causation, the Kentucky Geological Survey has established a Minerals and Geochemical Database that is available to medical researchers for examination of baseline geochemistry and determine if naturally occurring mineral or chemical elements contribute to the high rate of cancers in the state. Cancer causation is complex, so if natural sources can be accounted for, then researchers can focus on the true causation. Naturally occurring minerals, metals and elements occur in many parts of the state, and their presence is valuable for evaluating causation. For example, some data in the database contain maps showing (a) statewide elemental geochemistry, (b) areas of black shale oxidation occurrence, which releases metals in soil and surface waters, (c) some clay deposits in the state that can contain high content of rare earth elements, and (d) site-specific uranium occurrences. Knowing the locations of major ore deposits in the state can also provide information related to mineral and chemical anomalies, such as for base metals and mercury. Radionuclide data in soil and water analyses are limited, so future research may involve obtaining more analyses to determine radon potential. This database also contains information on faulting and geology in the state. Although the metals content of trees may not seem relevant, the ash and humus content of degraded trees affects soil, stream sediment and water geochemistry. Many rural homes heat with wood, releasing metals into the surrounding biosphere. Stressed vegetation techniques can be used to explore for ore deposits and look for high metal contents in soils and rocks. These naturally occurring elements could be used for baseline information related to new collaborative research that integrates medicine, geology, forestry, and botany to predict metal contents of stream sediments, soil residuum, trees, plants, and forest cover and determine their relation to carcinogenesis.

Variations in Medical Subject Headings (MeSH) mapping: from the natural language of patron terms to the controlled vocabulary of mapped lists*

PubMed Central

Gault, Lora V.; Shultz, Mary; Davies, Kathy J.

2002-01-01

Objectives: This study compared the mapping of natural language patron terms to the Medical Subject Headings (MeSH) across six MeSH interfaces for the MEDLINE database. Methods: Test data were obtained from search requests submitted by patrons to the Library of the Health Sciences, University of Illinois at Chicago, over a nine-month period. Search request statements were parsed into separate terms or phrases. Using print sources from the National Library of Medicine, Each parsed patron term was assigned corresponding MeSH terms. Each patron term was entered into each of the selected interfaces to determine how effectively they mapped to MeSH. Data were collected for mapping success, accessibility of MeSH term within mapped list, and total number of MeSH choices within each list. Results: The selected MEDLINE interfaces do not map the same patron term in the same way, nor do they consistently lead to what is considered the appropriate MeSH term. Conclusions: If searchers utilize the MEDLINE database to its fullest potential by mapping to MeSH, the results of the mapping will vary between interfaces. This variance may ultimately impact the search results. These differences should be considered when choosing a MEDLINE interface and when instructing end users. PMID:11999175

Variations in Medical Subject Headings (MeSH) mapping: from the natural language of patron terms to the controlled vocabulary of mapped lists.

PubMed

Gault, Lora V; Shultz, Mary; Davies, Kathy J

2002-04-01

This study compared the mapping of natural language patron terms to the Medical Subject Headings (MeSH) across six MeSH interfaces for the MEDLINE database. Test data were obtained from search requests submitted by patrons to the Library of the Health Sciences, University of Illinois at Chicago, over a nine-month period. Search request statements were parsed into separate terms or phrases. Using print sources from the National Library of Medicine, Each parsed patron term was assigned corresponding MeSH terms. Each patron term was entered into each of the selected interfaces to determine how effectively they mapped to MeSH. Data were collected for mapping success, accessibility of MeSH term within mapped list, and total number of MeSH choices within each list. The selected MEDLINE interfaces do not map the same patron term in the same way, nor do they consistently lead to what is considered the appropriate MeSH term. If searchers utilize the MEDLINE database to its fullest potential by mapping to MeSH, the results of the mapping will vary between interfaces. This variance may ultimately impact the search results. These differences should be considered when choosing a MEDLINE interface and when instructing end users.

The World Karst Aquifer Mapping project: concept, mapping procedure and map of Europe

NASA Astrophysics Data System (ADS)

Chen, Zhao; Auler, Augusto S.; Bakalowicz, Michel; Drew, David; Griger, Franziska; Hartmann, Jens; Jiang, Guanghui; Moosdorf, Nils; Richts, Andrea; Stevanovic, Zoran; Veni, George; Goldscheider, Nico

2017-05-01

Karst aquifers contribute substantially to freshwater supplies in many regions of the world, but are vulnerable to contamination and difficult to manage because of their unique hydrogeological characteristics. Many karst systems are hydraulically connected over wide areas and require transboundary exploration, protection and management. In order to obtain a better global overview of karst aquifers, to create a basis for sustainable international water-resources management, and to increase the awareness in the public and among decision makers, the World Karst Aquifer Mapping (WOKAM) project was established. The goal is to create a world map and database of karst aquifers, as a further development of earlier maps. This paper presents the basic concepts and the detailed mapping procedure, using France as an example to illustrate the step-by-step workflow, which includes generalization, differentiation of continuous and discontinuous carbonate and evaporite rock areas, and the identification of non-exposed karst aquifers. The map also shows selected caves and karst springs, which are collected in an associated global database. The draft karst aquifer map of Europe shows that 21.6% of the European land surface is characterized by the presence of (continuous or discontinuous) carbonate rocks; about 13.8% of the land surface is carbonate rock outcrop.

Optimal Path Planning Program for Autonomous Speed Sprayer in Orchard Using Order-Picking Algorithm

NASA Astrophysics Data System (ADS)

Park, T. S.; Park, S. J.; Hwang, K. Y.; Cho, S. I.

This study was conducted to develop a software program which computes optimal path for autonomous navigation in orchard, especially for speed sprayer. Possibilities of autonomous navigation in orchard were shown by other researches which have minimized distance error between planned path and performed path. But, research of planning an optimal path for speed sprayer in orchard is hardly founded. In this study, a digital map and a database for orchard which contains GPS coordinate information (coordinates of trees and boundary of orchard) and entity information (heights and widths of trees, radius of main stem of trees, disease of trees) was designed. An orderpicking algorithm which has been used for management of warehouse was used to calculate optimum path based on the digital map. Database for digital map was created by using Microsoft Access and graphic interface for database was made by using Microsoft Visual C++ 6.0. It was possible to search and display information about boundary of an orchard, locations of trees, daily plan for scattering chemicals and plan optimal path on different orchard based on digital map, on each circumstance (starting speed sprayer in different location, scattering chemicals for only selected trees).