Mediterranean Founder Mutation Database (MFMD): Taking Advantage from Founder Mutations in Genetics Diagnosis, Genetic Diversity and Migration History of the Mediterranean Population.

PubMed

Charoute, Hicham; Bakhchane, Amina; Benrahma, Houda; Romdhane, Lilia; Gabi, Khalid; Rouba, Hassan; Fakiri, Malika; Abdelhak, Sonia; Lenaers, Guy; Barakat, Abdelhamid

2015-11-01

The Mediterranean basin has been the theater of migration crossroads followed by settlement of several societies and cultures in prehistoric and historical times, with important consequences on genetic and genomic determinisms. Here, we present the Mediterranean Founder Mutation Database (MFMD), established to offer web-based access to founder mutation information in the Mediterranean population. Mutation data were collected from the literature and other online resources and systematically reviewed and assembled into this database. The information provided for each founder mutation includes DNA change, amino-acid change, mutation type and mutation effect, as well as mutation frequency and coalescence time when available. Currently, the database contains 383 founder mutations found in 210 genes related to 219 diseases. We believe that MFMD will help scientists and physicians to design more rapid and less expensive genetic diagnostic tests. Moreover, the coalescence time of founder mutations gives an overview about the migration history of the Mediterranean population. MFMD can be publicly accessed from http://mfmd.pasteur.ma. © 2015 WILEY PERIODICALS, INC.

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

Carr, F. Jr.; Mahaffey, J.A.

The purpose of the DOE/OHER Chernobyl Database project is to create and maintain an information system to provide usable information for research studies related to the nuclear accident. The system is the official United States repository for information about the Chernobyl accident and its consequences, and currently includes an extensive bibliography and diverse radiological measurements with supporting information. PNL has established two resources: original (not summarized) measurement data, currently about 80,000 measurements, with ancillary information; and about 2,200 bibliographic citations, some including abstracts. Major organizations that have contributed radiological measurement data include the Washington State Department of Social and Healthmore » Services; United States Environmental Protection Agency (domestic and foreign data); United States Nuclear Regulatory Commission; Stone Webster; Brookhaven National Laboratory; Commissariat A L'energie Atomique in France; Ministry of Agriculture, Fisheries, and Food in the United Kingdom; Japan National Institute of Radiological Sciences; and the Finnish Centre For Radiation and Nuclear Safety (STUK). Scientists in Australia, Austria, Belgium, Canada, China, Denmark, England, Federal Republic of Germany, Finland, France, Ireland, Italy, Japan, the Netherlands, Romania, Scotland, Spain, Sweden, Switzerland, United States, Wales, and Yugoslavia have made contributions. Bibliographic materials have been obtained from scientists in the above countries that have replied to requests. In addition, literature searches have been conducted, including a search of the DOE Energy Database. The last search was conducted in January, 1989. This document lists the bibliographic information in the DOE/OHER Chernobyl Database at the current time.« less

NSWC Crane Aerospace Cell Test History Database

NASA Technical Reports Server (NTRS)

Brown, Harry; Moore, Bruce

1994-01-01

The Aerospace Cell Test History Database was developed to provide project engineers and scientists ready access to the data obtained from testing of aerospace cell designs at Naval Surface Warfare Center, Crane Division. The database is intended for use by all aerospace engineers and scientists involved in the design of power systems for satellites. Specifically, the database will provide a tool for project engineers to review the progress of their test at Crane and to have ready access to data for evaluation. Additionally, the database will provide a history of test results that designers can draw upon to answer questions about cell performance under certain test conditions and aid in selection of a cell for a satellite battery. Viewgraphs are included.

Is there a glass ceiling for highly cited scientists at the top of research universities?

PubMed

Ioannidis, John P A

2010-12-01

University leaders aim to protect, shape, and promote the missions of their institutions. I evaluated whether top highly cited scientists are likely to occupy these positions. Of the current leaders of 96 U.S. high research activity universities, only 6 presidents or chancellors were found among the 4009 U.S. scientists listed in the ISIHighlyCited.com database. Of the current leaders of 77 UK universities, only 2 vice-chancellors were found among the 483 UK scientists listed in the same database. In a sample of 100 top-cited clinical medicine scientists and 100 top-cited biology and biochemistry scientists, only 1 and 1, respectively, had served at any time as president of a university. Among the leaders of 25 U.S. universities with the highest citation volumes, only 12 had doctoral degrees in life, natural, physical or computer sciences, and 5 of these 12 had a Hirsch citation index m < 1.0. The participation of highly cited scientists in the top leadership of universities is limited. This could have consequences for the research and overall mission of universities.

Cooperative Research in High Energy Astrophysics between JHU and GSFC

NASA Technical Reports Server (NTRS)

Vishniac, Ethan

2004-01-01

This grant was awarded to establish and support cooperative research programs between the Center of Astrophysical Sciences (CAS) at the Johns Hopkins University and the Laboratory for High Energy Astrophysics (LHEA) at the NASA/Goddard Space Flight Center (GSFC). The goals o f the program are to facilitate, encourage and initiate: (1) sharing of resources, knowledge and expertise in the general astrophysics, and relevant databases; (2) new collaborations and projects between the two institutions and its scientists, (3) training and mentoring of JHU students and junior researchers by way of connecting them with appropriate researchers and experts at the LHEA.

Why Choose This One? Factors in Scientists' Selection of Bioinformatics Tools

ERIC Educational Resources Information Center

Bartlett, Joan C.; Ishimura, Yusuke; Kloda, Lorie A.

2011-01-01

Purpose: The objective was to identify and understand the factors involved in scientists' selection of preferred bioinformatics tools, such as databases of gene or protein sequence information (e.g., GenBank) or programs that manipulate and analyse biological data (e.g., BLAST). Methods: Eight scientists maintained research diaries for a two-week…

Release of ToxCastDB and ExpoCastDB databases

EPA Science Inventory

EPA has released two databases - the Toxicity Forecaster database (ToxCastDB) and a database of chemical exposure studies (ExpoCastDB) - that scientists and the public can use to access chemical toxicity and exposure data. ToxCastDB users can search and download data from over 50...

Biomedical science journals in the Arab world.

PubMed

Tadmouri, Ghazi O

2004-10-01

Medieval Arab scientists established the basis of medical practice and gave important attention to the publication of scientific results. At present, modern scientific publishing in the Arab world is in its developmental stage. Arab biomedical journals are less than 300, most of which are published in Egypt, Lebanon, and the Kingdom of Saudi Arabia. Yet, many of these journals do not have on-line access or are indexed in major bibliographic databases. The majority of indexed journals, however, do not have a stable presence in the popular PubMed database and their indexes are discontinued since 2001. The exposure of Arab biomedical journals in international indices undoubtedly plays an important role in improving the scientific quality of these journals. The successful examples discussed in this review encourage us to call for the formation of a consortium of Arab biomedical journal publishers to assist in redressing the balance of the region from biomedical data consumption to data production.

Updates to the Virtual Atomic and Molecular Data Centre

NASA Astrophysics Data System (ADS)

Hill, Christian; Tennyson, Jonathan; Gordon, Iouli E.; Rothman, Laurence S.; Dubernet, Marie-Lise

2014-06-01

The Virtual Atomic and Molecular Data Centre (VAMDC) has established a set of standards for the storage and transmission of atomic and molecular data and an SQL-based query language (VSS2) for searching online databases, known as nodes. The project has also created an online service, the VAMDC Portal, through which all of these databases may be searched and their results compared and aggregated. Since its inception four years ago, the VAMDC e-infrastructure has grown to encompass over 40 databases, including HITRAN, in more than 20 countries and engages actively with scientists in six continents. Associated with the portal are a growing suite of software tools for the transformation of data from its native, XML-based, XSAMS format, to a range of more convenient human-readable (such as HTML) and machinereadable (such as CSV) formats. The relational database for HITRAN1, created as part of the VAMDC project is a flexible and extensible data model which is able to represent a wider range of parameters than the current fixed-format text-based one. Over the next year, a new online interface to this database will be tested, released and fully documented - this web application, HITRANonline2, will fully replace the ageing and incomplete JavaHAWKS software suite.

The Permafrost Young Researchers Network (PYRN): Contribution to IPY's "Thermal State of Permafrost"

NASA Astrophysics Data System (ADS)

Johansson, M.; Lantuit, H.; Frauenfeld, O. W.

2007-12-01

The Permafrost Young Researchers Network (PYRN, www.pyrn.org) is a unique resource for students, young scientists, and engineers studying permafrost. It is an international organization fostering innovative collaboration, seeking to recruit, retain, and promote future generations of permafrost scientists and engineers. Initiated for and during IPY, PYRN directs the multi-disciplinary talents of its membership toward global awareness, knowledge, and response to permafrost-related challenges in a changing climate. Created as an education and outreach component of the International Permafrost Association (IPA), PYRN is a central database of permafrost information and science for more than 350 young researchers from 33 countries. PYRN distributes a newsletter, recognizes outstanding permafrost research by its members through an annual awards program, organizes training workshops (2007 in Abisko, Sweden and St. Petersburg, Russia), and contributes to the growth and future of the permafrost community. While networking forms the basis of PYRN's activities, the organization also seeks to establish itself as a driver of permafrost research for the IPY and beyond. We recently launched a series of initiatives on several continents aimed at providing young scientists and engineers with the means to conduct ground temperature monitoring in under-investigated permafrost regions. Focusing on sites not currently covered by the IPA's "Thermal State of Permafrost" project, the young investigators of PYRN will provide and use lightweight drills and temperature sensors to instrument shallow boreholes in those regions. The data and results will be incorporated in the global database on permafrost temperatures and made freely available to the scientific community, thereby contributing to the advance of permafrost science and the strengthening of the next generation of permafrost researchers.

[Analysis of Spanish research collaboration in emergency medicine: 2010-2014].

PubMed

Burbano Santos, Pablo; Fernández-Guerrero, Inés María; Martín-Sánchez, Francisco Javier; Burillo, Guillermo; Miró, Òscar

2017-10-01

To describe the structure of the Spanish emergency medicine research network or networks, researchers' roles, and patterns of collaboration between hospitals. The search for publications was carried out in the SCOPUS database for the 5-year period of 2010 to 2014. We used network analysis software to map ties between researchers and hospitals that had established at least 5 and 10 relationships, respectively, during the period under study. We calculated indicators of degree of centrality for individual scientists and hospitals and tabulated data for the main authors and centers. We identified 2626 articles with 12 372 different authors at 1134 hospitals in 75 countries. The largest number of international relations were with France, the United States, and the United Kingdom. Authors had established 93 687 connections that allowed us to identify 23 collaborating groups, the largest of which was comprised of 30 individuals. We also found 12 855 connections between hospitals that identified a single subnetwork of collaboration comprised of 19 hospitals, 1 of which was in Switzerland. Measures of centrality, intermediation, and proximity led to classification of the most important members of author and hospital networks. This analysis of research networks in emergency medicine has afforded the first details describing the relationships maintained by Spanish scientists and hospitals.

Publish or perish: Scientists must write or How do I climb the paper mountain?

USDA-ARS?s Scientific Manuscript database

This will be an interactive workshop for scientists discussing strategies for improving writing efficiency. Topics covered include database search engines, reference managing software, authorship, journal determination, writing tips and good writing habits....

Who Believes in the Storybook Image of the Scientist?

PubMed

Veldkamp, Coosje L S; Hartgerink, Chris H J; van Assen, Marcel A L M; Wicherts, Jelte M

2017-01-01

Do lay people and scientists themselves recognize that scientists are human and therefore prone to human fallibilities such as error, bias, and even dishonesty? In a series of three experimental studies and one correlational study (total N = 3,278) we found that the "storybook image of the scientist" is pervasive: American lay people and scientists from over 60 countries attributed considerably more objectivity, rationality, open-mindedness, intelligence, integrity, and communality to scientists than to other highly-educated people. Moreover, scientists perceived even larger differences than lay people did. Some groups of scientists also differentiated between different categories of scientists: established scientists attributed higher levels of the scientific traits to established scientists than to early-career scientists and Ph.D. students, and higher levels to Ph.D. students than to early-career scientists. Female scientists attributed considerably higher levels of the scientific traits to female scientists than to male scientists. A strong belief in the storybook image and the (human) tendency to attribute higher levels of desirable traits to people in one's own group than to people in other groups may decrease scientists' willingness to adopt recently proposed practices to reduce error, bias and dishonesty in science.

A Database Evaluation Based on Information Needs of Academic Social Scientists.

ERIC Educational Resources Information Center

Buterbaugh, Nancy Toth

This study evaluates two databases, "Historical Abstracts" and REESWeb, to determine their effectiveness in supporting academic social science research. While many performance evaluations gather quantitative data from isolated query and response transactions, this study is a qualitative evaluation of the databases in the context of…

BNDB - the Biochemical Network Database.

PubMed

Küntzer, Jan; Backes, Christina; Blum, Torsten; Gerasch, Andreas; Kaufmann, Michael; Kohlbacher, Oliver; Lenhof, Hans-Peter

2007-10-02

Technological advances in high-throughput techniques and efficient data acquisition methods have resulted in a massive amount of life science data. The data is stored in numerous databases that have been established over the last decades and are essential resources for scientists nowadays. However, the diversity of the databases and the underlying data models make it difficult to combine this information for solving complex problems in systems biology. Currently, researchers typically have to browse several, often highly focused, databases to obtain the required information. Hence, there is a pressing need for more efficient systems for integrating, analyzing, and interpreting these data. The standardization and virtual consolidation of the databases is a major challenge resulting in a unified access to a variety of data sources. We present the Biochemical Network Database (BNDB), a powerful relational database platform, allowing a complete semantic integration of an extensive collection of external databases. BNDB is built upon a comprehensive and extensible object model called BioCore, which is powerful enough to model most known biochemical processes and at the same time easily extensible to be adapted to new biological concepts. Besides a web interface for the search and curation of the data, a Java-based viewer (BiNA) provides a powerful platform-independent visualization and navigation of the data. BiNA uses sophisticated graph layout algorithms for an interactive visualization and navigation of BNDB. BNDB allows a simple, unified access to a variety of external data sources. Its tight integration with the biochemical network library BN++ offers the possibility for import, integration, analysis, and visualization of the data. BNDB is freely accessible at http://www.bndb.org.

Who Believes in the Storybook Image of the Scientist?

PubMed Central

Veldkamp, Coosje L. S.; Hartgerink, Chris H. J.; van Assen, Marcel A. L. M.; Wicherts, Jelte M.

2017-01-01

ABSTRACT Do lay people and scientists themselves recognize that scientists are human and therefore prone to human fallibilities such as error, bias, and even dishonesty? In a series of three experimental studies and one correlational study (total N = 3,278) we found that the “storybook image of the scientist” is pervasive: American lay people and scientists from over 60 countries attributed considerably more objectivity, rationality, open-mindedness, intelligence, integrity, and communality to scientists than to other highly-educated people. Moreover, scientists perceived even larger differences than lay people did. Some groups of scientists also differentiated between different categories of scientists: established scientists attributed higher levels of the scientific traits to established scientists than to early-career scientists and Ph.D. students, and higher levels to Ph.D. students than to early-career scientists. Female scientists attributed considerably higher levels of the scientific traits to female scientists than to male scientists. A strong belief in the storybook image and the (human) tendency to attribute higher levels of desirable traits to people in one’s own group than to people in other groups may decrease scientists’ willingness to adopt recently proposed practices to reduce error, bias and dishonesty in science. PMID:28001440

Databases on biotechnology and biosafety of GMOs.

PubMed

Degrassi, Giuliano; Alexandrova, Nevena; Ripandelli, Decio

2003-01-01

Due to the involvement of scientific, industrial, commercial and public sectors of society, the complexity of the issues concerning the safety of genetically modified organisms (GMOs) for the environment, agriculture, and human and animal health calls for a wide coverage of information. Accordingly, development of the field of biotechnology, along with concerns related to the fate of released GMOs, has led to a rapid development of tools for disseminating such information. As a result, there is a growing number of databases aimed at collecting and storing information related to GMOs. Most of the sites deal with information on environmental releases, field trials, transgenes and related sequences, regulations and legislation, risk assessment documents, and literature. Databases are mainly established and managed by scientific, national or international authorities, and are addressed towards scientists, government officials, policy makers, consumers, farmers, environmental groups and civil society representatives. This complexity can lead to an overlapping of information. The purpose of the present review is to analyse the relevant databases currently available on the web, providing comments on their vastly different information and on the structure of the sites pertaining to different users. A preliminary overview on the development of these sites during the last decade, at both the national and international level, is also provided.

Social Network Analysis of a Scientist-Practitioner Research Initiative Established to Facilitate Science Dissemination and Implementation within States and Communities

ERIC Educational Resources Information Center

Ginexi, Elizabeth M.; Huang, Grace; Steketee, Michael; Tsakraklides, Sophia; MacAllum, Keith; Bromberg, Julie; Huffman, Amanda; Luke, Douglas A.; Leischow, Scott J.; Okamoto, Janet M.; Rogers, Todd

2017-01-01

This article presents a case study of a scientist-practitioner research network established by the National Cancer Institute's State and Community Tobacco Control Research Initiative. While prior programs have focused on collaboration among scientists, a goal here was to encourage collaborations with non-university, practice-based partners. Two…

PMAG: Relational Database Definition

NASA Astrophysics Data System (ADS)

Keizer, P.; Koppers, A.; Tauxe, L.; Constable, C.; Genevey, A.; Staudigel, H.; Helly, J.

2002-12-01

The Scripps center for Physical and Chemical Earth References (PACER) was established to help create databases for reference data and make them available to the Earth science community. As part of these efforts PACER supports GERM, REM and PMAG and maintains multiple online databases under the http://earthref.org umbrella website. This website has been built on top of a relational database that allows for the archiving and electronic access to a great variety of data types and formats, permitting data queries using a wide range of metadata. These online databases are designed in Oracle 8.1.5 and they are maintained at the San Diego Supercomputer Center. They are directly available via http://earthref.org/databases/. A prototype of the PMAG relational database is now operational within the existing EarthRef.org framework under http://earthref.org/databases/PMAG/. As will be shown in our presentation, the PMAG design focuses around the general workflow that results in the determination of typical paleo-magnetic analyses. This ensures that individual data points can be traced between the actual analysis and the specimen, sample, site, locality and expedition it belongs to. These relations guarantee traceability of the data by distinguishing between original and derived data, where the actual (raw) measurements are performed on the specimen level, and data on the sample level and higher are then derived products in the database. These relations may also serve to recalculate site means when new data becomes available for that locality. The PMAG data records are extensively described in terms of metadata. These metadata are used when scientists search through this online database in order to view and download their needed data. They minimally include method descriptions for field sampling, laboratory techniques and statistical analyses. They also include selection criteria used during the interpretation of the data and, most importantly, critical information about the site location (latitude, longitude, elevation), geography (continent, country, region), geological setting (lithospheric plate or block, tectonic setting), geological age (age range, timescale name, stratigraphic position) and materials (rock type, classification, alteration state). Each data point and method description is also related to its peer-reviewed reference [citation ID] as archived in the EarthRef Reference Database (ERR). This guarantees direct traceability all the way to its original source, where the user can find the bibliography of each PMAG reference along with every abstract, data table, technical note and/or appendix that are available in digital form and that can be downloaded as PDF/JPEG images and Microsoft Excel/Word data files. This may help scientists and teachers in performing their research since they have easy access to all the scientific data. It also allows for checking potential errors during the digitization process. Please visit the PMAG website at http://earthref.org/PMAG/ for more information.

Do we need a Unique Scientist ID for publications in biomedicine?

PubMed

Bohne-Lang, Andreas; Lang, Elke

2005-03-22

BACKGROUND: The PubMed database contains nearly 15 million references from more than 4,800 biomedical journals. In general, authors of scientific articles are addressed by their last name and forename initial. DISCUSSION: In general, names can be too common and not unique enough to be search criteria. Today, Ph.D. students, other researchers and women publish scientific work. A person may not only have one name but several names and publish under each name. A Unique Scientist ID could help to address people in peer-to-peer (P2P) networks. As a starting point, perhaps PubMed could generate and manage such a scientist ID. SUMMARY: A Unique Scientist ID would improve knowledge management in science. Unfortunately in some of the publications, and then within the online databases, only one letter abbreviates the author's forename. A common name with only one initial could retrieve pertinent citations, but include many false drops (retrieval matching searched criteria but indisputably irrelevant).

Blending Education and Polymer Science: Semiautomated Creation of a Thermodynamic Property Database

ERIC Educational Resources Information Center

Tchoua, Roselyne B.; Qin, Jian; Audus, Debra J.; Chard, Kyle; Foster, Ian T.; de Pablo, Juan

2016-01-01

Structured databases of chemical and physical properties play a central role in the everyday research activities of scientists and engineers. In materials science, researchers and engineers turn to these databases to quickly query, compare, and aggregate various properties, thereby allowing for the development or application of new materials. The…

Bridging the Gap between the Data Base and User in a Distributed Environment.

ERIC Educational Resources Information Center

Howard, Richard D.; And Others

1989-01-01

The distribution of databases physically separates users from those who administer the database and the administrators who perform database administration. By drawing on the work of social scientists in reliability and validity, a set of concepts and a list of questions to ensure data quality were developed. (Author/MLW)

Secure web book to store structural genomics research data.

PubMed

Manjasetty, Babu A; Höppner, Klaus; Mueller, Uwe; Heinemann, Udo

2003-01-01

Recently established collaborative structural genomics programs aim at significantly accelerating the crystal structure analysis of proteins. These large-scale projects require efficient data management systems to ensure seamless collaboration between different groups of scientists working towards the same goal. Within the Berlin-based Protein Structure Factory, the synchrotron X-ray data collection and the subsequent crystal structure analysis tasks are located at BESSY, a third-generation synchrotron source. To organize file-based communication and data transfer at the BESSY site of the Protein Structure Factory, we have developed the web-based BCLIMS, the BESSY Crystallography Laboratory Information Management System. BCLIMS is a relational data management system which is powered by MySQL as the database engine and Apache HTTP as the web server. The database interface routines are written in Python programing language. The software is freely available to academic users. Here we describe the storage, retrieval and manipulation of laboratory information, mainly pertaining to the synchrotron X-ray diffraction experiments and the subsequent protein structure analysis, using BCLIMS.

76 FR 10755 - Establishment of Office of the Chief Scientist; Revision of Delegations of Authority

Federal Register 2010, 2011, 2012, 2013, 2014

2011-02-28

... DEPARTMENT OF AGRICULTURE Office of the Secretary 7 CFR Part 2 Establishment of Office of the... Agriculture (USDA) to reflect the establishment of the Office of the Chief Scientist within the Research... Department of Agriculture, 1400 Independence Ave., SW., Washington, DC 20250, or telephone: (202) 720-3444...

Scientists at Work. Final Report.

ERIC Educational Resources Information Center

Education Turnkey Systems, Inc., Falls Church, VA.

This report summarizes activities related to the development, field testing, evaluation, and marketing of the "Scientists at Work" program which combines computer assisted instruction with database tools to aid cognitively impaired middle and early high school children in learning and applying thinking skills to science. The brief report reviews…

Preserving Geological Samples and Metadata from Polar Regions

NASA Astrophysics Data System (ADS)

Grunow, A.; Sjunneskog, C. M.

2011-12-01

The Office of Polar Programs at the National Science Foundation (NSF-OPP) has long recognized the value of preserving earth science collections due to the inherent logistical challenges and financial costs of collecting geological samples from Polar Regions. NSF-OPP established two national facilities to make Antarctic geological samples and drill cores openly and freely available for research. The Antarctic Marine Geology Research Facility (AMGRF) at Florida State University was established in 1963 and archives Antarctic marine sediment cores, dredge samples and smear slides along with ship logs. The United States Polar Rock Repository (USPRR) at Ohio State University was established in 2003 and archives polar rock samples, marine dredges, unconsolidated materials and terrestrial cores, along with associated materials such as field notes, maps, raw analytical data, paleomagnetic cores, thin sections, microfossil mounts, microslides and residues. The existence of the AMGRF and USPRR helps to minimize redundant sample collecting, lessen the environmental impact of doing polar field work, facilitates field logistics planning and complies with the data sharing requirement of the Antarctic Treaty. USPRR acquires collections through donations from institutions and scientists and then makes these samples available as no-cost loans for research, education and museum exhibits. The AMGRF acquires sediment cores from US based and international collaboration drilling projects in Antarctica. Destructive research techniques are allowed on the loaned samples and loan requests are accepted from any accredited scientific institution in the world. Currently, the USPRR has more than 22,000 cataloged rock samples available to scientists from around the world. All cataloged samples are relabeled with a USPRR number, weighed, photographed and measured for magnetic susceptibility. Many aspects of the sample metadata are included in the database, e.g. geographical location, sample description, collector, rock age, formation, section location, multimedia images as well structural data, field observations, logistics, surface features, etc. The metadata are entered into a commercial, museum based database called EMu. The AMGRF houses more than 25,000m of deep-sea cores and drill cores as well as nearly 3,000 meters of rotary cored geological material from Antarctica. Detailed information on the sediment cores including location, sediment composition are available in cruise reports posted on the AMGRF web-site. Researchers may access the sample collections through the online websites (http://www-bprc.mps.ohio-state.edu/emuwebusprr and http://www.arf.fsu.edu). Searches may be done using multiple search terms or by use of the mapping feature. The on-line databases provide an essential resource for proposal preparation, pilot studies and other sample based research that should make fieldwork more efficient.

Tools You Can Use! E/PO Resources for Scientists and Faculty to Use and Contribute To: EarthSpace and the NASA SMD Scientist Speaker’s Bureau

NASA Astrophysics Data System (ADS)

Buxner, Sanlyn; Shupla, C.; CoBabe-Ammann, E.; Dalton, H.; Shipp, S.

2013-10-01

The Planetary Science Education and Public Outreach (E/PO) Forum has helped to create two tools that are designed to help scientists and higher-education science faculty make stronger connections with their audiences: EarthSpace, an education clearinghouse for the undergraduate classroom; and NASA SMD Scientist Speaker’s Bureau, an online portal to help bring science - and scientists - to the public. Are you looking for Earth and space science higher education resources and materials? Come explore EarthSpace, a searchable database of undergraduate classroom materials for faculty teaching Earth and space sciences at both the introductory and upper division levels! In addition to classroom materials, EarthSpace provides news and information about educational research, best practices, and funding opportunities. All materials submitted to EarthSpace are peer reviewed, ensuring that the quality of the EarthSpace materials is high and also providing important feedback to authors. Your submission is a reviewed publication! Learn more, search for resources, join the listserv, sign up to review materials, and submit your own at http://www.lpi.usra.edu/earthspace. Join the new NASA SMD Scientist Speaker’s Bureau, an online portal to connect scientists interested in getting involved in E/PO projects (e.g., giving public talks, classroom visits, and virtual connections) with audiences! The Scientist Speaker’s Bureau helps educators and institutions connect with NASA scientists who are interested in giving presentations, based upon the topic, logistics, and audience. The information input into the database will be used to help match scientists (you!) with the requests being placed by educators. All Earth and space scientists funded by NASA - and/or engaged in active research using NASA’s science - are invited to become part of the Scientist Speaker’s Bureau. Submit your information into the short form at http://www.lpi.usra.edu/education/speaker.

Literature and patent analysis of the cloning and identification of human functional genes in China.

PubMed

Xia, Yan; Tang, LiSha; Yao, Lei; Wan, Bo; Yang, XianMei; Yu, Long

2012-03-01

The Human Genome Project was launched at the end of the 1980s. Since then, the cloning and identification of functional genes has been a major focus of research across the world. In China too, the potentially profound impact of such studies on the life sciences and on human health was realized, and relevant studies were initiated in the 1990s. To advance China's involvement in the Human Genome Project, in the mid-1990s, Committee of Experts in Biology from National High Technology Research and Development Program of China (863 Program) proposed the "two 1%" goal. This goal envisaged China contributing 1% of the total sequencing work, and cloning and identifying 1% of the total human functional genes. Over the past 20 years, tremendous achievement has been accomplished by Chinese scientists. It is well known that scientists in China finished the 1% of sequencing work of the Human Genome Project, whereas, there is no comprehensive report about "whether China had finished cloning and identifying 1% of human functional genes". In the present study, the GenBank database at the National Center of Biotechnology Information, the PubMed search tool, and the patent database of the State Intellectual Property Office, China, were used to retrieve entries based on two screening standards: (i) Were the newly cloned and identified genes first reported by Chinese scientists? (ii) Were the Chinese scientists awarded the gene sequence patent? Entries were retrieved from the databases up to the cut-off date of 30 June 2011 and the obtained data were analyzed further. The results showed that 589 new human functional genes were first reported by Chinese scientists and 159 gene sequences were patented (http://gene.fudan.sh.cn/introduction/database/chinagene/chinagene.html). This study systematically summarizes China's contributions to human functional genomics research and answers the question "has China finished cloning and identifying 1% of human functional genes?" in the affirmative.

A complete database for the Einstein imaging proportional counter

NASA Technical Reports Server (NTRS)

Helfand, David J.

1991-01-01

A complete database for the Einstein Imaging Proportional Counter (IPC) was completed. The original data that makes up the archive is described as well as the structure of the database, the Op-Ed analysis system, the technical advances achieved relative to the analysis of (IPC) data, the data products produced, and some uses to which the database has been put by scientists outside Columbia University over the past year.

U.S. Geological Survey Community for Data Integration-NWIS Web Services Snapshot Tool for ArcGIS

USGS Publications Warehouse

Holl, Sally

2011-01-01

U.S. Geological Survey (USGS) data resources are so vast that many scientists are unaware of data holdings that may be directly relevant to their research. Data are also difficult to access and large corporate databases, such as the National Water Information System (NWIS) that houses hydrologic data for the Nation, are challenging to use without considerable expertise and investment of time. The USGS Community for Data Integration (CDI) was established in 2009 to address data and information management issues affecting the proficiency of earth science research. A CDI workshop convened in 2009 identified common data integration needs of USGS scientists and targeted high value opportunities that might address these needs by leveraging existing projects in USGS science centers, in-kind contributions, and supplemental funding. To implement this strategy, CDI sponsored a software development project in 2010 to facilitate access and use of NWIS data with ArcGIS, a widely used Geographic Information System. The resulting software product, the NWIS Web Services Snapshot Tool for ArcGIS, is presented here.

Consolidated Human Activity Database (CHAD) for use in human exposure and health studies and predictive models

EPA Pesticide Factsheets

EPA scientists have compiled detailed data on human behavior from 22 separate exposure and time-use studies into CHAD. The database includes more than 54,000 individual study days of detailed human behavior.

Overview of open resources to support automated structure verification and elucidation

EPA Science Inventory

Cheminformatics methods form an essential basis for providing analytical scientists with access to data, algorithms and workflows. There are an increasing number of free online databases (compound databases, spectral libraries, data repositories) and a rich collection of software...

An open experimental database for exploring inorganic materials

DOE PAGES

Zakutayev, Andriy; Wunder, Nick; Schwarting, Marcus; ...

2018-04-03

The use of advanced machine learning algorithms in experimental materials science is limited by the lack of sufficiently large and diverse datasets amenable to data mining. If publicly open, such data resources would also enable materials research by scientists without access to expensive experimental equipment. Here, we report on our progress towards a publicly open High Throughput Experimental Materials (HTEM) Database (htem.nrel.gov). This database currently contains 140,000 sample entries, characterized by structural (100,000), synthetic (80,000), chemical (70,000), and optoelectronic (50,000) properties of inorganic thin film materials, grouped in >4,000 sample entries across >100 materials systems; more than a half ofmore » these data are publicly available. This article shows how the HTEM database may enable scientists to explore materials by browsing web-based user interface and an application programming interface. This paper also describes a HTE approach to generating materials data, and discusses the laboratory information management system (LIMS), that underpin HTEM database. Finally, this manuscript illustrates how advanced machine learning algorithms can be adopted to materials science problems using this open data resource.« less

An open experimental database for exploring inorganic materials.

PubMed

Zakutayev, Andriy; Wunder, Nick; Schwarting, Marcus; Perkins, John D; White, Robert; Munch, Kristin; Tumas, William; Phillips, Caleb

2018-04-03

The use of advanced machine learning algorithms in experimental materials science is limited by the lack of sufficiently large and diverse datasets amenable to data mining. If publicly open, such data resources would also enable materials research by scientists without access to expensive experimental equipment. Here, we report on our progress towards a publicly open High Throughput Experimental Materials (HTEM) Database (htem.nrel.gov). This database currently contains 140,000 sample entries, characterized by structural (100,000), synthetic (80,000), chemical (70,000), and optoelectronic (50,000) properties of inorganic thin film materials, grouped in >4,000 sample entries across >100 materials systems; more than a half of these data are publicly available. This article shows how the HTEM database may enable scientists to explore materials by browsing web-based user interface and an application programming interface. This paper also describes a HTE approach to generating materials data, and discusses the laboratory information management system (LIMS), that underpin HTEM database. Finally, this manuscript illustrates how advanced machine learning algorithms can be adopted to materials science problems using this open data resource.

An open experimental database for exploring inorganic materials

PubMed Central

Zakutayev, Andriy; Wunder, Nick; Schwarting, Marcus; Perkins, John D.; White, Robert; Munch, Kristin; Tumas, William; Phillips, Caleb

2018-01-01

The use of advanced machine learning algorithms in experimental materials science is limited by the lack of sufficiently large and diverse datasets amenable to data mining. If publicly open, such data resources would also enable materials research by scientists without access to expensive experimental equipment. Here, we report on our progress towards a publicly open High Throughput Experimental Materials (HTEM) Database (htem.nrel.gov). This database currently contains 140,000 sample entries, characterized by structural (100,000), synthetic (80,000), chemical (70,000), and optoelectronic (50,000) properties of inorganic thin film materials, grouped in >4,000 sample entries across >100 materials systems; more than a half of these data are publicly available. This article shows how the HTEM database may enable scientists to explore materials by browsing web-based user interface and an application programming interface. This paper also describes a HTE approach to generating materials data, and discusses the laboratory information management system (LIMS), that underpin HTEM database. Finally, this manuscript illustrates how advanced machine learning algorithms can be adopted to materials science problems using this open data resource. PMID:29611842

An open experimental database for exploring inorganic materials

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

Zakutayev, Andriy; Wunder, Nick; Schwarting, Marcus

The use of advanced machine learning algorithms in experimental materials science is limited by the lack of sufficiently large and diverse datasets amenable to data mining. If publicly open, such data resources would also enable materials research by scientists without access to expensive experimental equipment. Here, we report on our progress towards a publicly open High Throughput Experimental Materials (HTEM) Database (htem.nrel.gov). This database currently contains 140,000 sample entries, characterized by structural (100,000), synthetic (80,000), chemical (70,000), and optoelectronic (50,000) properties of inorganic thin film materials, grouped in >4,000 sample entries across >100 materials systems; more than a half ofmore » these data are publicly available. This article shows how the HTEM database may enable scientists to explore materials by browsing web-based user interface and an application programming interface. This paper also describes a HTE approach to generating materials data, and discusses the laboratory information management system (LIMS), that underpin HTEM database. Finally, this manuscript illustrates how advanced machine learning algorithms can be adopted to materials science problems using this open data resource.« less

[Which are the most influential journals, books and scientists in Latin American biology?].

PubMed

Monge-Nájera, Julián; Benavides-Varela, Catalina; Morera, Bernal

2004-03-01

A survey was distributed by e-mail to 553 biologists who study the Neotropics, in order to identify the journals, books and researchers with the greatest influence over Latin American biology. The biologists' database of the Revista de Biología Tropical was used to obtain their addresses. One third of them answered. The Revista de Biología Tropical is considered the most influential journal in the region. The majority of other influential journals are published in developed countries. The thematic distribution of answers, as well as independent assessments found in the literature, indicate that these and other survey results are not biased by the use of the journal's database. By subject, marine and ecological journals are the most influential. In contrast with American science, there are no researchers or books that clearly dominate the field. These results hint to the subjectivity of many awards and qualifications and possibly reflect a lack of tradition regarding appearance of local scientists in the mass media, the small capacity of world wide diffusion for local research and the low priority of science in the Iberoamerican culture. Latin American journals should improve, specially through efficient communication with authors, stringent rejection of inferior manuscripts and through widespread and timely distribution. The marked dominance by male researchers may reflect the lower number of women in the field, and social inequality. Despite the absence of "superstars", there was a correlation: most scientists in the "list of outstanding researchers" were from large countries. The publication of the most influential journal in one of the smallest countries of the region might reflect the relatively long period of existence of the Revista (half a century), the lack of other alternatives in the region and the journal's inclusion in international indices. Recommendations for Latin American science include a selection of the best journals to receive financial support and the establishment, with help from the mass media, of a group of selected researchers as role models for the new generations.

Permafrost Young Researchers Get Their Hands Dirty: The PYRN-Thermal State of Permafrost IPY Project

NASA Astrophysics Data System (ADS)

Johansson, M.; Lantuit, H.

2009-04-01

The Permafrost Young Researchers Network (PYRN) (www.pyrn.org) is a unique resource for students and young scientists and engineers studying permafrost. It is an international organization fostering innovative collaboration, seeking to recruit, retain, and promote future generations of permafrost scientists and engineers. Initiated for and during IPY, PYRN directs the multi-disciplinary talents of its membership toward global awareness, knowledge, and response to permafrost-related challenges in a changing climate. Created as an education and outreach component of the International Permafrost Association (IPA), PYRN is a central database of permafrost information and science for more than 500 young researchers from over 40 countries. PYRN distributes a newsletter, recognizes outstanding permafrost research by its members through an annual awards program, organizes training workshops (2007 in Abisko, Sweden and St. Petersburg, Russia, 2008 in Fairbanks, Alaska and St. Petersburg, Russia), and contributes to the growth and future of the permafrost community. While networking forms the basis of PYRN's activities, the organization also seeks to establish itself as a driver of permafrost research for the IPY and beyond. We recently launched a series of initiatives on several continents aimed at providing young scientists and engineers with the means to conduct ground temperature monitoring in under investigated permafrost regions. Focusing on sites not currently covered by the IPA's "Thermal State of Permafrost" project, the young investigators of PYRN successfully launched and funded the PYRN-TSP project. They use lightweight drills and temperature sensors to instrument shallow boreholes in those regions. The first phase of the project was started in the spring of 2008 at Scandinavian sites. The data and results will be incorporated in the global database on permafrost temperatures and made freely available to the scientific community, thereby contributing to the advance of permafrost science and the strengthening of the next generation of permafrost researchers.

Methods for structuring scientific knowledge from many areas related to aging research.

PubMed

Zhavoronkov, Alex; Cantor, Charles R

2011-01-01

Aging and age-related disease represents a substantial quantity of current natural, social and behavioral science research efforts. Presently, no centralized system exists for tracking aging research projects across numerous research disciplines. The multidisciplinary nature of this research complicates the understanding of underlying project categories, the establishment of project relations, and the development of a unified project classification scheme. We have developed a highly visual database, the International Aging Research Portfolio (IARP), available at AgingPortfolio.org to address this issue. The database integrates information on research grants, peer-reviewed publications, and issued patent applications from multiple sources. Additionally, the database uses flexible project classification mechanisms and tools for analyzing project associations and trends. This system enables scientists to search the centralized project database, to classify and categorize aging projects, and to analyze the funding aspects across multiple research disciplines. The IARP is designed to provide improved allocation and prioritization of scarce research funding, to reduce project overlap and improve scientific collaboration thereby accelerating scientific and medical progress in a rapidly growing area of research. Grant applications often precede publications and some grants do not result in publications, thus, this system provides utility to investigate an earlier and broader view on research activity in many research disciplines. This project is a first attempt to provide a centralized database system for research grants and to categorize aging research projects into multiple subcategories utilizing both advanced machine algorithms and a hierarchical environment for scientific collaboration.

NCAR Johns Hopkins/CDC Climate and Health Summer Institute

NASA Technical Reports Server (NTRS)

Mearns, Linda O.

2005-01-01

The interactions between climate and health are rife with complexity and present many conceptual and methodological challenges. Possible effects of climate change on health are considered some of the most sensitive impacts of climate change and are a high priority for policy-makers and the public. As a first step toward improving tlit: quality of research, we developed a Climate and Health Workshop (Institute), geared toward teaching students various aspects of how to conduct integrated climate and health research. At the workshop scientists presented selected case studies of climate and health (e.g., heat mortality, vector-borne diseases), thus demonstrating a subset of key analytical tools and databases most useful to researchers in this field. Key research gaps in this research area were discussed. In this six-day Institute (21-28 July 2004, Boulder, Colorado), health scientists and students benefited from lectures and hands-on tools taught by top NCAR scientists. The attendees learned about health databases and epidemiologic methods from leading health scientists from CDC, Johns Hopkins, and other institutions from around the globe.

On the level of coverage and citation of publications by mechanicians of the national academy of sciences of Ukraine in the Scopus database

NASA Astrophysics Data System (ADS)

Guz, A. N.; Rushchitsky, J. J.

2009-11-01

The paper analyzes the level of coverage and citation of publications by mechanicians of the National Academy of Sciences of Ukraine (NASU) in the Scopus database. Two groups of mechanicians are considered. One group includes 66 doctors of sciences of the S. P. Timoshenko Institute of Mechanics as representatives of the oldest institute of the NASU. The other group includes 34 members (academicians and corresponding members) of the Division of Mechanics of the NASU as representatives of the authoritative community of mechanicians in Ukraine. The results are presented for each scientist in the form of two indices—the total number of publications accessible in the database as the level of coverage of the scientist's publications in this database and the h-index as the citation level of these publications. This paper may be considered to continue the papers [6-12] published in Prikladnaya Mekhanika (International Applied Mechanics) in 2005-2009

Molecular Genetics Information System (MOLGENIS): alternatives in developing local experimental genomics databases.

PubMed

Swertz, Morris A; De Brock, E O; Van Hijum, Sacha A F T; De Jong, Anne; Buist, Girbe; Baerends, Richard J S; Kok, Jan; Kuipers, Oscar P; Jansen, Ritsert C

2004-09-01

Genomic research laboratories need adequate infrastructure to support management of their data production and research workflow. But what makes infrastructure adequate? A lack of appropriate criteria makes any decision on buying or developing a system difficult. Here, we report on the decision process for the case of a molecular genetics group establishing a microarray laboratory. Five typical requirements for experimental genomics database systems were identified: (i) evolution ability to keep up with the fast developing genomics field; (ii) a suitable data model to deal with local diversity; (iii) suitable storage of data files in the system; (iv) easy exchange with other software; and (v) low maintenance costs. The computer scientists and the researchers of the local microarray laboratory considered alternative solutions for these five requirements and chose the following options: (i) use of automatic code generation; (ii) a customized data model based on standards; (iii) storage of datasets as black boxes instead of decomposing them in database tables; (iv) loosely linking to other programs for improved flexibility; and (v) a low-maintenance web-based user interface. Our team evaluated existing microarray databases and then decided to build a new system, Molecular Genetics Information System (MOLGENIS), implemented using code generation in a period of three months. This case can provide valuable insights and lessons to both software developers and a user community embarking on large-scale genomic projects. http://www.molgenis.nl

[Attitudes towards the code of conduct for scientists among council members of the Japanese Society for Hygiene].

PubMed

Ikeda, Wakaha; Inaba, Yutaka; Yoshida, Katsumi; Takeshita, Tatsuya; Ogoshi, Kumiko; Okamoto, Kazushi

2010-01-01

The aim of this study was to clarify the attitudes towards the code of conduct for scientists among council members of the Japanese Society for Hygiene (JSH). We also aimed to collect information to be used as baseline data for future studies. From November to December 2007, 439 Council members of the Japanese Society for Hygiene completed a self-administered questionnaire. The valid response rate was 43.7% (n=192/439). The mean ages of the subjects were 56.2 years for males (n=171), and 53.0 years for females (n=19). Many council members were unfamiliar with the "Code of Conduct for Scientists" established by the Science Council of Japan, suggesting that most of the regular members were also unfamiliar with these guidelines. However, the high level of interest in the "Code of Conduct for Scientists" established by the Science Council of Japan indicated a positive attitude towards learning about research ethics. Moreover, one-half of the subjects responded that JSH should establish a code of conduct for scientists. Below are some of the reasons for requiring JSH to establish a code of conduct: 1. Private information is prevalent in the field of hygiene. 2. The overall stance as an academic society would be established and would encourage individuality in academic societies. 3. Members have various backgrounds within the field of hygiene, and they should have a code of conduct different from that of their institution of affiliation. We clarified attitudes towards the Code of Conduct for Scientists among council members of the Japanese Society for Hygiene.

Small Business Innovations (Integrated Database)

NASA Technical Reports Server (NTRS)

1992-01-01

Because of the diversity of NASA's information systems, it was necessary to develop DAVID as a central database management system. Under a Small Business Innovation Research (SBIR) grant, Ken Wanderman and Associates, Inc. designed software tools enabling scientists to interface with DAVID and commercial database management systems, as well as artificial intelligence programs. The software has been installed at a number of data centers and is commercially available.

The ERESE project: Bridging the gap between Digital Science Libraries and Education through Professional Development of Teachers and Database Development

NASA Astrophysics Data System (ADS)

Staudigel, H.; Helly, M.; Helly, J.; Koppers, A.; Massel-Symons, C.; Miller, S.

2004-12-01

The ERESE (Enduring Resources in Earth Science Education) project involves a close collaboration between teachers, librarians, educators, data archive managers and scientists in Earth sciences and information technology, to create a digital library environment for Earth science education. We report here on an ongoing (NSF-NSDL) project involving teachers' professional development in the pedagogy of plate tectonics in middle and high schools. This work included efforts in scientific database development in terms of contents and search tools, the development of an inquiry based learning approach, a two week professional development workshop attended by 15 teachers from across the nation, a classroom implementation of lesson plans developed by the teachers at the workshop and an evaluation/validation process for the success of their pedagogic approaches. This ERESE project offers a novel path for both science teaching and professional outreach for scientists, and includes four key components: (1) A true, long-term research partnership between educators and scientists, guiding each other with respect to the authenticity of the science taught and the educational soundness of a scientists' elaborations on science concepts. (2) Expansion of existing scientific databases through the use of metadata that tie scientific materials to a particular expert level and teaching goal. (3) The design of interfaces that make data accessible to the educational community. (4) The use of an inquiry based teaching approach that integrates the scientist-educator collaboration and the data base developments. Our pedagogic approach includes the development of a central hypotheses by the student in response to an initial general orientation and presentation of a well chosen central provocative phenomenon by the teacher. Then, the student develops a research plan that is devoted to address this hypothesis through the use of the materials provided by a scientific database allowing a students prove or disprove their hypothesis and to explore the limits of the (current) understanding of a particular science question. Our first experience with this ERESE project involved a steep learning curve, but the initial results are very promising, providing true professional development for educators as well as for the scientists, whereby the former learn about new ways of teaching science and the latter learn to communicate with teachers.

LiMPETS: Scientists Contributions to Coastal Protection Program for Youth

NASA Astrophysics Data System (ADS)

Saltzman, J.; Osborn, D. A.

2004-12-01

In the West Coast National Marine Sanctuaries' LiMPETS (Long-term Monitoring Experiential Training for Students), scientists have partnered with local sanctuaries to develop an educational and scientifically-based monitoring program. With different levels of commitment and interest, scientists have contributed to developing protocols that youth can successfully use to monitor coastal habitats. LiMPETS was developed to address the gap in marine science education for high school students. The team of sanctuary educators together with local scientists collaborate and compromise to develop scientifically accurate and meaningful monitoring projects. By crossing the border between scientists and educators, LiMPETS has become a rich program which provides to teachers professional development, monitoring equipment, an online database, and field support. In the Sandy Beach Monitoring Project, we called on an expert on the sand crab Emerita analoga to help us modify the protocols that she uses to monitor crabs regularly. This scientist brings inspiration to teachers at teacher workshops by explaining how the student monitoring compliments her research. The Rocky Intertidal Monitoring Project was developed by scientists at University of California at Santa Cruz with the intention of passing on this project to an informal learning center. After receiving California Sea Grant funding, the protocols used for over 30 years with undergraduates were modified for middle and high school students. With the help of teachers, classroom activities were developed to train students for fieldwork. The online database was envisioned by the scientists to house the historical data from undergraduate students while growing with new data collected middle and high school students. The support of scientists in this program has been crucial to develop a meaningful program for both youth and resource managers. The hours that a scientist contributes to this program may be minimal, a weeklong workshop or even a part-time job. The framework of resource protection agencies partnering with scientists can be replicated to monitor other natural habitats. Through LiMPETS, scientists are helping to develop scientifically literate youth who are engaged in environmental monitoring.

The IT in Secondary Science Book. A Compendium of Ideas for Using Computers and Teaching Science.

ERIC Educational Resources Information Center

Frost, Roger

Scientists need to measure and communicate, to handle information, and model ideas. In essence, they need to process information. Young scientists have the same needs. Computers have become a tremendously important addition to the processing of information through database use, graphing and modeling and also in the collection of information…

From Scarcity to Visibility: Gender Differences in the Careers of Doctoral Scientists and Engineers.

ERIC Educational Resources Information Center

Long, J. Scott, Ed.

This study documents the changes that have occurred in the representation of women in science and engineering and the characteristics of women scientists and engineers. Data from two National Science Foundation databases, the Survey of Earned Doctorates for New Ph.D.s and the Survey of Doctoral Recipients for the science & engineering doctoral…

Forging School-Scientist Partnerships: A Case of Easier Said than Done?

ERIC Educational Resources Information Center

Falloon, Garry

2013-01-01

Since the early 1980s, a number of initiatives have been undertaken worldwide which have involved scientists and teachers working together in projects designed to support the science learning of students. Many of these have attempted to establish school-scientist partnerships. In these, scientists, teachers, and students formed teams engaged in…

Utilizing the Web in the Classroom: Linking Student Scientists with Professional Data.

ERIC Educational Resources Information Center

Seitz, Kristine; Leake, Devin

1999-01-01

Describes how information gathered from a computer database can be used as a springboard to scientific discovery. Specifies directions for studying the homeobox gene PAX-6 using GenBank, a database maintained by the National Center for Biotechnology Information (NCBI). Contains 16 references. (WRM)

Design and Performance of a Xenobiotic Metabolism Database Manager for Building Metabolic Pathway Databases

EPA Science Inventory

A major challenge for scientists and regulators is accounting for the metabolic activation of chemicals that may lead to increased toxicity. Reliable forecasting of chemical metabolism is a critical factor in estimating a chemical’s toxic potential. Research is underway to develo...

Joint Urban 2003: Study Overview And Instrument Locations

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

Allwine, K Jerry; Flaherty, Julia E.

2006-08-16

Quality-assured meteorological and tracer data sets are vital for establishing confidence that indoor and outdoor dispersion models used to simulate dispersal of potential toxic agents in urban atmospheres are giving trustworthy results. The U.S. Department of Defense-Defense Threat Reduction Agency and the U.S. Department of Homeland Security joined together to conduct the Joint Urban 2003 atmospheric dispersion study to provide this critically-needed high-resolution dispersion data. This major urban study was conducted from June 28 through July 31, 2003, in Oklahoma City, Oklahoma, with the participation of over 150 scientists and engineers from over 20 U.S. and foreign institutions. The Jointmore » Urban 2003 lead scientist was Jerry Allwine (Pacific Northwest National Laboratory) who oversaw study design, logistical arrangements and field operations with the help of Joe Shinn (Lawrence Livermore National Laboratory), Marty Leach (Lawrence Livermore National Laboratory), Ray Hosker (Atmospheric Turbulence and Diffusion Division), Leo Stockham (Northrop Grumman Information Technology) and Jim Bowers (Dugway Proving Grounds). This report gives a brief overview of the field campaign, describing the scientific objectives, the dates of the intensive observation periods, and the instruments deployed. The data from this field study is available to the scientific community through an on-line database that is managed by Dugway Proving Ground. This report will be included in the database to provide its users with some general information about the field study, and specific information about the instrument coordinates. Appendix A of this document provides the definitive record of the instrument locations during this field campaign, and Appendix B lists all the study principal investigators and participants.« less

Data archaeology at ICES

NASA Technical Reports Server (NTRS)

Dooley, Harry D.

1992-01-01

This paper provides a brief overview of the function of the International Council for the Exploration of the Sea (ICES), both past and present, in particular in the context of its interest in compiling oceanographic data sets. Details are provided of the procedures it adopted to ensure adequate internationally collaborative marine investigations during the first part of the century, such as how it provided a forum for action by its member states, how it coordinated and published the results of scientific programs, and how it provided a foundation, through scientists employed in the ICES Office, for the establishment of the original oceanographic marine databases and associated products, and the scientific interpretation of the results. The growth and expansion of this area of ICES activity is then traced, taking into account the changing conditions for oceanographic data management resulting from the establishment of the National Data Centres, as well as the World Data Centres for Oceanography, which were created to meet the needs of the International Geophysical Year (IGY). Finally, there is a discussion of the way in which the very existence of ICES has proved to be a valuable source of old data, some of which have not yet been digitized, but which can be readily retrieved because they have been very carefully documented throughout the years. Lessons from this activity are noted, and suggestions are made on how the past experiences of ICES can be utilized to ensure the availability of marine data to present and future generations of scientists.

Involving Practicing Scientists in K-12 Science Teacher Professional Development

NASA Astrophysics Data System (ADS)

Bertram, K. B.

2011-12-01

The Science Teacher Education Program (STEP) offered a unique framework for creating professional development courses focused on Arctic research from 2006-2009. Under the STEP framework, science, technology, engineering, and math (STEM) training was delivered by teams of practicing Arctic researchers in partnership with master teachers with 20+ years experience teaching STEM content in K-12 classrooms. Courses based on the framework were offered to educators across Alaska. STEP offered in-person summer-intensive institutes and follow-on audio-conferenced field-test courses during the academic year, supplemented by online scientist mentorship for teachers. During STEP courses, teams of scientists offered in-depth STEM content instruction at the graduate level for teachers of all grade levels. STEP graduate-level training culminated in the translation of information and data learned from Arctic scientists into standard-aligned lessons designed for immediate use in K-12 classrooms. This presentation will focus on research that explored the question: To what degree was scientist involvement beneficial to teacher training and to what degree was STEP scientist involvement beneficial to scientist instructors? Data sources reveal consistently high levels of ongoing (4 year) scientist and teacher participation; high STEM content learning outcomes for teachers; high STEM content learning outcomes for students; high ratings of STEP courses by scientists and teachers; and a discussion of the reasons scientists indicate they benefited from STEP involvement. Analyses of open-ended comments by teachers and scientists support and clarify these findings. A grounded theory approach was used to analyze teacher and scientist qualitative feedback. Comments were coded and patterns analyzed in three databases. The vast majority of teacher open-ended comments indicate that STEP involvement improved K-12 STEM classroom instruction, and the vast majority of scientist open-ended comments focus on the benefits scientists received from networking with K-12 teachers. The classroom lessons resulting from STEP have been so popular among teachers, the Alaska Department of Education and Early Development recently contracted with the PI to create a website that will make the STEP database open to teachers across Alaska. When the Alaska Department of Education and Early Development launched the new website in August 2011, the name of the STEP program was changed to the Alaska K-12 Science Curricular Initiative (AKSCI). The STEP courses serving as the foundation to the new AKSCI site are located under the "History" tab of the new website.

Hosting and pulishing astronomical data in SQL databases

NASA Astrophysics Data System (ADS)

Galkin, Anastasia; Klar, Jochen; Riebe, Kristin; Matokevic, Gal; Enke, Harry

2017-04-01

In astronomy, terabytes and petabytes of data are produced by ground instruments, satellite missions and simulations. At Leibniz-Institute for Astrophysics Potsdam (AIP) we host and publish terabytes of cosmological simulation and observational data. The public archive at AIP has now reached a size of 60TB and growing and helps to produce numerous scientific papers. The web framework Daiquiri offers a dedicated web interface for each of the hosted scientific databases. Scientists all around the world run SQL queries which include specific astrophysical functions and get their desired data in reasonable time. Daiquiri supports the scientific projects by offering a number of administration tools such as database and user management, contact messages to the staff and support for organization of meetings and workshops. The webpages can be customized and the Wordpress integration supports the participating scientists in maintaining the documentation and the projects' news sections.

Feline Non-repetitive Mitochondrial DNA Control Region Database for Forensic Evidence

PubMed Central

Grahn, R. A.; Kurushima, J. D.; Billings, N. C.; Grahn, J.C.; Halverson, J. L.; Hammer, E.; Ho, C.K.; Kun, T. J.; Levy, J.K.; Lipinski, M. J.; Mwenda, J.M.; Ozpinar, H.; Schuster, R.K; Shoorijeh, S.J.; Tarditi, C. R.; Waly, N.E.; Wictum, E. J.; Lyons, L. A.

2010-01-01

The domestic cat is the one of the most popular pets throughout the world. A by-product of owning, interacting with, or being in a household with a cat is the transfer of shed fur to clothing or personal objects. As trace evidence, transferred cat fur is a relatively untapped resource for forensic scientists. Both phenotypic and genotypic characteristics can be obtained from cat fur, but databases for neither aspect exist. Because cats incessantly groom, cat fur may have nucleated cells, not only in the hair bulb, but also as epithelial cells on the hair shaft deposited during the grooming process, thereby generally providing material for DNA profiling. To effectively exploit cat hair as a resource, representative databases must be established. This study evaluates 402 bp of the mtDNA control region (CR) from 1,394 cats, including cats from 25 distinct worldwide populations and 26 breeds. Eighty-three percent of the cats are represented by 12 major mitotypes. An additional 8.0% are clearly derived from the major mitotypes. Unique sequences were found in 7.5% of the cats. The overall genetic diversity for this data set was 0.8813 ± 0.0046 with a random match probability of 11.8%. This region of the cat mtDNA has discriminatory power suitable for forensic application worldwide. PMID:20457082

Blending Education and Polymer Science: Semi Automated Creation of a Thermodynamic Property Database.

PubMed

Tchoua, Roselyne B; Qin, Jian; Audus, Debra J; Chard, Kyle; Foster, Ian T; de Pablo, Juan

2016-09-13

Structured databases of chemical and physical properties play a central role in the everyday research activities of scientists and engineers. In materials science, researchers and engineers turn to these databases to quickly query, compare, and aggregate various properties, thereby allowing for the development or application of new materials. The vast majority of these databases have been generated manually, through decades of labor-intensive harvesting of information from the literature; yet, while there are many examples of commonly used databases, a significant number of important properties remain locked within the tables, figures, and text of publications. The question addressed in our work is whether, and to what extent, the process of data collection can be automated. Students of the physical sciences and engineering are often confronted with the challenge of finding and applying property data from the literature, and a central aspect of their education is to develop the critical skills needed to identify such data and discern their meaning or validity. To address shortcomings associated with automated information extraction, while simultaneously preparing the next generation of scientists for their future endeavors, we developed a novel course-based approach in which students develop skills in polymer chemistry and physics and apply their knowledge by assisting with the semi-automated creation of a thermodynamic property database.

Blending Education and Polymer Science: Semiautomated Creation of a Thermodynamic Property Database

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

Tchoua, Roselyne B.; Qin, Jian; Audus, Debra J.

Structured databases of chemical and physical properties play a central role in the everyday research activities of scientists and engineers. In materials science, researchers and engineers turn to these databases to quickly query, compare, and aggregate various properties, thereby allowing for the development or application of new materials. The vast majority of these databases have been generated manually, through decades of labor-intensive harvesting of information from the literature, yet while there are many examples of commonly used databases, a significant number of important properties remain locked within the tables, figures, and text of publications. The question addressed in our workmore » is whether and to what extent the process of data collection can be automated. Students of the physical sciences and engineering are often confronted with the challenge of finding and applying property data from the literature, and a central aspect of their education is to develop the critical skills needed to identify such data and discern their meaning or validity. To address shortcomings associated with automated information extraction while simultaneously preparing the next generation of scientists for their future endeavors, we developed a novel course-based approach in which students develop skills in polymer chemistry and physics and apply their knowledge by assisting with the semiautomated creation of a thermodynamic property database.« less

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.

International lighting in controlled environments workshop: Proceedings

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

NONE

1994-12-31

Lighting is a central and critical aspect of control in environmental research for plant research and is gaining recognition as a significant factor to control carefully for animal and human research. Thus this workshop was convened to reevaluate the technology that is available today and to work toward developing guidelines for the most effective use of lighting in controlled environments with emphasis on lighting for plants but also to initiate interest in the development of improved guidelines for human and animal research. There are a number of established guidelines for lighting in human and animal environments. Development of new lightingmore » guidelines is necessary for three reasons: (1) recent scientific discoveries show that in addition to supporting the sensation of vision, light has profound nonvisual biological and behavioral effects in both animals and humans; (2) federal regulations (EPACT 1992) are requiring all indoor environments to become more energy efficient with a specific emphasis on energy conservation in lighting; (3) lighting engineers and manufacturers have developed a wealth of new light sources and lighting products that can be applied in animal and human environments. The workshop was aimed at bringing together plant scientists and physical scientists to interact in the discussions. It involved participation of biological scientists involved in studying mechanisms of light reactions and those involved in utilizing lighting for production of plants and maintenance of animals in controlled environments. It included participation of physical scientists from universities and government involved in research as well as those from industry involved in producing lamps and in construction of controlled growth facilities. Selected papers are indexed separately for inclusion in the Energy Science and Technology Database.« less

RESEARCH PROGRAM FOR BRACE - PROVIDING NO AND SPECIFIC NO2 MEASUREMENTS FOR THE BRACE DATABASE DURING THE MAY '02 FIELD STUDY

EPA Science Inventory

Three scientists from the EPA, RTP facility in Research Triangle Park, N.C. worked with the State of Florida and BRACE scientists to provide accurate and precise NO and specific NO2 measurements at two monitoring sites, the rural Sydney site and the near-bay, suburban Gandy sit...

Design and implementation of the NPOI database and website

NASA Astrophysics Data System (ADS)

Newman, K.; Jorgensen, A. M.; Landavazo, M.; Sun, B.; Hutter, D. J.; Armstrong, J. T.; Mozurkewich, David; Elias, N.; van Belle, G. T.; Schmitt, H. R.; Baines, E. K.

2014-07-01

The Navy Precision Optical Interferometer (NPOI) has been recording astronomical observations for nearly two decades, at this point with hundreds of thousands of individual observations recorded to date for a total data volume of many terabytes. To make maximum use of the NPOI data it is necessary to organize them in an easily searchable manner and be able to extract essential diagnostic information from the data to allow users to quickly gauge data quality and suitability for a specific science investigation. This sets the motivation for creating a comprehensive database of observation metadata as well as, at least, reduced data products. The NPOI database is implemented in MySQL using standard database tools and interfaces. The use of standard database tools allows us to focus on top-level database and interface implementation and take advantage of standard features such as backup, remote access, mirroring, and complex queries which would otherwise be time-consuming to implement. A website was created in order to give scientists a user friendly interface for searching the database. It allows the user to select various metadata to search for and also allows them to decide how and what results are displayed. This streamlines the searches, making it easier and quicker for scientists to find the information they are looking for. The website has multiple browser and device support. In this paper we present the design of the NPOI database and website, and give examples of its use.

Walking the Path Together: Indigenous Health Data at ICES.

PubMed

Pyper, Evelyn; Henry, David; Yates, Erika A; Mecredy, Graham; Ratnasingham, Sujitha; Slegers, Brian; Walker, Jennifer D

2018-01-01

Indigenous data governance principles assert that Indigenous communities have a right to data that identifies their people or communities, and a right to determine the use of that data in ways that support Indigenous health and self-determination. Indigenous-driven use of the databases held at the Institute for Clinical Evaluative Sciences (ICES) has resulted in ongoing partnerships between ICES and diverse Indigenous organizations and communities. To respond to this emerging and complex landscape, ICES has established a team whose goal is to support the infrastructure for responding to community-initiated research priorities. ICES works closely with Indigenous partners to develop unique data governance agreements and supports processes, which ensure that ICES scientists must work with Indigenous organizations when conducting research that involves Indigenous peoples. © 2018 Longwoods Publishing.

Aggregating post-publication peer reviews and ratings

PubMed Central

Florian, Răzvan V.

2012-01-01

Allocating funding for research often entails the review of the publications authored by a scientist or a group of scientists. For practical reasons, in many cases this review cannot be performed by a sufficient number of specialists in the core domain of the reviewed publications. In the meanwhile, each scientist reads thoroughly, on average, about 88 scientific articles per year, and the evaluative information that scientists can provide about these articles is currently lost. I suggest that aggregating in an online database reviews or ratings on the publications that scientists read anyhow can provide important information that can revolutionize the evaluation processes that support funding decisions. I also suggest that such aggregation of reviews can be encouraged by a system that would provide a publicly available review portfolio for each scientist, without prejudicing the anonymity of reviews. I provide some quantitative estimates on the number and distribution of reviews and ratings that can be obtained. PMID:22661941

[Radiobiological Human Tissue repository: progress and perspectives for solving the problems of radiation safety and health protection of personnel and population].

PubMed

Kirillova, E N; Romanov, S A; Loffredo, C A; Zakharova, M L; Revina, V S; Sokolova, S N; Goerlitz, D S; Zubkova, O V; Lukianova, T V; Uriadnitzkaia, T I; Pavlova, O S; Slukinova, U V; Kolosova, A V; Muksinova, K N

2014-01-01

Radiobiological Human Tissue repository was established in order to obtain and store biological material from Mayak PA workers occupationally exposed to ionizing (α- and/or γ-) radiation in a wide dose range, from the residents exposed to long term radiation due to radiation accidents and transfer of the samples to scientists for the purpose of studying the effects of radiation for people and their offspring. The accumulated biomaterial is the informational and research potential that form the basis for the work of the scientists in different spheres of biology and medicine. The repository comprises 5 sections: tumor and non-tumor tissues obtained in the course of autopsies, biopsies, surgeries, samples of blood and its components, of DNA, induced sputum, saliva, and other from people exposed or unexposed (control) to radiation. The biomaterial is stored in formalin, in paraffin blocks, slides, as well as in the freezers under low temperatures. All the information on the samples and the registrants (medical, dosimetry, demographic, and occupational data) was obtained and entered into the electronic database. A constantly updated website of the repository was developed in order to provide a possibility to get acquainted with the material and proceed with application for biosamples for scientists from Russia and abroad. Some data obtained in the course of scientific research works on the basis of the biomaterial from the Repository are briefly introduced in the review.

Quantifying the Burden of Writing Research Articles in a Second Language: Data from Mexican Scientists

ERIC Educational Resources Information Center

Hanauer, David I.; Englander, Karen

2011-01-01

This article provides quantitative data to establish the relative, perceived burden of writing research articles in English as a second language. Previous qualitative research has shown that scientists writing English in a second language face difficulties but has not established parameters for the degree of this difficulty. A total of 141…

Motivations of participants in the citizen science of microbiomics: data from the British Gut Project.

PubMed

Del Savio, Lorenzo; Prainsack, Barbara; Buyx, Alena

2017-08-01

The establishment of databases for research in human microbiomics is dependent on the recruitment of sufficient numbers and diversity of participants. Factors that support or impede participant recruitment in studies of this type have not yet been studied. We report the results of a survey aimed at establishing the motivations of participants in the British Gut Project, a research project that relies on volunteers to provide samples and to help fund the project. The two most frequently reported motivations for participation were altruism and solidarity. Low education levels appeared to be a recruitment obstacle. More than half of our 151 respondents said they would participate in further citizen-science projects; 38% said they would not participate in a similar project if it was for-profit or in a project that did not release data sets in repositories accessible to scientists (30%). The desire to take part in research was reported as a key motivation for participation in the British Gut Project (BGP). Such prosocial motivations can be mobilized for the establishment of large data sets for research.Genet Med advance online publication 26 January 2017.

Ethical management in the constitution of a European database for leukodystrophies rare diseases.

PubMed

Duchange, Nathalie; Darquy, Sylviane; d'Audiffret, Diane; Callies, Ingrid; Lapointe, Anne-Sophie; Loeve, Boris; Boespflug-Tanguy, Odile; Moutel, Grégoire

2014-09-01

The EU LeukoTreat program aims to connect, enlarge and improve existing national databases for leukodystrophies (LDs) and other genetic diseases affecting the white matter of the brain. Ethical issues have been placed high on the agenda by pairing the participating LD expert research teams with experts in medical ethics and LD patient families and associations. The overarching goal is to apply core ethics principles to specific project needs and ensure patient rights and protection in research addressing the context of these rare diseases. This paper looks at how ethical issues were identified and handled at project management level when setting up an ethics committee. Through a work performed as a co-construction between health professionals, ethics experts, and patient representatives, we expose the major ethical issues identified. The committee acts as the forum for tackling specific issues tied to data sharing and patient participation: the thin line between care and research, the need for a charter establishing the commitments binding health professionals and the information items to be delivered. Ongoing feedback on the database, including delivering global results in a broad-audience format, emerged as a key recommendation. Information should be available to all patients in the partner countries developing the database and should be scaled to different patient profiles. This work led to a number of recommendations for ensuring transparency and optimizing the partnership between scientists and patients. Copyright © 2014 European Paediatric Neurology Society. Published by Elsevier Ltd. All rights reserved.

Group updates Gravity Database for central Andes

NASA Astrophysics Data System (ADS)

MIGRA Group; Götze, H.-J.

Between 1993 and 1995 a group of scientists from Chile, Argentina, and Germany incorporated some 2000 new gravity observations into a database that covers a remote region of the Central Andes in northern Chile and northwestern Argentina (between 64°-71°W and 20°-29°S). The database can be used to study the structure and evolution of the Andes. About 14,000 gravity values are included in the database, including older, reprocessed data. Researchers at universities or governmental agencies are welcome to use the data for noncommercial purposes.

Heterogeneous distributed query processing: The DAVID system

NASA Technical Reports Server (NTRS)

Jacobs, Barry E.

1985-01-01

The objective of the Distributed Access View Integrated Database (DAVID) project is the development of an easy to use computer system with which NASA scientists, engineers and administrators can uniformly access distributed heterogeneous databases. Basically, DAVID will be a database management system that sits alongside already existing database and file management systems. Its function is to enable users to access the data in other languages and file systems without having to learn the data manipulation languages. Given here is an outline of a talk on the DAVID project and several charts.

Educating the Next Generation of Agricultural Scientists.

ERIC Educational Resources Information Center

National Academy of Sciences - National Research Council, Washington, DC. Board on Agriculture.

The Committee on Evaluation of Trends in Agricultural Research at the Doctoral and Postdoctoral Level was established to analyze issues related to the next generation of agricultural scientists. This report contains the findings, conclusions, and recommendations regarding the status and future needs of agricultural scientists. This report focuses…

Content Involving Scientists in Selected Secondary School Science Textbooks of New and Traditional Curricula Published During 1957-1970.

ERIC Educational Resources Information Center

Reeder, Robert Edward

Forty-five textbooks of biology, chemistry, and physics (new and traditional curricula) were analyzed for the extent to which they devoted words to scientists. Each scientist named in each text was identified, and word counts were established for the total words devoted to each scientist and the number of these words which were humanistic by the…

Do open access biomedical journals benefit smaller countries? The Slovenian experience.

PubMed

Turk, Nana

2011-06-01

Scientists from smaller countries have problems gaining visibility for their research. Does open access publishing provide a solution? Slovenia is a small country with around 5000 medical doctors, 1300 dentists and 1000 pharmacists. A search of Slovenia's Bibliographic database was carried out to identity all biomedical journals and those which are open access. Slovenia has 18 medical open access journals, but none has an impact factor and only 10 are indexed by Slovenian and international bibliographic databases. The visibility and quality of medical papers is poor. The solution might be to reduce the number of journals and encourage Slovenian scientists to publish their best articles in them. © 2011 The authors. Health Information and Libraries Journal © 2011 Health Libraries Group.

Bosnian and Herzegovinian medical scientists in PubMed database.

PubMed

Masic, Izet

2013-01-01

In this paper it is shortly presented PubMed as one of the most important on-line databases of the scientific biomedical literature. Also, the author has analyzed the most cited authors, professors of the medical faculties in Bosnia and Herzegovina, from the published papers in the biomedical journals abstracted and indexed in PubMed.

76 FR 2373 - Science Advisory Board Staff Office; Request for Nominations of Experts to Augment the SAB...

Federal Register 2010, 2011, 2012, 2013, 2014

2011-01-13

... Office is requesting public nominations for scientists and engineers to augment the SAB Scientific and... STAA Program was established in 1980 to recognize Agency scientists and engineers who published their... seeking nominations of nationally and internationally recognized scientists and engineers having...

[Establishement for regional pelvic trauma database in Hunan Province].

PubMed

Cheng, Liang; Zhu, Yong; Long, Haitao; Yang, Junxiao; Sun, Buhua; Li, Kanghua

2017-04-28

To establish a database for pelvic trauma in Hunan Province, and to start the work of multicenter pelvic trauma registry.
 Methods: To establish the database, literatures relevant to pelvic trauma were screened, the experiences from the established trauma database in China and abroad were learned, and the actual situations for pelvic trauma rescue in Hunan Province were considered. The database for pelvic trauma was established based on the PostgreSQL and the advanced programming language Java 1.6.
 Results: The complex procedure for pelvic trauma rescue was described structurally. The contents for the database included general patient information, injurious condition, prehospital rescue, conditions in admission, treatment in hospital, status on discharge, diagnosis, classification, complication, trauma scoring and therapeutic effect. The database can be accessed through the internet by browser/servicer. The functions for the database include patient information management, data export, history query, progress report, video-image management and personal information management.
 Conclusion: The database with whole life cycle pelvic trauma is successfully established for the first time in China. It is scientific, functional, practical, and user-friendly.

Open-access databases as unprecedented resources and drivers of cultural change in fisheries science

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

McManamay, Ryan A; Utz, Ryan

2014-01-01

Open-access databases with utility in fisheries science have grown exponentially in quantity and scope over the past decade, with profound impacts to our discipline. The management, distillation, and sharing of an exponentially growing stream of open-access data represents several fundamental challenges in fisheries science. Many of the currently available open-access resources may not be universally known among fisheries scientists. We therefore introduce many national- and global-scale open-access databases with applications in fisheries science and provide an example of how they can be harnessed to perform valuable analyses without additional field efforts. We also discuss how the development, maintenance, and utilizationmore » of open-access data are likely to pose technical, financial, and educational challenges to fisheries scientists. Such cultural implications that will coincide with the rapidly increasing availability of free data should compel the American Fisheries Society to actively address these problems now to help ease the forthcoming cultural transition.« less

The dynamics of Brazilian protozoology over the past century.

PubMed

Elias, M Carolina; Floeter-Winter, Lucile M; Mena-Chalco, Jesus P

2016-01-01

Brazilian scientists have been contributing to the protozoology field for more than 100 years with important discoveries of new species such as Trypanosoma cruzi and Leishmania spp. In this work, we used a Brazilian thesis database (Coordination for the Improvement of Higher Education Personnel) covering the period from 1987-2011 to identify researchers who contributed substantially to protozoology. We selected 248 advisors by filtering to obtain researchers who supervised at least 10 theses. Based on a computational analysis of the thesis databases, we found students who were supervised by these scientists. A computational procedure was developed to determine the advisors' scientific ancestors using the Lattes Platform. These analyses provided a list of 1,997 researchers who were inspected through Lattes CV examination and allowed the identification of the pioneers of Brazilian protozoology. Moreover, we investigated the areas in which researchers who earned PhDs in protozoology are now working. We found that 68.4% of them are still in protozoology, while 16.7% have migrated to other fields. We observed that support for protozoology by national or international agencies is clearly correlated with the increase of scientists in the field. Finally, we described the academic genealogy of Brazilian protozoology by formalising the "forest" of Brazilian scientists involved in the study of protozoa and their vectors over the past century.

The dynamics of Brazilian protozoology over the past century

PubMed Central

Elias, M Carolina; Floeter-Winter, Lucile M; Mena-Chalco, Jesus P

2016-01-01

Brazilian scientists have been contributing to the protozoology field for more than 100 years with important discoveries of new species such asTrypanosoma cruzi and Leishmania spp. In this work, we used a Brazilian thesis database (Coordination for the Improvement of Higher Education Personnel) covering the period from 1987-2011 to identify researchers who contributed substantially to protozoology. We selected 248 advisors by filtering to obtain researchers who supervised at least 10 theses. Based on a computational analysis of the thesis databases, we found students who were supervised by these scientists. A computational procedure was developed to determine the advisors’ scientific ancestors using the Lattes Platform. These analyses provided a list of 1,997 researchers who were inspected through Lattes CV examination and allowed the identification of the pioneers of Brazilian protozoology. Moreover, we investigated the areas in which researchers who earned PhDs in protozoology are now working. We found that 68.4% of them are still in protozoology, while 16.7% have migrated to other fields. We observed that support for protozoology by national or international agencies is clearly correlated with the increase of scientists in the field. Finally, we described the academic genealogy of Brazilian protozoology by formalising the “forest” of Brazilian scientists involved in the study of protozoa and their vectors over the past century. PMID:26814646

Inquiry Resources Collection as a Boundary Object Supporting Meaningful Collaboration in a Wiki-Based Scientist-Teacher Community

ERIC Educational Resources Information Center

Kim, Hye Jeong; Herbert, Bruce

2012-01-01

Different interpretations of scientific inquiry exist between the two different communities of scientists and science teachers. Thus, in order to achieve a successful partnership between science teachers and scientists in establishing effective communities of practice, the framework for instructional practice in teacher professional development…

Impact of a Scientist-Teacher Collaborative Model on Students, Teachers, and Scientists

ERIC Educational Resources Information Center

Shein, Paichi Pat; Tsai, Chun-Yen

2015-01-01

Collaborations between the K-12 teachers and higher education or professional scientists have become a widespread approach to science education reform. Educational funding and efforts have been invested to establish these cross-institutional collaborations in many countries. Since 2006, Taiwan initiated the High Scope Program, a high school…

ArrayBridge: Interweaving declarative array processing with high-performance computing

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

Xing, Haoyuan; Floratos, Sofoklis; Blanas, Spyros

Scientists are increasingly turning to datacenter-scale computers to produce and analyze massive arrays. Despite decades of database research that extols the virtues of declarative query processing, scientists still write, debug and parallelize imperative HPC kernels even for the most mundane queries. This impedance mismatch has been partly attributed to the cumbersome data loading process; in response, the database community has proposed in situ mechanisms to access data in scientific file formats. Scientists, however, desire more than a passive access method that reads arrays from files. This paper describes ArrayBridge, a bi-directional array view mechanism for scientific file formats, that aimsmore » to make declarative array manipulations interoperable with imperative file-centric analyses. Our prototype implementation of ArrayBridge uses HDF5 as the underlying array storage library and seamlessly integrates into the SciDB open-source array database system. In addition to fast querying over external array objects, ArrayBridge produces arrays in the HDF5 file format just as easily as it can read from it. ArrayBridge also supports time travel queries from imperative kernels through the unmodified HDF5 API, and automatically deduplicates between array versions for space efficiency. Our extensive performance evaluation in NERSC, a large-scale scientific computing facility, shows that ArrayBridge exhibits statistically indistinguishable performance and I/O scalability to the native SciDB storage engine.« less

Techniques for Efficiently Managing Large Geosciences Data Sets

NASA Astrophysics Data System (ADS)

Kruger, A.; Krajewski, W. F.; Bradley, A. A.; Smith, J. A.; Baeck, M. L.; Steiner, M.; Lawrence, R. E.; Ramamurthy, M. K.; Weber, J.; Delgreco, S. A.; Domaszczynski, P.; Seo, B.; Gunyon, C. A.

2007-12-01

We have developed techniques and software tools for efficiently managing large geosciences data sets. While the techniques were developed as part of an NSF-Funded ITR project that focuses on making NEXRAD weather data and rainfall products available to hydrologists and other scientists, they are relevant to other geosciences disciplines that deal with large data sets. Metadata, relational databases, data compression, and networking are central to our methodology. Data and derived products are stored on file servers in a compressed format. URLs to, and metadata about the data and derived products are managed in a PostgreSQL database. Virtually all access to the data and products is through this database. Geosciences data normally require a number of processing steps to transform the raw data into useful products: data quality assurance, coordinate transformations and georeferencing, applying calibration information, and many more. We have developed the concept of crawlers that manage this scientific workflow. Crawlers are unattended processes that run indefinitely, and at set intervals query the database for their next assignment. A database table functions as a roster for the crawlers. Crawlers perform well-defined tasks that are, except for perhaps sequencing, largely independent from other crawlers. Once a crawler is done with its current assignment, it updates the database roster table, and gets its next assignment by querying the database. We have developed a library that enables one to quickly add crawlers. The library provides hooks to external (i.e., C-language) compiled codes, so that developers can work and contribute independently. Processes called ingesters inject data into the system. The bulk of the data are from a real-time feed using UCAR/Unidata's IDD/LDM software. An exciting recent development is the establishment of a Unidata HYDRO feed that feeds value-added metadata over the IDD/LDM. Ingesters grab the metadata and populate the PostgreSQL tables. These and other concepts we have developed have enabled us to efficiently manage a 70 Tb (and growing) data weather radar data set.

Scientists Admitting to Plagiarism: A Meta-analysis of Surveys.

PubMed

Pupovac, Vanja; Fanelli, Daniele

2015-10-01

We conducted a systematic review and meta-analysis of anonymous surveys asking scientists whether they ever committed various forms of plagiarism. From May to December 2011 we searched 35 bibliographic databases, five grey literature databases and hand searched nine journals for potentially relevant studies. We included surveys that asked scientists if, in a given recall period, they had committed or knew of a colleague who committed plagiarism, and from each survey extracted the proportion of those who reported at least one case. Studies that focused on academic (i.e. student) plagiarism were excluded. Literature searches returned 12,460 titles from which 17 relevant survey studies were identified. Meta-analysis of studies reporting committed (N = 7) and witnessed (N = 11) plagiarism yielded a pooled estimate of, respectively, 1.7% (95% CI 1.2-2.4) and 30% (95% CI 17-46). Basic methodological factors, including sample size, year of survey, delivery method and whether survey questions were explicit rather than indirect made a significant difference on survey results. Even after controlling for these methodological factors, between-study differences in admission rates were significantly above those expected by sampling error alone and remained largely unexplained. Despite several limitations of the data and of this meta-analysis, we draw three robust conclusions: (1) The rate at which scientists report knowing a colleague who committed plagiarism is higher than for data fabrication and falsification; (2) The rate at which scientists report knowing a colleague who committed plagiarism is correlated to that of fabrication and falsification; (3) The rate at which scientists admit having committed either form of misconduct (i.e. fabrication, falsification and plagiarism) in surveys has declined over time.

Let the IRIS Bloom:Regrowing the integrated risk information system (IRIS) of the U.S. Environmental Protection Agency.

PubMed

Dourson, Michael L

2018-05-03

The Integrated Risk Information System (IRIS) of the U.S. Environmental Protection Agency (EPA) has an important role in protecting public health. Originally it provided a single database listing official risk values equally valid for all Agency offices, and was an important tool for risk assessment communication across EPA. Started in 1986, IRIS achieved full standing in 1990 when it listed 500 risk values, the effort of two senior EPA groups over 5 years of monthly face-to-face meetings, to assess combined risk data from multiple Agency offices. Those groups were disbanded in 1995, and the lack of continuing face-to-face meetings meant that IRIS became no longer EPA's comprehensive database of risk values or their latest evaluations. As a remedy, a work group of the Agency's senior scientists should be re-established to evaluate new risks and to update older ones. Risk values to be reviewed would come from the same EPA offices now developing such information on their own. Still, this senior group would have the final authority on posting a risk value in IRIS, independently of individual EPA offices. This approach could also lay the groundwork for an all-government IRIS database, especially needed as more government Agencies, industries and non-governmental organizations are addressing evolving risk characterizations. Copyright © 2018. Published by Elsevier Inc.

Pathology as the enabler of human research.

PubMed

Crawford, James M; Tykocinski, Mark L

2005-09-01

Academic Pathology is a key player in human molecular science and in the powerful initiatives of the National Institutes of Health. Pathologists generate data crucial to virtually every molecular study of human tissue, and have the necessary skills and authority to oversee processing of human tissues for research analysis. We advocate that Academic Pathology is optimally positioned to drive the molecular revolution in study of human disease, through human tissue collection, analysis, and databasing. This can be achieved through playing a major role in human tissue procurement and management; establishing high-quality 'Pathology Resource Laboratories'; providing the scientific expertise for pathology data sharing; and recruiting and training physician scientists. Pathology should position itself to be the local institutional driver of technology implementation and development, by operating the resource laboratories, providing the expertise for technical and conceptual design of research projects, maintaining the databases that link molecular and morphological information on human tissues with the requisite clinical databases, providing education and mentorship of technology users, and nurturing new research through the development of preliminary data. We also consider that outstanding pathology journals are available for the publication of research emanating from such studies, to the benefit of the pathology profession as an academic enterprise. It is our earnest hope that Academic Pathology can play a leading role in the remarkable advances to be made as the 21st century unfolds.

The NMDB collaboration

NASA Astrophysics Data System (ADS)

Steigies, C. T.

2015-12-01

Since the International Geophysical Year (IGY) in 1957-58 cosmic rays areroutinely measured by many ground-based Neutron Monitors (NM) around theworld. The World Data Center for Cosmic Rays (WDCCR) was established as apart of this activity and is providing a database of cosmic-ray neutronobservations in unified formats. However, that standard data comprises onlyof one hour averages, whereas most NM stations have been enhanced at the endof the 20th century to provide data in one minute resolution or even better.This data was only available on the web-sites of the institutes operatingthe station, and every station invented their own data format for thehigh-resolution measurements. There were some efforts to collect data fromseveral stations, to make this data available on FTP servers, however noneof these efforts could provide real-time data for all stations.The EU FP7 project NMDB (real-time database for high-resolution NeutronMonitor measurements, http://nmdb.eu) was funded by the European Commission,and a new database was set up by several Neutron Monitor stations in Europeand Asia to store high-resolution data and to provide access to the data inreal-time (i.e. less than five minute delay). By storing the measurements ina database, a standard format for the high-resolution measurements isenforced. This database is complementary to the WDCCR, as it does not (yet)provide all historical data, but the creation of this effort has spurred anew collaboration between Neutron Monitor scientists worldwide, (new)stations have gone online (again), new projects are building on the resultsof NMDB, new users outside of the Cosmic Ray community are starting to useNM data for new applications like soil moisture measurements using cosmicrays. These applications are facilitated by the easy access to the data withthe http://nest.nmdb.eu interface that offers access to all NMDB data forall users.

An environmental database for Venice and tidal zones

NASA Astrophysics Data System (ADS)

Macaluso, L.; Fant, S.; Marani, A.; Scalvini, G.; Zane, O.

2003-04-01

The natural environment is a complex, highly variable and physically non reproducible system (not in laboratory, nor in a confined territory). Environmental experimental studies are thus necessarily based on field measurements distributed in time and space. Only extensive data collections can provide the representative samples of the system behavior which are essential for scientific advancement. The assimilation of large data collections into accessible archives must necessarily be implemented in electronic databases. In the case of tidal environments in general, and of the Venice lagoon in particular, it is useful to establish a database, freely accessible to the scientific community, documenting the dynamics of such systems and their response to anthropic pressures and climatic variability. At the Istituto Veneto di Scienze, Lettere ed Arti in Venice (Italy) two internet environmental databases has been developed: one collects information regarding in detail the Venice lagoon; the other co-ordinate the research consortium of the "TIDE" EU RTD project, that attends to three different tidal areas: Venice Lagoon (Italy), Morecambe Bay (England), and Forth Estuary (Scotland). The archives may be accessed through the URL: www.istitutoveneto.it. The first one is freely available and applies to anyone is interested. It is continuously updated and has been structured in order to promote documentation concerning Venetian environment and disseminate this information for educational purposes (see "Dissemination" section). The second one is supplied by scientists and engineers working on this tidal system for various purposes (scientific, management, conservation purposes, etc.); it applies to interested researchers and grows with their own contributions. Both intend to promote scientific communication, to contribute to the realization of a distributed information system collecting homogeneous themes, and to initiate the interconnection among databases regarding different kinds of environment.

Providing Database Services in a Nationwide Research Organisation--Coexistence of Traditional Information Services and a Modern CD-ROM/Online Hybrid Solution.

ERIC Educational Resources Information Center

Bowman, Benjamin F.

For the past two decades the central Information Retrieval Services of the Max Planck Society has been providing database searches for scientists in Max Planck Institutes and Research Groups throughout Germany. As a supplement to traditional search services offered by professional intermediaries, they have recently fostered the introduction of a…

Bridging the Gender Gap: The demographics of scientists in the USDA Forest Service and academia

Treesearch

Christel C. Kern; Laura S. Kenefic; Susan L. Stout

2015-01-01

Past research has established that diverse scientific communities foster innovation and problem solving more effectively than communities with a narrow range of knowledge, skills, and experience. However, gender diversity among scientists is limited, particularly in natural-resource fields. We compared data on scientist gender and rank from the US Department of...

Analysis of an Exemplary Scientists in Schools Project in Forensic Science: Collaboration, Communication and Enthusiasm

ERIC Educational Resources Information Center

Howitt, Christine; Lewis, Simon W.; Waugh, Sara

2009-01-01

Scientists in Schools (SiS) is an initiative of the Australian Government Department of Education, Employment and Workplace Relations that aims to establish and maintain sustained and ongoing partnerships between scientists and school communities as a means of developing more scientifically literate citizens. This paper describes and analyses an…

Validating a Scale That Measures Scientists' Self-Efficacy for Public Engagement with Science

ERIC Educational Resources Information Center

Robertson Evia, Jane; Peterman, Karen; Cloyd, Emily; Besley, John

2018-01-01

Self-efficacy, or the beliefs people hold about their ability to succeed in certain pursuits, is a long-established construct. Self-efficacy for science communication distinguishes scientists who engage with the public and relates to scientists' attitudes about the public. As such, self-efficacy for public engagement has the potential to serve as…

Navigating the boundary of science for decision making at the state and local level

NASA Astrophysics Data System (ADS)

Gonzales, L. M.; Wood, C.; Boland, M. A.; Rose, C. A.

2015-12-01

Scientific information should play a vital role in many decision making processes, yet issues incorporating geoscience information often arise due to inherent differences between how scientists and decision makers operate. Decision makers and scientists have different priorities, produce work at different rates, and often lack an understanding of each others' institutional constraints. Boundary organizations, entities that facilitate collaboration and information flow across traditional boundaries such as that between scientists and decision makers, are in a unique position to improve the dialogue between disparate groups. The American Geosciences Institute (AGI), a nonprofit federation of 50 geoscience societies and organizations, is linking the geoscience and decision-making communities through its Critical Issues Program. AGI's Critical Issues program has first-hand experience in improving the transfer of information across the science-decision making boundary, particularly in areas pertaining to water resources and hazards. This presentation will focus on how, by collaborating with organizations representing the decision making and geoscience communities to inform our program development, we have created our three main content types - website, webinar series, and research database - to better meet the needs of the decision-making process. The program presents existing geoscience information in a way that makes the interconnected nature of geoscience topics more easily understood, encourages discussion between the scientific and decision-making communities, and has established a trusted source of impartial geoscience information. These efforts have focused on state and local decision makers—groups that increasingly influence climate and risk-related decisions, yet often lack the resources to access and understand geoscience information.

SCOPE - Stellar Classification Online Public Exploration

NASA Astrophysics Data System (ADS)

Harenberg, Steven

2010-01-01

The Astronomical Photographic Data Archive (APDA) has been established to be the primary North American archive for the collections of astronomical photographic plates. Located at the Pisgah Astronomical Research Institute (PARI) in Rosman, NC, the archive contains hundreds of thousands stellar spectra, many of which have never before been classified. To help classify the vast number of stars, the public is invited to participate in a distributed computing online environment called Stellar Classification Online - Public Exploration (SCOPE). Through a website, the participants will have a tutorial on stellar spectra and practice classifying. After practice, the participants classify spectra on photographic plates uploaded online from APDA. These classifications will be recorded in a database where the results from many users will be statistically analyzed. Stars with known spectral types will be included to test the reliability of classifications. The process of building the database of stars from APDA, which the citizen scientist will be able to classify, includes: scanning the photographic plates, orienting the plate to correct for the change in right ascension/declination using Aladin, stellar HD catalog identification using Simbad, marking the boundaries for each spectrum, and setting up the image for use on the website. We will describe the details of this process.

NASA/DOD Aerospace Knowledge Diffusion Research Project. Paper 14: An analysis of the technical communications practices reported by Israeli and US aerospace engineers and scientists

NASA Technical Reports Server (NTRS)

Barclay, Rebecca O.; Pinelli, Thomas E.; Elazar, David; Kennedy, John M.

1991-01-01

As part of Phase 4 of the NASA/DoD Aerospace Knowledge Diffusion Research Project, two pilot studies were conducted that investigated the technical communications practices of Israeli and U.S. aerospace engineers and scientists. Both studies had the same five objectives: first, to solicit the opinions of aerospace engineers and scientists regarding the importance of technical communications to their profession; second, to determine the use and production of technical communications by aerospace engineers and scientists; third, to seek their view about the appropriate content of an undergraduate course in technical communications; fourth, to determine aerospace engineers' and scientists' use of libraries, technical information centers, and on-line databases; and fifth, to determine the use and importance of computer and information technology to them. A self-administered questionnaire was mailed to randomly selected U.S. aerospace engineers and scientists who are working in cryogenics, adaptive walls, and magnetic suspension. A slightly modified version was sent to Israeli aerospace engineers and scientists working at Israel Aircraft Industries, LTD. Responses of the Israeli and U.S. aerospace engineers and scientists to selected questions are presented in this paper.

Crowdsourcing to Acquire Hydrologic Data and Engage Citizen Scientists: CrowdHydrology

USGS Publications Warehouse

Fienen, Michael N.; Lowry, Chris

2013-01-01

Spatially and temporally distributed measurements of processes, such as baseflow at the watershed scale, come at substantial equipment and personnel cost. Research presented here focuses on building a crowdsourced database of inexpensive distributed stream stage measurements. Signs on staff gauges encourage citizen scientists to voluntarily send hydrologic measurements (e.g., stream stage) via text message to a server that stores and displays the data on the web. Based on the crowdsourced stream stage, we evaluate the accuracy of citizen scientist measurements and measurement approach. The results show that crowdsourced data collection is a supplemental method for collecting hydrologic data and a promising method of public engagement.

The Importance of Biological Databases in Biological Discovery.

PubMed

Baxevanis, Andreas D; Bateman, Alex

2015-06-19

Biological databases play a central role in bioinformatics. They offer scientists the opportunity to access a wide variety of biologically relevant data, including the genomic sequences of an increasingly broad range of organisms. This unit provides a brief overview of major sequence databases and portals, such as GenBank, the UCSC Genome Browser, and Ensembl. Model organism databases, including WormBase, The Arabidopsis Information Resource (TAIR), and those made available through the Mouse Genome Informatics (MGI) resource, are also covered. Non-sequence-centric databases, such as Online Mendelian Inheritance in Man (OMIM), the Protein Data Bank (PDB), MetaCyc, and the Kyoto Encyclopedia of Genes and Genomes (KEGG), are also discussed. Copyright © 2015 John Wiley & Sons, Inc.

The LAILAPS search engine: a feature model for relevance ranking in life science databases.

PubMed

Lange, Matthias; Spies, Karl; Colmsee, Christian; Flemming, Steffen; Klapperstück, Matthias; Scholz, Uwe

2010-03-25

Efficient and effective information retrieval in life sciences is one of the most pressing challenge in bioinformatics. The incredible growth of life science databases to a vast network of interconnected information systems is to the same extent a big challenge and a great chance for life science research. The knowledge found in the Web, in particular in life-science databases, are a valuable major resource. In order to bring it to the scientist desktop, it is essential to have well performing search engines. Thereby, not the response time nor the number of results is important. The most crucial factor for millions of query results is the relevance ranking. In this paper, we present a feature model for relevance ranking in life science databases and its implementation in the LAILAPS search engine. Motivated by the observation of user behavior during their inspection of search engine result, we condensed a set of 9 relevance discriminating features. These features are intuitively used by scientists, who briefly screen database entries for potential relevance. The features are both sufficient to estimate the potential relevance, and efficiently quantifiable. The derivation of a relevance prediction function that computes the relevance from this features constitutes a regression problem. To solve this problem, we used artificial neural networks that have been trained with a reference set of relevant database entries for 19 protein queries. Supporting a flexible text index and a simple data import format, this concepts are implemented in the LAILAPS search engine. It can easily be used both as search engine for comprehensive integrated life science databases and for small in-house project databases. LAILAPS is publicly available for SWISSPROT data at http://lailaps.ipk-gatersleben.de.

A novel paradigm for cell and molecule interaction ontology: from the CMM model to IMGT-ONTOLOGY

PubMed Central

2010-01-01

Background Biology is moving fast toward the virtuous circle of other disciplines: from data to quantitative modeling and back to data. Models are usually developed by mathematicians, physicists, and computer scientists to translate qualitative or semi-quantitative biological knowledge into a quantitative approach. To eliminate semantic confusion between biology and other disciplines, it is necessary to have a list of the most important and frequently used concepts coherently defined. Results We propose a novel paradigm for generating new concepts for an ontology, starting from model rather than developing a database. We apply that approach to generate concepts for cell and molecule interaction starting from an agent based model. This effort provides a solid infrastructure that is useful to overcome the semantic ambiguities that arise between biologists and mathematicians, physicists, and computer scientists, when they interact in a multidisciplinary field. Conclusions This effort represents the first attempt at linking molecule ontology with cell ontology, in IMGT-ONTOLOGY, the well established ontology in immunogenetics and immunoinformatics, and a paradigm for life science biology. With the increasing use of models in biology and medicine, the need to link different levels, from molecules to cells to tissues and organs, is increasingly important. PMID:20167082

CXRO - Mi-Young Im, Staff Scientist

Science.gov Websites

X-Ray Database Zone Plate Education Nanomagnetism X-Ray Microscopy LDJIM EUV Lithography EUV Mask Publications Contact The Center for X-Ray Optics is a multi-disciplined research group within Lawrence Berkeley -Ray Optics X-Ray Database Nanomagnetism X-Ray Microscopy EUV Lithography EUV Mask Imaging

Toxicity Reference Database

EPA Pesticide Factsheets

The Toxicity Reference Database (ToxRefDB) contains approximately 30 years and $2 billion worth of animal studies. ToxRefDB allows scientists and the interested public to search and download thousands of animal toxicity testing results for hundreds of chemicals that were previously found only in paper documents. Currently, there are 474 chemicals in ToxRefDB, primarily the data rich pesticide active ingredients, but the number will continue to expand.

Dynamic Terrin

DTIC Science & Technology

1991-12-30

York, 1985. [ Serway 86]: Raymond Serway , Physics for Scientists and Engineers. 2nd Edition, Saunders College Publishing, Philadelphia, 1986. pp. 200... Physical Modeling System 3.4 Realtime Hydrology 3.5 Soil Dynamics and Kinematics 4. Database Issues 4.1 Goals 4.2 Object Oriented Databases 4.3 Distributed...Animation System F. Constraints and Physical Modeling G. The PM Physical Modeling System H. Realtime Hydrology I. A Simplified Model of Soil Slumping

CADDIS Volume 5. Causal Databases: Home page (Duplicate?)

EPA Pesticide Factsheets

The Causal Analysis/Diagnosis Decision Information System, or CADDIS, is a website developed to help scientists and engineers in the Regions, States, and Tribes conduct causal assessments in aquatic systems.

VIEWCACHE: An incremental pointer-based access method for autonomous interoperable databases

NASA Technical Reports Server (NTRS)

Roussopoulos, N.; Sellis, Timos

1992-01-01

One of biggest problems facing NASA today is to provide scientists efficient access to a large number of distributed databases. Our pointer-based incremental database access method, VIEWCACHE, provides such an interface for accessing distributed data sets and directories. VIEWCACHE allows database browsing and search performing inter-database cross-referencing with no actual data movement between database sites. This organization and processing is especially suitable for managing Astrophysics databases which are physically distributed all over the world. Once the search is complete, the set of collected pointers pointing to the desired data are cached. VIEWCACHE includes spatial access methods for accessing image data sets, which provide much easier query formulation by referring directly to the image and very efficient search for objects contained within a two-dimensional window. We will develop and optimize a VIEWCACHE External Gateway Access to database management systems to facilitate distributed database search.

Database systems for knowledge-based discovery.

PubMed

Jagarlapudi, Sarma A R P; Kishan, K V Radha

2009-01-01

Several database systems have been developed to provide valuable information from the bench chemist to biologist, medical practitioner to pharmaceutical scientist in a structured format. The advent of information technology and computational power enhanced the ability to access large volumes of data in the form of a database where one could do compilation, searching, archiving, analysis, and finally knowledge derivation. Although, data are of variable types the tools used for database creation, searching and retrieval are similar. GVK BIO has been developing databases from publicly available scientific literature in specific areas like medicinal chemistry, clinical research, and mechanism-based toxicity so that the structured databases containing vast data could be used in several areas of research. These databases were classified as reference centric or compound centric depending on the way the database systems were designed. Integration of these databases with knowledge derivation tools would enhance the value of these systems toward better drug design and discovery.

CGH Short Term Scientist Exchange Program (STSEP)

Cancer.gov

STSEP promotes collaborative research between established U.S. and foreign scientists from low, middle, and upper-middle income countries (LMICs) by supporting, in part, exchange visits of cancer researchers between U.S. and foreign laboratories.

Opportunities and Resources for Scientist Participation in Education and Public Outreach

NASA Astrophysics Data System (ADS)

Buxner, Sanlyn; CoBabe-Ammann, E.; Shipp, S.; Hsu, B.

2012-10-01

Active engagement of scientists in Education and Public Outreach (E/PO) activities results in benefits for both the audience and scientists. Most scientists are trained in research but have little formal training in education. The Planetary Science Education and Public Outreach (E/PO) Forum helps the Science Mission Directorate support scientists currently involved in E/PO and to help scientists who are interested in becoming involved in E/PO efforts find ways to do so through a variety of avenues. We will present current and future opportunities and resources for scientists to become engaged in education and public outreach. These include upcoming NASA SMD E/PO funding opportunities, professional development resources for writing NASA SMD E/PO proposals (webinars and other online tools), toolkits for scientists interested in best practices in E/PO (online guides for K-12 education and public outreach), EarthSpace (a community web space where instructors can find and share about teaching space and earth sciences in the undergraduate classroom, including class materials news and funding opportunities, and the latest education research), thematic resources for teaching about the solar system (archived resources from Year of the Solar System), and an online database of scientists interested in connecting with education programs. Learn more about the Forum and find resources at http://smdepo.org/.

Data management for community research projects: A JGOFS case study

NASA Technical Reports Server (NTRS)

Lowry, Roy K.

1992-01-01

Since the mid 1980s, much of the marine science research effort in the United Kingdom has been focused into large scale collaborative projects involving public sector laboratories and university departments, termed Community Research Projects. Two of these, the Biogeochemical Ocean Flux Study (BOFS) and the North Sea Project incorporated large scale data collection to underpin multidisciplinary modeling efforts. The challenge of providing project data sets to support the science was met by a small team within the British Oceanographic Data Centre (BODC) operating as a topical data center. The role of the data center was to both work up the data from the ship's sensors and to combine these data with sample measurements into online databases. The working up of the data was achieved by a unique symbiosis between data center staff and project scientists. The project management, programming and data processing skills of the data center were combined with the oceanographic experience of the project communities to develop a system which has produced quality controlled, calibrated data sets from 49 research cruises in 3.5 years of operation. The data center resources required to achieve this were modest and far outweighed by the time liberated in the scientific community by the removal of the data processing burden. Two online project databases have been assembled containing a very high proportion of the data collected. As these are under the control of BODC their long term availability as part of the UK national data archive is assured. The success of the topical data center model for UK Community Research Project data management has been founded upon the strong working relationships forged between the data center and project scientists. These can only be established by frequent personal contact and hence the relatively small size of the UK has been a critical factor. However, projects covering a larger, even international scale could be successfully supported by a network of topical data centers managing online databases which are interconnected by object oriented distributed data management systems over wide area networks.

Looking Forward to the electronic Geophysical Year

NASA Astrophysics Data System (ADS)

Kamide, Y.; Baker, D. N.; Thompson, B.; Barton, C.; Kihn, E.

2004-12-01

During the International Geophysical Year (1957-1958), member countries established many new capabilities pursuing the major IGY objectives of collecting geophysical data as widely as possible and providing free access to these data for all scientists around the globe. A key achievement of the IGY was the establishment of a worldwide system of data centers and physical observatories. The worldwide scientific community has now endorsed and is promoting an electronic Geophysical Year (eGY) initiative. The proposed eGY concept would both commemorate the 50th anniversary of the IGY in 2007-2008 and would provide a forward impetus to geophysics in the 21st century, similar to that provide by the IGY fifty years ago. The eGY concept advocates the establishment of a series of virtual geophysical observatories now being deployed in cyberspace. We discuss plans to aggregate measurements into a readily accessible database along with analysis, visualization, and display tools that will make information available and useful to the scientific community, to the user community, and to the general public. We are examining the possibilities for near-realtime acquisition of data and utilization of forecast tools in order to provide users with advanced space weather capabilities. This program will provide powerful tools for education and public outreach concerning the connected Sun-Earth System.

Science Information Requirements of Scientists: The Need for an Interacting Request Receiver in an Information Clearinghouse, Technical Report 3.

ERIC Educational Resources Information Center

Kinkade, Robert G.; Bedarf, Erwin W.

Evaluated were the role and importance of request-receiver feedback in an information system. Participants were 50 university biological scientists who agreed to place requests for information by telephone with a specially established clearinghouse. One type of receiver was a scientist holding a Ph.D. in biochemistry, with over 20 years biological…

Rationale and operational plan to upgrade the U.S. gravity database

USGS Publications Warehouse

Hildenbrand, Thomas G.; Briesacher, Allen; Flanagan, Guy; Hinze, William J.; Hittelman, A.M.; Keller, Gordon R.; Kucks, R.P.; Plouff, Donald; Roest, Walter; Seeley, John; Stith, David A.; Webring, Mike

2002-01-01

A concerted effort is underway to prepare a substantially upgraded digital gravity anomaly database for the United States and to make this data set and associated usage tools available on the internet. This joint effort, spearheaded by the geophysics groups at the National Imagery and Mapping Agency (NIMA), University of Texas at El Paso (UTEP), U.S. Geological Survey (USGS), and National Oceanic and Atmospheric Administration (NOAA), is an outgrowth of the new geoscientific community initiative called Geoinformatics (www.geoinformaticsnetwork.org). This dominantly geospatial initiative reflects the realization by Earth scientists that existing information systems and techniques are inadequate to address the many complex scientific and societal issues. Currently, inadequate standardization and chaotic distribution of geoscience data, inadequate accompanying documentation, and the lack of easy-to-use access tools and computer codes for analysis are major obstacles for scientists, government agencies, and educators. An example of the type of activities envisioned, within the context of Geoinformatics, is the construction, maintenance, and growth of a public domain gravity database and development of the software tools needed to access, implement, and expand it. This product is far more than a high quality database; it is a complete data system for a specific type of geophysical measurement that includes, for example, tools to manipulate the data and tutorials to understand and properly utilize the data. On August 9, 2002, twenty-one scientists from the federal, private and academic sectors met at a workshop to discuss the rationale for upgrading both the United States and North American gravity databases (including offshore regions) and, more importantly, to begin developing an operational plan to effectively create a new gravity data system. We encourage anyone interested in contributing data or participating in this effort to contact G.R. Keller or T.G. Hildenbrand. This workshop was the first step in building a web-based data system for sharing quality gravity data and methodology, and it builds on existing collaborative efforts. This compilation effort will result in significant additions to and major refinement of the U.S. database that is currently released publicly by NOAA’s National Geophysical Data Center and will also include an additional objective to substantially upgrade the North American database, released over 15 years ago (Committee for the Gravity Anomaly Map of North America, 1987).

CADDIS Volume 5. Causal Databases: Interactive Conceptual Diagrams (ICDs) User Guide

EPA Pesticide Factsheets

The Causal Analysis/Diagnosis Decision Information System, or CADDIS, is a website developed to help scientists and engineers in the Regions, States, and Tribes conduct causal assessments in aquatic systems.

Food and Nutrition Information Center

MedlinePlus

... Nutrition Information Center Microgreen Study Shows Health Benefits •ARS scientists studied health benefits of red cabbage microgreens.• ... List USDA Food Composition Databases Agricultural Research Service (ARS) Food and Nutrition Research Briefs Interactive DRI for ...

[Electroconvulsive therapy and level of evidence: From causality to dose-effect relationship].

PubMed

Micoulaud-Franchi, J-A; Quilès, C; Cermolacce, M; Belzeaux, R; Adida, M; Fakra, E; Azorin, J-M

2016-12-01

The first objective of this article is to summarize the history of electroconvulsive therapy (ECT) in psychiatry in order to highlight the transition from clinical level of evidence based on phenomenological descriptions to controlled trial establishing causal relationship. The second objective is to apply the criteria of causation for ECT, to focus on the dose-effect relationship criteria, and thus to analyze the conditions of application of these criteria for ECT. A literature review exploring the use of electricity, ECT and electroencephalography (EEG) in psychiatry was conducted. The publications were identified from the Pubmed and GoogleScholar electronic databases. The scientific literature search of international articles was performed in July 2016. In 1784, a Royal commission established in France by King Louis XVI tested Mesmer's claims concerning animal magnetism. By doing that, the commission, including such prominent scientists as the chemist Anton Lavoisier and the scientist and researcher on electricity and therapeutics Benjamin Franklin, played a central role in establishing the criteria needed to assess the level of evidence of electrical therapeutics in psychiatry. Surprisingly, it is possible to identify the classical Bradford Hill criteria of causation in the report of the commission, except the dose-effect relationship criteria. Since then, it has been conducted blinded randomized controlled trials that confirmed the effectiveness of ECT against ECT placebos for the treatment of psychiatric disorders. At present, the dose-effect relationship criteria can be analyzed through an EEG quality assessment of ECT-induced seizures. EEG quality assessment includes several indices: TSLOW (time to onset of seizure activity ≤5Hz, seconds), peak mid-ictal amplitude (mm), regularity (intensity or morphology of the seizure (0-6)), stereotypy (global seizure patterning, 0-3) and post-ictal suppression (0-3). A manual rating sheet is needed to score theses indices. Such manual rating with example of EEG segments recording is proposed in this article. Additional studies are needed to validate this manual, to better establish the dose-response relationship for the ECT, and thus strengthen the position of the EEG as a central element for clinical good practice for ECT. © L’Encéphale, Paris, 2016.

An Integrated Korean Biodiversity and Genetic Information Retrieval System

PubMed Central

Lim, Jeongheui; Bhak, Jong; Oh, Hee-Mock; Kim, Chang-Bae; Park, Yong-Ha; Paek, Woon Kee

2008-01-01

Background On-line biodiversity information databases are growing quickly and being integrated into general bioinformatics systems due to the advances of fast gene sequencing technologies and the Internet. These can reduce the cost and effort of performing biodiversity surveys and genetic searches, which allows scientists to spend more time researching and less time collecting and maintaining data. This will cause an increased rate of knowledge build-up and improve conservations. The biodiversity databases in Korea have been scattered among several institutes and local natural history museums with incompatible data types. Therefore, a comprehensive database and a nation wide web portal for biodiversity information is necessary in order to integrate diverse information resources, including molecular and genomic databases. Results The Korean Natural History Research Information System (NARIS) was built and serviced as the central biodiversity information system to collect and integrate the biodiversity data of various institutes and natural history museums in Korea. This database aims to be an integrated resource that contains additional biological information, such as genome sequences and molecular level diversity. Currently, twelve institutes and museums in Korea are integrated by the DiGIR (Distributed Generic Information Retrieval) protocol, with Darwin Core2.0 format as its metadata standard for data exchange. Data quality control and statistical analysis functions have been implemented. In particular, integrating molecular and genetic information from the National Center for Biotechnology Information (NCBI) databases with NARIS was recently accomplished. NARIS can also be extended to accommodate other institutes abroad, and the whole system can be exported to establish local biodiversity management servers. Conclusion A Korean data portal, NARIS, has been developed to efficiently manage and utilize biodiversity data, which includes genetic resources. NARIS aims to be integral in maximizing bio-resource utilization for conservation, management, research, education, industrial applications, and integration with other bioinformation data resources. It can be found at . PMID:19091024

VIEWCACHE: An incremental pointer-based access method for autonomous interoperable databases

NASA Technical Reports Server (NTRS)

Roussopoulos, N.; Sellis, Timos

1993-01-01

One of the biggest problems facing NASA today is to provide scientists efficient access to a large number of distributed databases. Our pointer-based incremental data base access method, VIEWCACHE, provides such an interface for accessing distributed datasets and directories. VIEWCACHE allows database browsing and search performing inter-database cross-referencing with no actual data movement between database sites. This organization and processing is especially suitable for managing Astrophysics databases which are physically distributed all over the world. Once the search is complete, the set of collected pointers pointing to the desired data are cached. VIEWCACHE includes spatial access methods for accessing image datasets, which provide much easier query formulation by referring directly to the image and very efficient search for objects contained within a two-dimensional window. We will develop and optimize a VIEWCACHE External Gateway Access to database management systems to facilitate database search.

The Archives of the Department of Terrestrial Magnetism: Documenting 100 Years of Carnegie Science

NASA Astrophysics Data System (ADS)

Hardy, S. J.

2005-12-01

The archives of the Department of Terrestrial Magnetism (DTM) of the Carnegie Institution of Washington document more than a century of geophysical and astronomical investigations. Primary source materials available for historical research include field and laboratory notebooks, equipment designs, plans for observatories and research vessels, scientists' correspondence, and thousands of expedition and instrument photographs. Yet despite its history, DTM long lacked a systematic approach to managing its documentary heritage. A preliminary records survey conducted in 2001 identified more than 1,000 linear feet of historically-valuable records languishing in dusty, poorly-accessible storerooms. Intellectual control at that time was minimal. With support from the National Historical Publications and Records Commission, the "Carnegie Legacy Project" was initiated in 2003 to preserve, organize, and facilitate access to DTM's archival records, as well as those of the Carnegie Institution's administrative headquarters and Geophysical Laboratory. Professional archivists were hired to process the 100-year backlog of records. Policies and procedures were established to ensure that all work conformed to national archival standards. Records were appraised, organized, and rehoused in acid-free containers, and finding aids were created for the project web site. Standardized descriptions of each collection were contributed to the WorldCat bibliographic database and the AIP International Catalog of Sources for History of Physics. Historic photographs and documents were digitized for online exhibitions to raise awareness of the archives among researchers and the general public. The success of the Legacy Project depended on collaboration between archivists, librarians, historians, data specialists, and scientists. This presentation will discuss key aspects (funding, staffing, preservation, access, outreach) of the Legacy Project and is aimed at personnel in observatories, research institutes, and other organizations interested in establishing their own archival programs.

The NASA Science Internet: An integrated approach to networking

NASA Technical Reports Server (NTRS)

Rounds, Fred

1991-01-01

An integrated approach to building a networking infrastructure is an absolute necessity for meeting the multidisciplinary science networking requirements of the Office of Space Science and Applications (OSSA) science community. These networking requirements include communication connectivity between computational resources, databases, and library systems, as well as to other scientists and researchers around the world. A consolidated networking approach allows strategic use of the existing science networking within the Federal government, and it provides networking capability that takes into consideration national and international trends towards multivendor and multiprotocol service. It also offers a practical vehicle for optimizing costs and maximizing performance. Finally, and perhaps most important to the development of high speed computing is that an integrated network constitutes a focus for phasing to the National Research and Education Network (NREN). The NASA Science Internet (NSI) program, established in mid 1988, is structured to provide just such an integrated network. A description of the NSI is presented.

[Colciencias and disdain for Colombian scientists: from the Stone Age to the impact factor].

PubMed

Leon-Sarmiento, Fidias E; Bayona-Prieto, Jaime; Bayona, Edgardo; Leon, Martha E

2005-01-01

Writing has dramatically evolved in the world; however, qualification of scientific production in Colombia has not, including the improper use of decree 1444/93 and 1279/02. The last of these decrees authorized Colciencias, the Colombian government institute created to support scientific research in Colombia, to establish rules for its implementation. Colciencias decided to evaluate scientific papers produced in Colombia based on the non-scientific method of the "impact factor", and considered that citations in MEDLINE/PubMed and PsylNFO were second line publications thus violating Colombian law. This affects not only the progress of scientific research in Colombia but also researchers' income and puts Colombia's scientific journals and publications at great disadvantage. Scientific papers indexed in qualified databases such as MEDLINE/PubMed must be judged according to law in order to prevent further injuries to the developing Colombian scientific production.

Citizen science, GIS, and the global hunt for landslides

NASA Astrophysics Data System (ADS)

Juang, C.; Stanley, T.; Kirschbaum, D.

2017-12-01

Landslides occur across the United States and around the world, causing much suffering and infrastructure damage. Many of these events have been recorded in the Global Landslide Catalog (GLC), a worldwide record of recently rainfall-triggered landslides. The extent and composition of this database has been affected by the limits of media search tools and available staffing. Citizen scientists could expand the effort exponentially, as well as diversify the knowledge base of the research team. In order to enable this collaboration the NASA Center for Climate Simulation has created a GIS portal for viewing, editing, and managing the GLC. The data is also exposed through a Rest API, for easy incorporation into geospatial websites by third parties. Future developments may include the ability to store polygons delineating large landslides, digitization from recent satellite imagery, and the establishment of a community for international landslide research that is open to both lay and academic users.

CADDIS Volume 5. Causal Databases: Interactive Conceptual Diagrams (ICDs) Quick Start Instructions

EPA Pesticide Factsheets

The Causal Analysis/Diagnosis Decision Information System, or CADDIS, is a website developed to help scientists and engineers in the Regions, States, and Tribes conduct causal assessments in aquatic systems.

49 CFR 384.229 - Skills test examiner auditing and monitoring.

Code of Federal Regulations, 2014 CFR

2014-10-01

... overt monitoring must be performed at least once every year; (c) Establish and maintain a database to...; (d) Establish and maintain a database of all third party testers and examiners, which at a minimum... examiner; (e) Establish and maintain a database of all State CDL skills examiners, which at a minimum...

49 CFR 384.229 - Skills test examiner auditing and monitoring.

Code of Federal Regulations, 2013 CFR

2013-10-01

... overt monitoring must be performed at least once every year; (c) Establish and maintain a database to...; (d) Establish and maintain a database of all third party testers and examiners, which at a minimum... examiner; (e) Establish and maintain a database of all State CDL skills examiners, which at a minimum...

Developing Science: Scientific Performance and Brain Drains in the Developing World

PubMed Central

Weinberg, Bruce A.

2016-01-01

Establishing a strong scientific community is important as countries develop, which requires both producing and retaining of important scientists. We show that developing countries produce a sizeable number of important scientists, but that they experience a tremendous brain drain. Education levels, population, and per capita GDP are positively related to the number of important scientists born in and staying in a country. Our analysis indicates that democracy and urbanization are associated with the production of more important scientists although democracy is associated with more out-migration. PMID:27152061

Visual self-images of scientists and science in Greece.

PubMed

Christidou, Vasilia; Kouvatas, Apostolos

2013-01-01

A popular and well-established image of scientists and science dominates in the public field, signifying a contradictory and multifaceted combination of stereotypes. This paper investigates crucial aspects of the visual self-image of Greek scientists and science as exposed in photographic material retrieved from relevant institutions' websites. In total 971 photos were analysed along dimensions corresponding to the image of scientists and science. Analysis demonstrates ambivalence in Greek scientists' self-images between traditional stereotypic characteristics and an intention to overcome them. Differences between the self-images of physics, chemistry and biology are determined, as well as between the "masculine" and "feminine" face of science. Implications concerning improvements in science and scientists' self-images and further research are presented.

From medical student to clinician-scientist: where is the pathway in Australia?

PubMed

Eley, D S; Benham, H

2016-12-01

Clinician-scientists are a valuable resource and are crucial to ensuring that high-quality health and medical research is undertaken and translated to patients. Although the literature notes the global decline in clinician-scientists and infers the worldwide similarity in the challenges to reverse this decline, Australia continues to lag behind in establishing an infrastructure to address the dilemma. © 2016 Royal Australasian College of Physicians.

Enhancement to Hitran to Support the NASA EOS Program

NASA Technical Reports Server (NTRS)

Kirby, Kate P.; Rothman, Laurence S.

1998-01-01

The HITRAN molecular database has been enhanced with the object of providing improved capabilities for the EOS program scientists. HITRAN itself is the database of high-resolution line parameters of gaseous species expected to be observed by the EOS program in its remote sensing activities. The database is part of a larger compilation that includes IR cross-sections, aerosol indices of refraction, and software for filtering and plotting portions of the database. These properties have also been improved. The software has been advanced in order to work on multiple platforms. Besides the delivery of the compilation on CD-ROM, the effort has been directed toward making timely access of data and software on the world wide web.

Feasibility of combining two aquatic benthic macroinvertebrate community databases for water-quality assessment

USGS Publications Warehouse

Lenz, Bernard N.

1997-01-01

An important part of the U.S. Geological Survey's (USGS) National Water-Quality Assessment (NAWQA) Program is the analysis of existing data in each of the NAWQA study areas. The Wisconsin Department of Natural Resources (WDNR) has an extensive aquatic benthic macroinvertebrate communities in streams (benthic invertebrates) database maintained by the University of Wisconsin-Stevens Point. This database has data which date back to 1984 and includes data from streams within the Western Lake Michigan Drainages (WMIC) study area (fig. 1). This report looks at the feasibility of USGS scientists supplementing the data they collect with data from the WDNR database when assessing water quality in the study area.

Enhancement to HITRAN to Support the NASA EOS Program

NASA Technical Reports Server (NTRS)

Kirby, Kate P.; Rothman, Laurence S.

1999-01-01

The HITRAN molecular database has been enhanced with the object of providing improved capabilities for the EOS program scientists. HITRAN itself is the database of high-resolution line parameters of gaseous species expected to be observed by the EOS program in its remote sensing activities. The database is part of a larger compilation that includes IR cross-sections, aerosol indices of refraction, and software for filtering and plotting portions of the database. These properties have also been improved. The software has been advanced in order to work on multiple platforms. Besides the delivery of the compilation on CD-ROM, the effort has been directed toward making timely access of data and software on the world wide web.

The Long Valley Caldera GIS database

USGS Publications Warehouse

Battaglia, Maurizio; Williams, M.J.; Venezky, D.Y.; Hill, D.P.; Langbein, J.O.; Farrar, C.D.; Howle, J.F.; Sneed, M.; Segall, P.

2003-01-01

This database provides an overview of the studies being conducted by the Long Valley Observatory in eastern California from 1975 to 2001. The database includes geologic, monitoring, and topographic datasets related to Long Valley caldera. The CD-ROM contains a scan of the original geologic map of the Long Valley region by R. Bailey. Real-time data of the current activity of the caldera (including earthquakes, ground deformation and the release of volcanic gas), information about volcanic hazards and the USGS response plan are available online at the Long Valley observatory web page (http://lvo.wr.usgs.gov). If you have any comments or questions about this database, please contact the Scientist in Charge of the Long Valley observatory.

HOWDY: an integrated database system for human genome research

PubMed Central

Hirakawa, Mika

2002-01-01

HOWDY is an integrated database system for accessing and analyzing human genomic information (http://www-alis.tokyo.jst.go.jp/HOWDY/). HOWDY stores information about relationships between genetic objects and the data extracted from a number of databases. HOWDY consists of an Internet accessible user interface that allows thorough searching of the human genomic databases using the gene symbols and their aliases. It also permits flexible editing of the sequence data. The database can be searched using simple words and the search can be restricted to a specific cytogenetic location. Linear maps displaying markers and genes on contig sequences are available, from which an object can be chosen. Any search starting point identifies all the information matching the query. HOWDY provides a convenient search environment of human genomic data for scientists unsure which database is most appropriate for their search. PMID:11752279

Enabling High-performance Interactive Geoscience Data Analysis Through Data Placement and Movement Optimization

NASA Astrophysics Data System (ADS)

Zhu, F.; Yu, H.; Rilee, M. L.; Kuo, K. S.; Yu, L.; Pan, Y.; Jiang, H.

2017-12-01

Since the establishment of data archive centers and the standardization of file formats, scientists are required to search metadata catalogs for data needed and download the data files to their local machines to carry out data analysis. This approach has facilitated data discovery and access for decades, but it inevitably leads to data transfer from data archive centers to scientists' computers through low-bandwidth Internet connections. Data transfer becomes a major performance bottleneck in such an approach. Combined with generally constrained local compute/storage resources, they limit the extent of scientists' studies and deprive them of timely outcomes. Thus, this conventional approach is not scalable with respect to both the volume and variety of geoscience data. A much more viable solution is to couple analysis and storage systems to minimize data transfer. In our study, we compare loosely coupled approaches (exemplified by Spark and Hadoop) and tightly coupled approaches (exemplified by parallel distributed database management systems, e.g., SciDB). In particular, we investigate the optimization of data placement and movement to effectively tackle the variety challenge, and boost the popularization of parallelization to address the volume challenge. Our goal is to enable high-performance interactive analysis for a good portion of geoscience data analysis exercise. We show that tightly coupled approaches can concentrate data traffic between local storage systems and compute units, and thereby optimizing bandwidth utilization to achieve a better throughput. Based on our observations, we develop a geoscience data analysis system that tightly couples analysis engines with storages, which has direct access to the detailed map of data partition locations. Through an innovation data partitioning and distribution scheme, our system has demonstrated scalable and interactive performance in real-world geoscience data analysis applications.

78 FR 15707 - Fisheries of the Atlantic and Gulf of Mexico; Southeast Data, Assessment, and Review (SEDAR...

Federal Register 2010, 2011, 2012, 2013, 2014

2013-03-12

... Southeast Data, Assessment and Review (SEDAR) process, a multi-step method for determining the status of... Center. Participants include: data collectors and database managers; stock assessment scientists...

Flight movement inventory : SAGE-AERO2K

DOT National Transportation Integrated Search

2004-04-28

A global air traffic emissions database is an essential tool for both policy makers and climate change : scientists. Since the last comprehensive aircraft emissions inventories were developed in 1992, an : update is necessary. This need is being addr...

STI Handbook: Guidelines for Producing, Using, and Managing Scientific and Technical Information in the Department of the Navy. A Handbook for Navy Scientists and Engineers on the Use of Scientific and Technical Information

DTIC Science & Technology

1992-02-01

6 What Information Should Be Included in the TR Database? 2-6 What Types of Media Can Be Used to Submit Information to the TR Database? 2-9 How Is...reports. Contract administration documents. Regulations. Commercially published books. WHAT TYPES OF MEDIA CAN BE USED TO SUBMIT INFORMATION TO THE TR...TOWARD DTIC’S WUIS DATA- BASE ? The WUIS database, used to control and report technical and management data, summarizes ongoing research and technology

The Expansion of the Astronomical Photographic Data Archive at PARI

NASA Astrophysics Data System (ADS)

Cline, J. Donald; Barker, Thurburn; Castelaz, Michael

2017-01-01

A diverse set of photometric, astrometric, spectral and surface brightness data exist on decades of photographic glass plates. The Astronomical Photographic Data Archive (APDA) at the Pisgah Astronomical Research Institute (PARI) was established in November 2007 and is dedicated to the task of collecting, restoring, preserving and storing astronomical photographic data and PARI continues to accept collections. APDA is also tasked with scanning each image and establishing a database of images that can be accessed via the Internet by the global community of scientists, researchers and students. APDA is a new type of astronomical observatory - one that harnesses analog data of the night sky taken for more than a century and making that data available in a digital format.In 2016, APDA expanded from 50 collections with about 220,000 plates to more than 55 collections and more than 340,000 plates and films. These account for more than 30% of all astronomical photographic data in the United States. The largest of the new acquisitions are the astronomical photographic plates in the Yale University collection. We present details of the newly added collections and review of other collections in APDA.

Scientists as writers

NASA Astrophysics Data System (ADS)

Yore, Larry D.; Hand, Brian M.; Prain, Vaughan

2002-09-01

This study attempted to establish an image of a science writer based on a synthesis of writing theory, models, and research literature on academic writing in science and other disciplines and to contrast this image with an actual prototypical image of scientists as writers of science. The synthesis was used to develop a questionnaire to assess scientists' writing habits, beliefs, strategies, and perceptions about print-based language. The questionnaire was administered to 17 scientists from science and applied science departments of a large Midwestern land grant university. Each respondent was interviewed following the completion of the questionnaire with a custom-designed semistructured protocol to elaborate, probe, and extend their written responses. These data were analyzed in a stepwise fashion using the questionnaire responses to establish tentative assertions about the three major foci (type of writing done, criteria of good science writing, writing strategies used) and the interview responses to verify these assertions. Two illustrative cases (a very experienced, male physical scientist and a less experienced, female applied biological scientist) were used to highlight diversity in the sample. Generally, these 17 scientists are driven by the academy's priority of publishing their research results in refereed, peer-reviewed journals. They write their research reports in isolation or as a member of a large research team, target their writing to a few journals that they also read regularly, use writing in their teaching and scholarship to inform and persuade science students and other scientists, but do little border crossing into other discourse communities. The prototypical science writer found in this study did not match the image based on a synthesis of the writing literature in that these scientists perceived writing as knowledge telling not knowledge building, their metacognition of written discourse was tacit, and they used a narrow array of genre, strategies, target audiences, and expectations for their writing.

Provenance-Powered Automatic Workflow Generation and Composition

NASA Astrophysics Data System (ADS)

Zhang, J.; Lee, S.; Pan, L.; Lee, T. J.

2015-12-01

In recent years, scientists have learned how to codify tools into reusable software modules that can be chained into multi-step executable workflows. Existing scientific workflow tools, created by computer scientists, require domain scientists to meticulously design their multi-step experiments before analyzing data. However, this is oftentimes contradictory to a domain scientist's daily routine of conducting research and exploration. We hope to resolve this dispute. Imagine this: An Earth scientist starts her day applying NASA Jet Propulsion Laboratory (JPL) published climate data processing algorithms over ARGO deep ocean temperature and AMSRE sea surface temperature datasets. Throughout the day, she tunes the algorithm parameters to study various aspects of the data. Suddenly, she notices some interesting results. She then turns to a computer scientist and asks, "can you reproduce my results?" By tracking and reverse engineering her activities, the computer scientist creates a workflow. The Earth scientist can now rerun the workflow to validate her findings, modify the workflow to discover further variations, or publish the workflow to share the knowledge. In this way, we aim to revolutionize computer-supported Earth science. We have developed a prototyping system to realize the aforementioned vision, in the context of service-oriented science. We have studied how Earth scientists conduct service-oriented data analytics research in their daily work, developed a provenance model to record their activities, and developed a technology to automatically generate workflow starting from user behavior and adaptability and reuse of these workflows for replicating/improving scientific studies. A data-centric repository infrastructure is established to catch richer provenance to further facilitate collaboration in the science community. We have also established a Petri nets-based verification instrument for provenance-based automatic workflow generation and recommendation.

Research Institute for Technical Careers

NASA Technical Reports Server (NTRS)

Glenn, Ronald L.

1996-01-01

The NASA research grant to Wilberforce University enabled us to establish the Research Institute for Technical Careers (RITC) in order to improve the teaching of science and engineering at Wilberforce. The major components of the research grant are infrastructure development, establishment of the Wilberforce Intensive Summer Experience (WISE), and Joint Research Collaborations with NASA Scientists. (A) Infrastructure Development. The NASA grant has enabled us to improve the standard of our chemistry laboratory and establish the electronics, design, and robotics laboratories. These laboratories have significantly improved the level of instruction at Wilberforce University. (B) Wilberforce Intensive Summer Experience (WISE). The WISE program is a science and engineering bridge program for prefreshman students. It is an intensive academic experience designed to strengthen students' knowledge in mathematics, science, engineering, computing skills, and writing. (C) Joint Collaboration. Another feature of the grant is research collaborations between NASA Scientists and Wilberforce University Scientists. These collaborations have enabled our faculty and students to conduct research at NASA Lewis during the summer and publish research findings in various journals and scientific proceedings.

SensorKit: An End-to-End Solution for Environmental Sensor Networking

NASA Astrophysics Data System (ADS)

Silva, F.; Graham, E.; Deschon, A.; Lam, Y.; Goldman, J.; Wroclawski, J.; Kaiser, W.; Benzel, T.

2008-12-01

Modern day sensor network technology has shown great promise to transform environmental data collection. However, despite the promise, these systems have remained the purview of the engineers and computer scientists who design them rather than a useful tool for the environmental scientists who need them. SensorKit is conceived of as a way to make wireless sensor networks accessible to The People: it is an advanced, powerful tool for sensor data collection that does not require advanced technological know-how. We are aiming to make wireless sensor networks for environmental science as simple as setting up a standard home computer network by providing simple, tested configurations of commercially-available hardware, free and easy-to-use software, and step-by-step tutorials. We designed and built SensorKit using a simplicity-through-sophistication approach, supplying users a powerful sensor to database end-to-end system with a simple and intuitive user interface. Our objective in building SensorKit was to make the prospect of using environmental sensor networks as simple as possible. We built SensorKit from off the shelf hardware components, using the Compact RIO platform from National Instruments for data acquisition due to its modular architecture and flexibility to support a large number of sensor types. In SensorKit, we support various types of analog, digital and networked sensors. Our modular software architecture allows us to abstract sensor details and provide users a common way to acquire data and to command different types of sensors. SensorKit is built on top of the Sensor Processing and Acquisition Network (SPAN), a modular framework for acquiring data in the field, moving it reliably to the scientist institution, and storing it in an easily-accessible database. SPAN allows real-time access to the data in the field by providing various options for long haul communication, such as cellular and satellite links. Our system also features reliable data storage and transmission, using a custody transfer mechanism that ensures data is retained until successful delivery to the scientist can be confirmed. The ability for the scientist to communicate in real-time with the sensor network in the field enables remote sensor reconfiguration and system health and status monitoring. We use a spiral approach of design, test, deploy and revise, and, by going to the field frequently and getting feedback from field scientists, we have been able to include additional functionality that is useful to the scientist while ensuring SensorKit remains intuitive to operate. Users can configure, control, and monitor SensorKit using a number of tools we have developed. An intuitive user interface running on a desktop or laptop allows scientists to setup the system, add and configure sensors, and specify when and how the data will be collected. We also have a mobile version of our interface that runs on a PDA and lets scientists calibrate sensors and "tune" the system while in the field, allowing for data validation before leaving the field and returning to the research lab. SensorKit also features SensorBase, an intuitive user interface built on top of a standard SQL database, which allows scientists to store and share their data with other researchers. SensorKit has been used for diverse scientific applications and deployed throughout the world: from studying mercury cycling in rice paddies in China, to ecological research in the neotropical rainforests of Costa Rica, to monitoring the contamination of salt lakes in Argentina.

ISMB Conference Funding to Support Attendance of Early Researchers and Students

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

Gaasterland, Terry

ISMB Conference Funding for Students and Young Scientists Historical Description The Intelligent Systems for Molecular Biology (ISMB) conference has provided a general forum for disseminating the latest developments in bioinformatics on an annual basis for the past 22 years. ISMB is a multidisciplinary conference that brings together scientists from computer science, molecular biology, mathematics and statistics. The goal of the ISMB meeting is to bring together biologists and computational scientists in a focus on actual biological problems, i.e., not simply theoretical calculations. The combined focus on “intelligent systems” and actual biological data makes ISMB a unique and highly important meeting.more » 21 years of experience in holding the conference has resulted in a consistently well-organized, well attended, and highly respected annual conference. "Intelligent systems" include any software which goes beyond straightforward, closed-form algorithms or standard database technologies, and encompasses those that view data in a symbolic fashion, learn from examples, consolidate multiple levels of abstraction, or synthesize results to be cognitively tractable to a human, including the development and application of advanced computational methods for biological problems. Relevant computational techniques include, but are not limited to: machine learning, pattern recognition, knowledge representation, databases, combinatorics, stochastic modeling, string and graph algorithms, linguistic methods, robotics, constraint satisfaction, and parallel computation. Biological areas of interest include molecular structure, genomics, molecular sequence analysis, evolution and phylogenetics, molecular interactions, metabolic pathways, regulatory networks, developmental control, and molecular biology generally. Emphasis is placed on the validation of methods using real data sets, on practical applications in the biological sciences, and on development of novel computational techniques. The ISMB conferences are distinguished from many other conferences in computational biology or artificial intelligence by an insistence that the researchers work with real molecular biology data, not theoretical or toy examples; and from many other biological conferences by providing a forum for technical advances as they occur, which otherwise may be shunned until a firm experimental result is published. The resulting intellectual richness and cross-disciplinary diversity provides an important opportunity for both students and senior researchers. ISMB has become the premier conference series in this field with refereed, published proceedings, establishing an infrastructure to promote the growing body of research.« less

BAID: The Barrow Area Information Database - an interactive web mapping portal and cyberinfrastructure for scientific activities in the vicinity of Barrow, Alaska

NASA Astrophysics Data System (ADS)

Cody, R. P.; Kassin, A.; Gaylord, A.; Brown, J.; Tweedie, C. E.

2012-12-01

The Barrow area of northern Alaska is one of the most intensely researched locations in the Arctic. The Barrow Area Information Database (BAID, www.baidims.org) 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 9,600 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, and save or print maps and query results. Data are described with metadata that meet Federal Geographic Data Committee standards and are archived at the University Corporation for Atmospheric Research Earth Observing Laboratory (EOL) where non-proprietary BAID data can be freely downloaded. BAID has been used to: Optimize research site choice; Reduce duplication of science effort; Discover complementary and potentially detrimental research activities in an area of scientific interest; Re-establish historical research sites for resampling efforts assessing change in ecosystem structure and function over time; Exchange knowledge across disciplines and generations; Facilitate communication between western science and traditional ecological knowledge; Provide local residents access to science data that facilitates adaptation to arctic change; (and) Educate the next generation of environmental and computer scientists. This poster describes key activities that will be undertaken over the next three years to provide BAID users with novel software tools to interact with a current and diverse selection of information and data about the Barrow area. Key activities include: 1. Collecting data on research activities, generating geospatial data, and providing mapping support. 2. Maintaining, updating and innovating the existing suite of BAID geobrowsers. 3. Maintaining and updating aging server hardware supporting BAID. 4. Adding interoperability with other CI using workflows, controlled vocabularies and web services. 5. Linking BAID to data archives at the National Snow and Ice Data Center (NSIDC). 6. Developing a wireless sensor network that provides web based interaction with near-real time climate and other data. 7. Training next generation of environmental and computer scientists and conducting outreach.

The Scientists in Schools Project

ERIC Educational Resources Information Center

Howitt, Christine; Rennie, Leonie; Heard, Marian; Yuncken, Liz

2009-01-01

Scientists in Schools is a project funded by the Australian Government Department of Education, Employment, and Workplace Relations and managed by the Commonwealth Scientific and Industrial Research Organisation, Education Section. This paper describes how the project is working to establish and maintain sustained and ongoing partnerships between…

CrowdHydrology: crowdsourcing hydrologic data and engaging citizen scientists.

PubMed

Lowry, Christopher S; Fienen, Michael N

2013-01-01

Spatially and temporally distributed measurements of processes, such as baseflow at the watershed scale, come at substantial equipment and personnel cost. Research presented here focuses on building a crowdsourced database of inexpensive distributed stream stage measurements. Signs on staff gauges encourage citizen scientists to voluntarily send hydrologic measurements (e.g., stream stage) via text message to a server that stores and displays the data on the web. Based on the crowdsourced stream stage, we evaluate the accuracy of citizen scientist measurements and measurement approach. The results show that crowdsourced data collection is a supplemental method for collecting hydrologic data and a promising method of public engagement. © 2012, The Author(s). Ground Water © 2012, National Ground Water Association.

GHG Mitigation Options Database (GMOD) and Analysis Tool

EPA Science Inventory

There is a growing consensus among scientists, agencies, and nonprofit organizations that the primary cause of climate change is anthropogenic (resulting from human activity) greenhouse gas (GHG) emissions (Figueroa et al., 2008). Given the strengthening science behind the human ...

Creating a Coastal National Elevation Database (CoNED) for science and conservation applications

USGS Publications Warehouse

Thatcher, Cindy A.; Brock, John C.; Danielson, Jeffrey J.; Poppenga, Sandra K.; Gesch, Dean B.; Palaseanu-Lovejoy, Monica; Barras, John; Evans, Gayla A.; Gibbs, Ann

2016-01-01

The U.S. Geological Survey is creating the Coastal National Elevation Database, an expanding set of topobathymetric elevation models that extend seamlessly across coastal regions of high societal or ecological significance in the United States that are undergoing rapid change or are threatened by inundation hazards. Topobathymetric elevation models are raster datasets useful for inundation prediction and other earth science applications, such as the development of sediment-transport and storm surge models. These topobathymetric elevation models are being constructed by the broad regional assimilation of numerous topographic and bathymetric datasets, and are intended to fulfill the pressing needs of decision makers establishing policies for hazard mitigation and emergency preparedness, coastal managers tasked with coastal planning compatible with predictions of inundation due to sea-level rise, and scientists investigating processes of coastal geomorphic change. A key priority of this coastal elevation mapping effort is to foster collaborative lidar acquisitions that meet the standards of the USGS National Geospatial Program's 3D Elevation Program, a nationwide initiative to systematically collect high-quality elevation data. The focus regions are located in highly dynamic environments, for example in areas subject to shoreline change, rapid wetland loss, hurricane impacts such as overwash and wave scouring, and/or human-induced changes to coastal topography.

Strengthening the network of mentored, underrepresented minority scientists and leaders to reduce HIV-related health disparities.

PubMed

Sutton, Madeline Y; Lanier, Yzette A; Willis, Leigh A; Castellanos, Ted; Dominguez, Ken; Fitzpatrick, Lisa; Miller, Kim S

2013-12-01

We reviewed data for the Minority HIV/AIDS Research Initiative (MARI), which was established in 2003 to support underrepresented minority scientists performing HIV prevention research in highly affected communities. MARI was established at the Centers for Disease Prevention and Control as a program of competitively awarded, mentored grants for early career researchers conducting HIV prevention research in highly affected racial/ethnic and sexual minority communities. We have described progress from 2003 to 2013. To date, MARI has mentored 27 scientist leaders using low-cost strategies to enhance the development of effective HIV prevention interventions. These scientists have (1) developed research programs in disproportionately affected communities of color, (2) produced first-authored peer-reviewed scientific and programmatic products (including articles and community-level interventions), and (3) obtained larger, subsequent funding awards for research and programmatic work related to HIV prevention and health disparities work. The MARI program demonstrates how to effectively engage minority scientists to conduct HIV prevention research and reduce racial/ethnic investigator disparities and serves as a model for programs to reduce disparities in other public health areas in which communities of color are disproportionately affected.

Strengthening the Network of Mentored, Underrepresented Minority Scientists and Leaders to Reduce HIV-Related Health Disparities

PubMed Central

Lanier, Yzette A.; Willis, Leigh A.; Castellanos, Ted; Dominguez, Ken; Fitzpatrick, Lisa; Miller, Kim S.

2013-01-01

Objectives. We reviewed data for the Minority HIV/AIDS Research Initiative (MARI), which was established in 2003 to support underrepresented minority scientists performing HIV prevention research in highly affected communities. Methods. MARI was established at the Centers for Disease Prevention and Control as a program of competitively awarded, mentored grants for early career researchers conducting HIV prevention research in highly affected racial/ethnic and sexual minority communities. We have described progress from 2003 to 2013. Results. To date, MARI has mentored 27 scientist leaders using low-cost strategies to enhance the development of effective HIV prevention interventions. These scientists have (1) developed research programs in disproportionately affected communities of color, (2) produced first-authored peer-reviewed scientific and programmatic products (including articles and community-level interventions), and (3) obtained larger, subsequent funding awards for research and programmatic work related to HIV prevention and health disparities work. Conclusions. The MARI program demonstrates how to effectively engage minority scientists to conduct HIV prevention research and reduce racial/ethnic investigator disparities and serves as a model for programs to reduce disparities in other public health areas in which communities of color are disproportionately affected. PMID:24134360

In Service to the Nation: The Geology Scientist Emeritus Program

USGS Publications Warehouse

Adrian, B.M.; Bybell, L.M.; Brady, S.R.

2008-01-01

The Geology Scientist Emeritus Program of the U.S. Geological Survey was established in 1986 as part of the Bureau's Volunteer for Science Program. The purpose of the Scientist Emeritus (SE) Program is to help support retired USGS senior scientists as they volunteer their expertise, intellect, and creativity in efforts that allow them to remain active in the geoscience community, enhance the program activities of the Geology Discipline, and serve the public. The SE Program is open to all scientists and technical experts who have demonstrated leadership qualities and contributed to the goals of the USGS during a productive career. As long as the individual applying has been a scientist or technical expert, he or she may be considered for the SE Program, regardless of their previous position with the USGS.

Professional physical scientists display tenacious teleological tendencies: purpose-based reasoning as a cognitive default.

PubMed

Kelemen, Deborah; Rottman, Joshua; Seston, Rebecca

2013-11-01

Teleological explanations account for objects and events by reference to a functional consequence or purpose. Although they are popular in religion, they are unpopular in science: Physical scientists in particular explicitly reject them when explaining natural phenomena. However, prior research provides reasons to suspect that this explanatory form may represent a default explanatory preference. As a strong test of this hypothesis, we explored whether physical scientists endorse teleological explanations of natural phenomena when their information-processing resources are limited. In Study 1, physical scientists from top-ranked American universities judged explanations as true or false, either at speed or without time restriction. Like undergraduates and age-matched community participants, scientists demonstrated increased acceptance of unwarranted teleological explanations under speed despite maintaining high accuracy on control items. Scientists' overall endorsement of inaccurate teleological explanation was lower than comparison groups, however. In Study 2, we explored this further and found that the teleological tendencies of professional scientists did not differ from those of humanities scholars. Thus, although extended education appears to produce an overall reduction in inaccurate teleological explanation, specialization as a scientist does not, in itself, additionally ameliorate scientifically inaccurate purpose-based theories about the natural world. A religion-consistent default cognitive bias toward teleological explanation tenaciously persists and may have subtle but profound consequences for scientific progress. PsycINFO Database Record (c) 2013 APA, all rights reserved.

Mining the Galaxy Zoo Database: Machine Learning Applications

NASA Astrophysics Data System (ADS)

Borne, Kirk D.; Wallin, J.; Vedachalam, A.; Baehr, S.; Lintott, C.; Darg, D.; Smith, A.; Fortson, L.

2010-01-01

The new Zooniverse initiative is addressing the data flood in the sciences through a transformative partnership between professional scientists, volunteer citizen scientists, and machines. As part of this project, we are exploring the application of machine learning techniques to data mining problems associated with the large and growing database of volunteer science results gathered by the Galaxy Zoo citizen science project. We will describe the basic challenge, some machine learning approaches, and early results. One of the motivators for this study is the acquisition (through the Galaxy Zoo results database) of approximately 100 million classification labels for roughly one million galaxies, yielding a tremendously large and rich set of training examples for improving automated galaxy morphological classification algorithms. In our first case study, the goal is to learn which morphological and photometric features in the Sloan Digital Sky Survey (SDSS) database correlate most strongly with user-selected galaxy morphological class. As a corollary to this study, we are also aiming to identify which galaxy parameters in the SDSS database correspond to galaxies that have been the most difficult to classify (based upon large dispersion in their volunter-provided classifications). Our second case study will focus on similar data mining analyses and machine leaning algorithms applied to the Galaxy Zoo catalog of merging and interacting galaxies. The outcomes of this project will have applications in future large sky surveys, such as the LSST (Large Synoptic Survey Telescope) project, which will generate a catalog of 20 billion galaxies and will produce an additional astronomical alert database of approximately 100 thousand events each night for 10 years -- the capabilities and algorithms that we are exploring will assist in the rapid characterization and classification of such massive data streams. This research has been supported in part through NSF award #0941610.

California Fault Parameters for the National Seismic Hazard Maps and Working Group on California Earthquake Probabilities 2007

USGS Publications Warehouse

Wills, Chris J.; Weldon, Ray J.; Bryant, W.A.

2008-01-01

This report describes development of fault parameters for the 2007 update of the National Seismic Hazard Maps and the Working Group on California Earthquake Probabilities (WGCEP, 2007). These reference parameters are contained within a database intended to be a source of values for use by scientists interested in producing either seismic hazard or deformation models to better understand the current seismic hazards in California. These parameters include descriptions of the geometry and rates of movements of faults throughout the state. These values are intended to provide a starting point for development of more sophisticated deformation models which include known rates of movement on faults as well as geodetic measurements of crustal movement and the rates of movements of the tectonic plates. The values will be used in developing the next generation of the time-independent National Seismic Hazard Maps, and the time-dependant seismic hazard calculations being developed for the WGCEP. Due to the multiple uses of this information, development of these parameters has been coordinated between USGS, CGS and SCEC. SCEC provided the database development and editing tools, in consultation with USGS, Golden. This database has been implemented in Oracle and supports electronic access (e.g., for on-the-fly access). A GUI-based application has also been developed to aid in populating the database. Both the continually updated 'living' version of this database, as well as any locked-down official releases (e.g., used in a published model for calculating earthquake probabilities or seismic shaking hazards) are part of the USGS Quaternary Fault and Fold Database http://earthquake.usgs.gov/regional/qfaults/ . CGS has been primarily responsible for updating and editing of the fault parameters, with extensive input from USGS and SCEC scientists.

Nato-Pco Database

NASA Astrophysics Data System (ADS)

Wtv Gmbh

This new CD-ROM is a reference database. It covers almost twenty years of non-military scientific/technical meetings and publications sponsored by the NATO Science Committee. It contains full references (with keywords and/or abstracts) to more than 30,000 contributions from scientists all over the world and is published in more than 1,000 volumes. With the easy-to-follow menu options of the retrieval software, access to the data is simple and fast. Updates are planned on a yearly basis.

The technical communication practices of Russian and U.S. aerospace engineers and scientists

NASA Technical Reports Server (NTRS)

Pinelli, Thomas E.; Barclay, Rebecca O.; Keene, Michael L.; Flammia, Madelyn; Kennedy, John M.

1993-01-01

As part of Phase 4 of the NASA/DoD Aerospace Knowledge Diffusion Research Project, two studies were conducted that investigated the technical communication practices of Russian and U.S. aerospace engineers and scientists. Both studies had the same five objectives: first, to solicit the opinions of aerospace engineers and scientists regarding the importance of technical communication to their professions; second, to determine the use and production of technical communication by aerospace engineers and scientists; third, to seek their views about the appropriate content of the undergraduate course in technical communication; fourth, to determine aerospace engineers' and scientists' use of libraries, technical information centers, and on-line databases; and fifth, to determine the use and importance of computer and information technology to them. A self administered questionnaire was distributed to Russian aerospace engineers and scientists at the Central Aero-Hydrodynamic Institute (TsAGI) and to their U.S. counterparts at the NASA Ames Research Center and the NASA Langley Research Center. The completion rates for the Russian and U.S. surveys were 64 and 61 percent, respectively. Responses of the Russian and U.S. participants to selected questions are presented in this paper.

NASA/DOD Aerospace Knowledge Diffusion Research Project. Paper 28: The technical communication practices of Russian and US aerospace engineers and scientists

NASA Technical Reports Server (NTRS)

Pinelli, Thomas E.; Barclay, Rebecca O.; Keene, Michael L.; Flammia, Madelyn; Kennedy, John M.

1993-01-01

As part of Phase 4 of the NASA/DoD Aerospace Knowledge Diffusion Research Project, two studies were conducted that investigated the technical communication practices of Russian and U.S. aerospace engineers and scientists. Both studies had the same five objectives: first, to solicit the opinions of aerospace engineers and scientists regarding the importance of technical communication to their professions; second, to determine the use and production of technical communication by aerospace engineers and scientists; third, to seek their views about the appropriate content of the undergraduate course in technical communication; fourth, to determine aerospace engineers' and scientists' use of libraries, technical information centers, and on-line databases; and fifth, to determine the use and importance of computer and information technology to them. A self administered questionnaire was distributed to Russian aerospace engineers and scientists at the Central Aero-Hydrodynamic Institute (TsAGI) and to their U.S. counterparts at the NASA Ames Research Center and the NASA Langley Research Center. The completion rates for the Russian and U.S. surveys were 64 and 61 percent, respectively. Responses of the Russian and U.S. participants to selected questions are presented in this paper.

Enhancing Teaching Excellence through a Scientist-Science Teacher Collaborative Process.

ERIC Educational Resources Information Center

Haakonsen, Harry; And Others

1993-01-01

The Institute for Science Instruction and Study (ISIS) at Southern Connecticut State University was established to place experienced science teachers in extended contact with a variety of research scientists working at the cutting edge of their fields. Reports program goals, format, requirements, and evaluation. (LZ)

Consumer attitudes towards the establishment of a national Australian familial cancer research database by the Inherited Cancer Connect (ICCon) Partnership.

PubMed

Forrest, Laura; Mitchell, Gillian; Thrupp, Letitia; Petelin, Lara; Richardson, Kate; Mascarenhas, Lyon; Young, Mary-Anne

2018-01-01

Clinical genetics units hold large amounts of information which could be utilised to benefit patients and their families. In Australia, a national research database, the Inherited Cancer Connect (ICCon) database, is being established that comprises clinical genetic data held for all carriers of mutations in cancer predisposition genes. Consumer input was sought to establish the acceptability of the inclusion of clinical genetic data into a research database. A qualitative approach using a modified nominal group technique was used to collect data through consumer forums conducted in three Australian states. Individuals who had previously received care from Familial Cancer Centres were invited to participate. Twenty-four consumers participated in three forums. Participants expressed positive attitudes about the establishment of the ICCon database, which were informed by the perceived benefits of the database including improved health outcomes for individuals with inherited cancer syndromes. Most participants were comfortable to waive consent for their clinical information to be included in the research database in a de-identified format. As major stakeholders, consumers have an integral role in contributing to the development and conduct of the ICCon database. As an initial step in the development of the ICCon database, the forums demonstrated consumers' acceptance of important aspects of the database including waiver of consent.

U.S. Geological Survey archived data recovery in Texas, 2008-11

USGS Publications Warehouse

Wehmeyer, Loren L.; Reece, Brian D.

2011-01-01

The 2008–11 data rescue and recovery efforts by the U.S. Geological Survey (USGS) Texas Water Science Center resulted in an efficient workflow process, database, and Web user interface for scientists and citizens to access archived environmental information with practical applications. Much of this information is unique and has never been readily available to the public. The methods developed and lessons learned during this effort are now being applied to facilitate recovering archived information requested by USGS scientists, cooperators, and the general public.

Construction of databases: advances and significance in clinical research.

PubMed

Long, Erping; Huang, Bingjie; Wang, Liming; Lin, Xiaoyu; Lin, Haotian

2015-12-01

Widely used in clinical research, the database is a new type of data management automation technology and the most efficient tool for data management. In this article, we first explain some basic concepts, such as the definition, classification, and establishment of databases. Afterward, the workflow for establishing databases, inputting data, verifying data, and managing databases is presented. Meanwhile, by discussing the application of databases in clinical research, we illuminate the important role of databases in clinical research practice. Lastly, we introduce the reanalysis of randomized controlled trials (RCTs) and cloud computing techniques, showing the most recent advancements of databases in clinical research.

Scientists' Prioritization of Communication Objectives for Public Engagement.

PubMed

Dudo, Anthony; Besley, John C

2016-01-01

Amid calls from scientific leaders for their colleagues to become more effective public communicators, this study examines the objectives that scientists' report drive their public engagement behaviors. We explore how scientists evaluate five specific communication objectives, which include informing the public about science, exciting the public about science, strengthening the public's trust in science, tailoring messages about science, and defending science from misinformation. We use insights from extant research, the theory of planned behavior, and procedural justice theory to identify likely predictors of scientists' views about these communication objectives. Results show that scientists most prioritize communication designed to defend science from misinformation and educate the public about science, and least prioritize communication that seeks to build trust and establish resonance with the public. Regression analyses reveal factors associated with scientists who prioritize each of the five specific communication objectives. Our findings highlight the need for communication trainers to help scientists select specific communication objectives for particular contexts and audiences.

NASA missions CALIPSO and CloudSat partner with the GLOBE program to provide student opportunities for data collection to aid scientists researching climate change

NASA Astrophysics Data System (ADS)

Robinson, D. Q.; Maggi, B. H.; Krumm, D. K.

2004-12-01

NASA places great emphasis on developing partnerships with education communities, including collaborations with university scientists, K-16 science educators and students. Two universities contributing to this effort through their involvement with NASA satellite based research missions, CALIPSO and CloudSat, are Hampton University and Colorado State University. Both universities provide atmospheric research scientists for the missions and leadership for the Education and Outreach Programs developed for CALIPSO and CloudSat. These satellite-based research missions are co-manifested for launch during the spring 2004 and are included in the Afternoon Constellation also known as the "A-Train" satellite formation. The A-Train will consist of six missions flying in close proximity, providing combined detailed observations about the Earth's atmosphere allowing scientists to make better predictions related to climate change. CloudSat will use radar and provide a global survey of cloud properties to aid with improving cloud models and the accuracy of weather forecasts. CALIPSO will use Lidar to detect size and distribution of aerosols that will aid in improving our understanding of the role aerosols and clouds play in Earth's climate system. Each of the A-Train missions has a unique education and outreach program for students and teachers. Included in the CALIPSO and CloudSat education and outreach is a partnership with the GLOBE Program. GLOBE involves students worldwide in data collection and mission observations. The GLOBE program is a network of K-14 schools, science centers, after school programs, and environmental clubs from over 105 countries. Students participating in GLOBE collect scientific data according to precise protocols and enter the data into a central database allowing both scientists and students to utilize the information collected. The CALIPSO and CloudSat partnership with GLOBE involves the enlistment of student assistance worldwide for data collection that will be used by both missions. Students use the existing GLOBE protocols on aerosols and clouds to collect data as the satellites pass over their schools. CloudSat scientists will involve students by having them report visual observations related to cloud cover, cloud type and precipitation. This information will be compared to the CloudSat radar data to determine the accuracy of the satellite radar unit. CALIPSO will have students collect and report on aerosol measurements taken with a handheld sun photometer. These measurements will then be compared to those taken with the lidar riding on the satellite. Climate change and the effects aerosols have on climate are current topics in schools today. It now appears likely that anthropogenic aerosols resulting from industrial activities and agricultural burning are affecting weather and climate in some regions of the world. The data collected by students internationally for CALIPSO and CloudSat will allow them to better understand the impacts made by humans on Earth's atmosphere and how these impacts are global in scope. In return, scientists gain a valuable resource giving them ground-based data in more locations than would be possible using established weather stations and research laboratories. The partnership established by the CALIPSO and CloudSat missions with the GLOBE program will provide an opportunity to enrich earth science education in schools with a sustainable connection to NASA education.

The Primate Life History Database: A unique shared ecological data resource

PubMed Central

Strier, Karen B.; Altmann, Jeanne; Brockman, Diane K.; Bronikowski, Anne M.; Cords, Marina; Fedigan, Linda M.; Lapp, Hilmar; Liu, Xianhua; Morris, William F.; Pusey, Anne E.; Stoinski, Tara S.; Alberts, Susan C.

2011-01-01

Summary The importance of data archiving, data sharing, and public access to data has received considerable attention. Awareness is growing among scientists that collaborative databases can facilitate these activities.We provide a detailed description of the collaborative life history database developed by our Working Group at the National Evolutionary Synthesis Center (NESCent) to address questions about life history patterns and the evolution of mortality and demographic variability in wild primates.Examples from each of the seven primate species included in our database illustrate the range of data incorporated and the challenges, decision-making processes, and criteria applied to standardize data across diverse field studies. In addition to the descriptive and structural metadata associated with our database, we also describe the process metadata (how the database was designed and delivered) and the technical specifications of the database.Our database provides a useful model for other researchers interested in developing similar types of databases for other organisms, while our process metadata may be helpful to other groups of researchers interested in developing databases for other types of collaborative analyses. PMID:21698066

Why open drug discovery needs four simple rules for licensing data and models.

PubMed

Williams, Antony J; Wilbanks, John; Ekins, Sean

2012-01-01

When we look at the rapid growth of scientific databases on the Internet in the past decade, we tend to take the accessibility and provenance of the data for granted. As we see a future of increased database integration, the licensing of the data may be a hurdle that hampers progress and usability. We have formulated four rules for licensing data for open drug discovery, which we propose as a starting point for consideration by databases and for their ultimate adoption. This work could also be extended to the computational models derived from such data. We suggest that scientists in the future will need to consider data licensing before they embark upon re-using such content in databases they construct themselves.

Databases in the Area of Pharmacogenetics

PubMed Central

Sim, Sarah C.; Altman, Russ B.; Ingelman-Sundberg, Magnus

2012-01-01

In the area of pharmacogenetics and personalized health care it is obvious that databases, providing important information of the occurrence and consequences of variant genes encoding drug metabolizing enzymes, drug transporters, drug targets, and other proteins of importance for drug response or toxicity, are of critical value for scientists, physicians, and industry. The primary outcome of the pharmacogenomic field is the identification of biomarkers that can predict drug toxicity and drug response, thereby individualizing and improving drug treatment of patients. The drug in question and the polymorphic gene exerting the impact are the main issues to be searched for in the databases. Here, we review the databases that provide useful information in this respect, of benefit for the development of the pharmacogenomic field. PMID:21309040

FINE PARTICLE EMISSIONS INFORMATION SYSTEM: SUMMARY REPORT (SUMMER 1976)

EPA Science Inventory

The report summarizes the initial loading of data into the Fine Particle Emissions Information System (FPEIS), a computerized database on primary fine particle emissions to the atmosphere from stationary sources, designed to assist engineers and scientists engaged in fine particl...

A National Study of Mathematics Requirements for Scientists and Engineers. Final Report.

ERIC Educational Resources Information Center

Miller, G. H.

The National Study of Mathematics Requirements for Scientists and Engineers is concerned with establishing the mathematics experiences desired for the many specializations in science and engineering, such as microbiology, organic chemistry, electrical engineering, and molecular physics. An instruction and course content sheet and a course…

University Bioscientists' Risk Epistemologies and Research Problem Choices

ERIC Educational Resources Information Center

Appuhamilage Dilshani Eranga Sarathchandra, Walakada.

2013-01-01

Scientific discoveries take place within scientific communities that are established in legitimating organizations such as universities and research institutes. Often times, scientists undergo tensions and paradoxes as they evaluate the risks they are willing to accept in their work. The types of risk/benefit decisions scientists make to determine…

Making open data work for plant scientists.

PubMed

Leonelli, Sabina; Smirnoff, Nicholas; Moore, Jonathan; Cook, Charis; Bastow, Ruth

2013-11-01

Despite the clear demand for open data sharing, its implementation within plant science is still limited. This is, at least in part, because open data-sharing raises several unanswered questions and challenges to current research practices. In this commentary, some of the challenges encountered by plant researchers at the bench when generating, interpreting, and attempting to disseminate their data have been highlighted. The difficulties involved in sharing sequencing, transcriptomics, proteomics, and metabolomics data are reviewed. The benefits and drawbacks of three data-sharing venues currently available to plant scientists are identified and assessed: (i) journal publication; (ii) university repositories; and (iii) community and project-specific databases. It is concluded that community and project-specific databases are the most useful to researchers interested in effective data sharing, since these databases are explicitly created to meet the researchers' needs, support extensive curation, and embody a heightened awareness of what it takes to make data reuseable by others. Such bottom-up and community-driven approaches need to be valued by the research community, supported by publishers, and provided with long-term sustainable support by funding bodies and government. At the same time, these databases need to be linked to generic databases where possible, in order to be discoverable to the majority of researchers and thus promote effective and efficient data sharing. As we look forward to a future that embraces open access to data and publications, it is essential that data policies, data curation, data integration, data infrastructure, and data funding are linked together so as to foster data access and research productivity.

Reducing Flood Impacts for Wellbeing of Arctic Communities through Collaboration among Community and Tribal Leaders, Scientists, and Emergency Man

NASA Astrophysics Data System (ADS)

Kontar, Y. Y.

2016-12-01

In Alaska and the Sakha Republic (Siberia), multiple communities are exposed to flooding every spring. A bilateral and multidisciplinary team was established, as part of the U.S. State Department FY2015-16 U.S.-Russia Peer-to-Peer Dialogue Initiative, to conduct the project Reducing Spring Flood Impacts for Wellbeing of Communities of the North. The project comprised community-based participatory research, education, and cultural activities that used flood sites in Alaska and Siberia as case studies. A diverse and bilateral team (community leaders, scientists, students, and emergency managers) was established to share experiences and identify best practices in mitigating the risk of and improving response to floods.This science-community collaboration has inspired a dialogue between present and future decision makers and community residents. Preliminary analysis revealed that community members in both regions are interested in collaborations with scientists to reduce flood risks and impacts. They are eager to share their experiences. However, scientists have to earn the trust of and develop a rapport with local leaders beforehand. Conflicts arise when communities perceive scientists as governmental representatives due to the fact that most scientific funds come from federal and state grants. Scientists are also held responsible for disasters, due to their roles in disaster forecasting and warnings. In both regions, impacted populations often blame the government for flood impacts; not unreasonably. Originally nomadic, native populations were forced to settle in floodplains by governments. Now, exposed to floods, they regard damage reimbursement as a predominantly governmental responsibility. Scientists can offer long-term solutions that would benefit communities at risk and governmental entities. However, it is important for scientists not to impose solutions, but instead initiate and maintain a dialogue about alternatives, especially as sensitive as relocation.

The U.S. Dairy Forage Research Center (USDFRC) Condensed Tannin NMR Database.

PubMed

Zeller, Wayne E; Schatz, Paul F

2017-06-28

This Perspective describes a solution-state NMR database for flavan-3-ol monomers and condensed tannin dimers through tetramers obtained from the literature to 2015, containing data searchable by structure, molecular formula, degrees of polymerization, and 1 H and 13 C chemical shifts of the condensed tannins. Citations for all literature references are provided and should serve as valuable resource for scientists working in the field of condensed tannin research. The database will be periodically updated as additional information becomes available, typically on a yearly basis and is available for use, free of charge, from the U.S. Dairy Forage Research Center (USDFRC) Website.

Geoscience research databases for coastal Alabama ecosystem management

USGS Publications Warehouse

Hummell, Richard L.

1995-01-01

Effective management of complex coastal ecosystems necessitates access to scientific knowledge that can be acquired through a multidisciplinary approach involving Federal and State scientists that take advantage of agency expertise and resources for the benefit of all participants working toward a set of common research and management goals. Cooperative geostatic investigations have led toward building databases of fundamental scientific knowledge that can be utilized to manage coastal Alabama's natural and future development. These databases have been used to assess the occurrence and economic potential of hard mineral resources in the Alabama EFZ, and to support oil spill contingency planning and environmental analysis for coastal Alabama.

75 FR 29155 - Publicly Available Consumer Product Safety Information Database

Federal Register 2010, 2011, 2012, 2013, 2014

2010-05-24

...The Consumer Product Safety Commission (``Commission,'' ``CPSC,'' or ``we'') is issuing a notice of proposed rulemaking that would establish a publicly available consumer product safety information database (``database''). Section 212 of the Consumer Product Safety Improvement Act of 2008 (``CPSIA'') amended the Consumer Product Safety Act (``CPSA'') to require the Commission to establish and maintain a publicly available, searchable database on the safety of consumer products, and other products or substances regulated by the Commission. The proposed rule would interpret various statutory requirements pertaining to the information to be included in the database and also would establish provisions regarding submitting reports of harm; providing notice of reports of harm to manufacturers; publishing reports of harm and manufacturer comments in the database; and dealing with confidential and materially inaccurate information.

[NASA/DOD Aerospace Knowledge Diffusion Research Project. Paper 4:] Technical communications in aerospace: An analysis of the practices reported by US and European aerospace engineers and scientists

NASA Technical Reports Server (NTRS)

Pinelli, Thomas E.; Barclay, Rebecca O.; Kennedy, John M.; Glassman, Myron

1990-01-01

Two pilot studies were conducted that investigated the technical communications practices of U.S. and European aerospace engineers and scientists. Both studies had the same five objectives: (1) solicit opinions regarding the importance of technical communications; (2) determine the use and production of technical communications; (3) seek views about the appropriate content of an undergraduate course in technical communications; (4) determine use of libraries, information centers, and online database; (5) determine use and importance of computer and information technology to them. A self-administered questionnaire was mailed to randomly selected aerospace engineers and scientists, with a slightly modified version sent to European colleagues. Their responses to selected questions are presented in this paper.

Enabling Scientists: Serving Sci-Tech Library Users with Disabilities.

ERIC Educational Resources Information Center

Coonin, Bryna

2001-01-01

Discusses how librarians in scientific and technical libraries can contribute to an accessible electronic library environment for users with disabilities to ensure independent access to information. Topics include relevant assistive technologies; creating accessible Web pages; monitoring accessibility of electronic databases; preparing accessible…

SAMMD: Staphylococcus aureus microarray meta-database.

PubMed

Nagarajan, Vijayaraj; Elasri, Mohamed O

2007-10-02

Staphylococcus aureus is an important human pathogen, causing a wide variety of diseases ranging from superficial skin infections to severe life threatening infections. S. aureus is one of the leading causes of nosocomial infections. Its ability to resist multiple antibiotics poses a growing public health problem. In order to understand the mechanism of pathogenesis of S. aureus, several global expression profiles have been developed. These transcriptional profiles included regulatory mutants of S. aureus and growth of wild type under different growth conditions. The abundance of these profiles has generated a large amount of data without a uniform annotation system to comprehensively examine them. We report the development of the Staphylococcus aureus Microarray meta-database (SAMMD) which includes data from all the published transcriptional profiles. SAMMD is a web-accessible database that helps users to perform a variety of analysis against and within the existing transcriptional profiles. SAMMD is a relational database that uses MySQL as the back end and PHP/JavaScript/DHTML as the front end. The database is normalized and consists of five tables, which holds information about gene annotations, regulated gene lists, experimental details, references, and other details. SAMMD data is collected from the peer-reviewed published articles. Data extraction and conversion was done using perl scripts while data entry was done through phpMyAdmin tool. The database is accessible via a web interface that contains several features such as a simple search by ORF ID, gene name, gene product name, advanced search using gene lists, comparing among datasets, browsing, downloading, statistics, and help. The database is licensed under General Public License (GPL). SAMMD is hosted and available at http://www.bioinformatics.org/sammd/. Currently there are over 9500 entries for regulated genes, from 67 microarray experiments. SAMMD will help staphylococcal scientists to analyze their expression data and understand it at global level. It will also allow scientists to compare and contrast their transcriptome to that of the other published transcriptomes.

SAMMD: Staphylococcus aureus Microarray Meta-Database

PubMed Central

Nagarajan, Vijayaraj; Elasri, Mohamed O

2007-01-01

Background Staphylococcus aureus is an important human pathogen, causing a wide variety of diseases ranging from superficial skin infections to severe life threatening infections. S. aureus is one of the leading causes of nosocomial infections. Its ability to resist multiple antibiotics poses a growing public health problem. In order to understand the mechanism of pathogenesis of S. aureus, several global expression profiles have been developed. These transcriptional profiles included regulatory mutants of S. aureus and growth of wild type under different growth conditions. The abundance of these profiles has generated a large amount of data without a uniform annotation system to comprehensively examine them. We report the development of the Staphylococcus aureus Microarray meta-database (SAMMD) which includes data from all the published transcriptional profiles. SAMMD is a web-accessible database that helps users to perform a variety of analysis against and within the existing transcriptional profiles. Description SAMMD is a relational database that uses MySQL as the back end and PHP/JavaScript/DHTML as the front end. The database is normalized and consists of five tables, which holds information about gene annotations, regulated gene lists, experimental details, references, and other details. SAMMD data is collected from the peer-reviewed published articles. Data extraction and conversion was done using perl scripts while data entry was done through phpMyAdmin tool. The database is accessible via a web interface that contains several features such as a simple search by ORF ID, gene name, gene product name, advanced search using gene lists, comparing among datasets, browsing, downloading, statistics, and help. The database is licensed under General Public License (GPL). Conclusion SAMMD is hosted and available at . Currently there are over 9500 entries for regulated genes, from 67 microarray experiments. SAMMD will help staphylococcal scientists to analyze their expression data and understand it at global level. It will also allow scientists to compare and contrast their transcriptome to that of the other published transcriptomes. PMID:17910768

Oral Microbial Shift: Factors affecting the Microbiome and Prevention of Oral Disease.

PubMed

Dagli, Namrata; Dagli, Rushabh; Darwish, Shrouq; Baroudi, Kusai

2016-01-01

Recently, oral microbiome has gained popularity among scientists. Microorganisms are no longer considered as disease-producing pathogens, rather they are now considered as partners of human in maintaining health. Since ancient times, changes in our lifestyle have affected our microbiome and the balance with their human host has been perturbed. The present review includes the description about factors affecting oral microbiome and establishing symbiosis with the human host so that they contribute in maintaining health rather than eliciting diseases. A comprehensive literature search was performed on databases such as Google Scholar, PubMed and Medline until April 2015. First, articles were selected on the basis of their titles and then abstracts were screened and unwanted articles were excluded. Articles obtained from all the databases were checked and duplicate articles were removed. Articles obtained from various databases: PubMed = 35, Google Scholar=8. Out of these 43 articles, total 29 articles were finally selected for this review. The published literature suggests that the modern oral microbiome is less biodiverse, and possess more pathogenic bacterial species and lesser beneficial bacteria. The possible factors mainly responsible for this shift in microbiome were found to be change in diet, industrial revolution and indiscriminate use of antibiotics. Various changes in lifestyles have affected oral microbiome adversely and perturb the symbiosis between the microbiome and their hosts. The present oral microbiome is found to be less diverse and more pathogenic. The present review may be helpful in understanding the relationship between the microbiome and their human hosts so that microbiome contributes in maintaining healthy state of the body.

SED Alumni---breeding ground for scientists

NASA Astrophysics Data System (ADS)

Bederson, Benjamin

2006-04-01

In 1943 the US Army established the Special Engineering Detachment (SED), in which mostly drafted young soldiers possessing some scientific credentials (though usually quite minimal) were reassigned from other duties to the Manhattan Project to assist in various research and development aspects of nuclear weapons. The Los Alamos contingent, never more than a few hundred GIs, worked with more senior scientists and engineers, often assuming positions of real responsibility. An unintended consequence of this circumstance was the fact that being in the SEDs turned out to be a fortuitous breeding ground for future physicists, chemists, and engineers. SEDs benefited from their close contacts with established scientists, working with them side by side, attended lectures by luminaries, and gained invaluable experience that would help them establish academic and industrial careers later in life. I will discuss some of these individuals (I list only those of whom I am personally aware). These include Henry ``Heinz'' Barschall*, Richard Bellman*-RAND Corporation, Murray Peshkin-ANL, Peter Lax-Courant Institute, NYU, William Spindel*-NRC,NAS, Bernard Waldman- Notre Dame, Richard Davisson*-U of Washington, Arnold Kramish- RAND, UNESCO, Josef Hofmann- Acoustic Research Corp, Val Fitch- Princeton U. *deceased

More from the Horse's Mouth: What Scientists Say about Science as a Social Practice

ERIC Educational Resources Information Center

Wong, Siu Ling; Hodson, Derek

2010-01-01

This research study sought to identify prominent features of the nature of science (NOS) embedded in authentic scientific inquiry. Fourteen well-established scientists from different parts of the world, working in experimental or theoretical research, in both traditional fields such as astrophysics and rapidly growing research fields such as…

From the Horse's Mouth: What Scientists Say about Scientific Investigation and Scientific Knowledge

ERIC Educational Resources Information Center

Wong, Siu Ling; Hodson, Derek

2009-01-01

This study sought to identify prominent features of the nature of science (NOS) embedded in authentic scientific inquiry. Thirteen well-established scientists from different parts of the world, working in experimental or theoretical research, in both traditional fields such as astrophysics and rapidly growing research fields such as molecular…

Content of Future Economists' Professional Mobility in Researches of Foreign Scientists

ERIC Educational Resources Information Center

Chorna, Iryna

2017-01-01

The content of professional mobility of future economists in the writings of foreign scientists have been presented. The components of future economists' professional mobility formation have been considered. It has been established that the possession of a combination of these components enables future specialists to achieve a high level of…

First Graders Can Do Science

ERIC Educational Resources Information Center

Marshall, Candice

2006-01-01

In this article, the author, at the very foundation of her teaching, was trying to establish an environment that would promote inquiry and create an investigative mindset in her first-grader students. First, she assessed her first-grade students' thinking about scientists by asking them to draw and write about what a scientist looks like and does.…

Hidden concerns of sharing research data by low/middle-income country scientists.

PubMed

Bezuidenhout, Louise; Chakauya, Ereck

2018-01-01

There has considerable interest in bringing low/middle-income countries (LMIC) scientists into discussions on Open Data - both as contributors and users. The establishment of in situ data sharing practices within LMIC research institutions is vital for the development of an Open Data landscape in the Global South. Nonetheless, many LMICs have significant challenges - resource provision, research support and extra-laboratory infrastructures. These low-resourced environments shape data sharing activities, but are rarely examined within Open Data discourse. In particular, little attention is given to how these research environments shape scientists' perceptions of data sharing (dis)incentives. This paper expands on these issues of incentivizing data sharing, using data from a quantitative survey disseminated to life scientists in 13 countries in sub-Saharan Africa. This interrogated not only perceptions of data sharing amongst LMIC scientists, but also how these are connected to the research environments and daily challenges experienced by them. The paper offers a series of analysis around commonly cited (dis)incentives such as data sharing as a means of improving research visibility; sharing and funding; and online connectivity. It identifies key areas that the Open Data community need to consider if true openness in research is to be established in the Global South.

[The boycott against German scientists and the German language after World War I].

PubMed

Reinbothe, R

2013-12-01

After the First World War, the Allied academies of sciences staged a boycott against German scientists and the German language. The objective of the boycott was to prevent the re-establishment of the prewar dominance of German scientists, the German language and German publications in the area of international scientific cooperation. Therefore the Allies excluded German scientists and the German language from international associations, congresses and publications, while they created new international scientific organizations under their leadership. Medical associations and congresses were also affected, e. g. congresses on surgery, ophthalmology and tuberculosis. Allied physicians replaced the "International Anti-Tuberculosis Association" founded in Berlin in 1902 with the "Union Internationale contre la Tuberculose"/"International Union against Tuberculosis", founded in Paris in 1920. Only French and English were used as the official languages of the new scientific organizations, just as in the League of Nations. The boycott was based on the fact that the German scientists had denied German war guilt and war crimes and glorified German militarism in a manifesto "To The Civilized World!" in 1914. The boycott first started in 1919 and had to be abolished in 1926, when Germany became a member of the League of Nations. Many German and foreign physicians as well as other scientists protested against the boycott. Some German scientists and institutions even staged a counter-boycott impeding the resumption of international collaboration. The boycott entailed an enduring decline of German as an international scientific language. After the Second World War scientists of the victorious Western Powers implemented a complete reorganization of the international scientific arena, based on the same organizational structures and language restrictions they had built up in 1919/1920. At the same time scientists from the U.S.A. staged an active language and publication policy, in order to establish the dominance of English in the international scientific arena. © Georg Thieme Verlag KG Stuttgart · New York.

GHG Mitigation Options Database (GMOD) and Analysis Tools.

EPA Science Inventory

There is a growing consensus among scientists that the primary cause of climate change is anthropogenic greenhouse gas (GHG) emissions. Given the strengthening science behind the human influence on climate change, it will be necessary for the global community to use low-carbon te...

Medical informatics and telemedicine: A vision

NASA Technical Reports Server (NTRS)

Clemmer, Terry P.

1991-01-01

The goal of medical informatics is to improve care. This requires the commitment and harmonious collaboration between the computer scientists and clinicians and an integrated database. The vision described is how medical information systems are going to impact the way medical care is delivered in the future.

Anatomy and evolution of database search engines-a central component of mass spectrometry based proteomic workflows.

PubMed

Verheggen, Kenneth; Raeder, Helge; Berven, Frode S; Martens, Lennart; Barsnes, Harald; Vaudel, Marc

2017-09-13

Sequence database search engines are bioinformatics algorithms that identify peptides from tandem mass spectra using a reference protein sequence database. Two decades of development, notably driven by advances in mass spectrometry, have provided scientists with more than 30 published search engines, each with its own properties. In this review, we present the common paradigm behind the different implementations, and its limitations for modern mass spectrometry datasets. We also detail how the search engines attempt to alleviate these limitations, and provide an overview of the different software frameworks available to the researcher. Finally, we highlight alternative approaches for the identification of proteomic mass spectrometry datasets, either as a replacement for, or as a complement to, sequence database search engines. © 2017 Wiley Periodicals, Inc.

Why Open Drug Discovery Needs Four Simple Rules for Licensing Data and Models

PubMed Central

Williams, Antony J.; Wilbanks, John; Ekins, Sean

2012-01-01

When we look at the rapid growth of scientific databases on the Internet in the past decade, we tend to take the accessibility and provenance of the data for granted. As we see a future of increased database integration, the licensing of the data may be a hurdle that hampers progress and usability. We have formulated four rules for licensing data for open drug discovery, which we propose as a starting point for consideration by databases and for their ultimate adoption. This work could also be extended to the computational models derived from such data. We suggest that scientists in the future will need to consider data licensing before they embark upon re-using such content in databases they construct themselves. PMID:23028298

Sun-Earth Scientists and Native Americans Collaborate on Sun-Earth Day

NASA Astrophysics Data System (ADS)

Ng, C. Y.; Lopez, R. E.; Hawkins, I.

2004-12-01

Sun-Earth Connection scientists have established partnerships with several minority professional societies to reach out to the blacks, Hispanics and Native American students. Working with NSBP, SACNAS, AISES and NSHP, SEC scientists were able to speak in their board meetings and national conferences, to network with minority scientists, and to engage them in Sun-Earth Day. Through these opportunities and programs, scientists have introduced NASA research results as well indigenous views of science. They also serve as role models in various communities. Since the theme for Sun-Earth Day 2005 is Ancient Observatories: Timeless Knowledge, scientists and education specialists are hopeful to excite many with diverse backgrounds. Sun-Earth Day is a highly visible annual program since 2001 that touches millions of students and the general public. Interviews, classroom activities and other education resources are available on the web at sunearthday.nasa.gov.

Author Disambiguation in PubMed: Evidence on the Precision and Recall of Author-ity among NIH-Funded Scientists

PubMed Central

Lerchenmueller, Marc J.; Sorenson, Olav

2016-01-01

We examined the usefulness (precision) and completeness (recall) of the Author-ity author disambiguation for PubMed articles by associating articles with scientists funded by the National Institutes of Health (NIH). In doing so, we exploited established unique identifiers—Principal Investigator (PI) IDs—that the NIH assigns to funded scientists. Analyzing a set of 36,987 NIH scientists who received their first R01 grant between 1985 and 2009, we identified 355,921 articles appearing in PubMed that would allow us to evaluate the precision and recall of the Author-ity disambiguation. We found that Author-ity identified the NIH scientists with 99.51% precision across the articles. It had a corresponding recall of 99.64%. Precision and recall, moreover, appeared stable across common and uncommon last names, across ethnic backgrounds, and across levels of scientist productivity. PMID:27367860

Author Disambiguation in PubMed: Evidence on the Precision and Recall of Author-ity among NIH-Funded Scientists.

PubMed

Lerchenmueller, Marc J; Sorenson, Olav

2016-01-01

We examined the usefulness (precision) and completeness (recall) of the Author-ity author disambiguation for PubMed articles by associating articles with scientists funded by the National Institutes of Health (NIH). In doing so, we exploited established unique identifiers-Principal Investigator (PI) IDs-that the NIH assigns to funded scientists. Analyzing a set of 36,987 NIH scientists who received their first R01 grant between 1985 and 2009, we identified 355,921 articles appearing in PubMed that would allow us to evaluate the precision and recall of the Author-ity disambiguation. We found that Author-ity identified the NIH scientists with 99.51% precision across the articles. It had a corresponding recall of 99.64%. Precision and recall, moreover, appeared stable across common and uncommon last names, across ethnic backgrounds, and across levels of scientist productivity.

Bioseguridad in Mexico: Pursuing Security between Local and Global Biologies.

PubMed

Wanderer, Emily Mannix

2017-09-01

In the aftermath of the 2009 outbreak of H1N1 influenza, scientists in Mexico sought to develop bioseguridad, that is, to protect biological life in Mexico by safely conducting research on infectious disease. Drawing on ethnographic research in laboratories and with scientists in Mexico, I look at how scientists make claims about local differences in regulations, infrastructure, bodies, and culture. The scientists working with infectious microbes sought to establish how different microbial ecologies, human immune systems, and political and regulatory systems made the risks of research different in Mexico from other countries. In developing bioseguridad, the idea of globalized biology that animates many public health projects was undermined as scientists attended to the elements of place that affected human health and safety. Scientists argued for the importance of local biologies, generating tension with global public health projects and regulations premised on the universality of biology. © 2016 by the American Anthropological Association.

Buried deep: How data about subseafloor life becomes dark and why

NASA Astrophysics Data System (ADS)

Darch, P. T.; Cummings, R.

2013-12-01

Earth scientists increasingly work in distributed, multidisciplinary projects. To promote the sharing of data across such a project, it is vital to improve long-term preservation of data in formats accessible to scientists in multiple disciplines with diverse needs, tools and scientific practices. When developing data management plans and infrastructure, it is important to ask: - What data are generated? - Where are these data preserved and shared? - What are the processes by which these data become 'dark'? - What are the infrastructural and social factors that shape these processes? In response to these questions, we present findings from the first year of a case study of the Center for Dark Energy Biosphere Investigations (C-DEBI), an NSF Science and Technology Center studying microbial life in the deep subseafloor biosphere. Our case study is funded by the Sloan Foundation and the NSF. It involves observation in laboratories, interviews, attendance of scientific meetings, and document analysis. At the laboratory level, we observed scientists mainly working on individual projects, or in a team of two or three. There is infrequent sharing of laboratory-generated data across C-DEBI. Where it does happen, it often takes place following discovery of the data through informal networks or serendipitous encounters with the data's creator. Instead, most of the laboratory-generated data become dark data. These data are typically preserved on a scientist's personal computer in ways particular to the individual, frequently not in a form meaningful to others. Other scientists are often not even aware that these data exist. Furthermore, the scientist tends to take care to preserve these data only as long as they require them: data loss can occur over time. Some data - those which support findings in a paper - may be deposited in a disciplinary database. However, these data are the end result of extensive processing: earlier versions of datasets can be lost. Also, in some disciplines, scientists are not required to deposit these data. Hence the data deposited in these databases are only a fraction of the total laboratory-generated data. Thus, the vast majority of laboratory-generated data is not preserved long-term in a form discoverable or usable to other scientists. We found that the multidisciplinary, distributed nature of C-DEBI can exacerbate the factors that contribute to data staying dark. These include: - It can be hard for scientists to conceptualize how their data may be useful to scientists in other disciplines. This reduces scientists' willingness to perform the work of long-term data preservation; - Fewer opportunities for building of informal networks or serendipitous encounters for data discovery than if scientists were collocated; - Many scientists are part of C-DEBI for a short time only (1-3 years), getting involved through the awarding of C-DEBI grants and fellowships. After their involvement, they may no longer maintain contacts across disciplines within C-DEBI. This makes it harder for them to see how their data might be useful to others, and for others to discover these data through word-of-mouth; - Resistance to standardization of data practices. Multidisciplinary work involves bringing multiple perspectives to bear on research questions. Scientists are concerned that standardization could prematurely foreclose as-yet-unexplored scientific methods.

Rocky Flats Environmental Technology Site Ecological Monitoring Program 1995 annual report

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

NONE

1995-05-31

The Ecological Monitoring Program (ECMP) was established at the Rocky Flats Environmental Technology Site (Site) in September 1992. At that time, EcMP staff developed a Program Plan that was peer-reviewed by scientists from western universities before submittal to DOE RFFO in January 1993. The intent of the program is to measure several quantitative variables at different ecological scales in order to characterize the Rocky Flats ecosystem. This information is necessary to document ecological conditions at the Site in impacted and nonimpacted areas to determine if Site practices have had ecological impacts, either positive or negative. This information can be usedmore » by managers interested in future use scenarios and CERCLA activities. Others interested in impact analysis may also find the information useful. In addition, these measurements are entered into a database which will serve as a long-term information repository that will document long-term trends and potential future changes to the Site, both natural and anthropogenic.« less

Communicating Your Science

NASA Astrophysics Data System (ADS)

Young, C. A.

2016-12-01

Effective science communication can open doors, accelerate your career and even make you a better scientist. Part of being an effective and productive scientist means being an effective science communicator. The scientist must communicate their work in talks, posters, peer-reviewed papers, internal reports, proposals as well as to the broader public (including law makers). Despite the importance of communication, it has traditionally not been part of our core training as scientists. Today's science students are beginning to have more opportunities to formally develop their science communication skills. Fortunately, new and even more established scientists have a range of tools and resources at their disposal. In this presentation, we will share some of these resources, share our own experiences utilizing them, and provide some practical tools to improve your own science communication skills.

Perfecting Scientists' Collaboration and Problem-Solving Skills in the Virtual Team Environment

NASA Astrophysics Data System (ADS)

Jabro, A.; Jabro, J.

2012-04-01

PPerfecting Scientists' Collaboration and Problem-Solving Skills in the Virtual Team Environment Numerous factors have contributed to the proliferation of conducting work in virtual teams at the domestic, national, and global levels: innovations in technology, critical developments in software, co-located research partners and diverse funding sources, dynamic economic and political environments, and a changing workforce. Today's scientists must be prepared to not only perform work in the virtual team environment, but to work effectively and efficiently despite physical and cultural barriers. Research supports that students who have been exposed to virtual team experiences are desirable in the professional and academic arenas. Research supports establishing and maintaining established protocols for communication behavior prior to task discussion provides for successful team outcomes. Research conducted on graduate and undergraduate virtual teams' behaviors led to the development of successful pedagogic practices and assessment strategies.

Quantitative evaluation of Iranian radiology papers and its comparison with selected countries.

PubMed

Ghafoori, Mahyar; Emami, Hasan; Sedaghat, Abdolrasoul; Ghiasi, Mohammad; Shakiba, Madjid; Alavi, Manijeh

2014-01-01

Recent technological developments in medicine, including modern radiology have promoted the impact of scientific researches on social life. The scientific outputs such as article and patents are products that show the scientists' attempt to access these achievements. In the current study, we evaluate the current situation of Iranian scientists in the field of radiology and compare it with the selected countries in terms of scientific papers. For this purpose, we used scientometric tools to quantitatively assess the scientific papers in the field of radiology. Radiology papers were evaluated in the context of medical field audit using retrospective model. We used the related databases of biomedical sciences for extraction of articles related to radiology. In the next step, the situation of radiology scientific products of the country were determined with respect to the under study regional countries. Results of the current study showed a ratio of 0.19% for Iranian papers in PubMed database published in 2009. In addition, in 2009, Iranian papers constituted 0.29% of the Scopus scientific database. The proportion of Iranian papers in the understudy region was 7.6%. To diminish the gap between Iranian scientific radiology papers and other competitor countries in the region and achievement of document 2025 goals, multifold effort of the society of radiology is necessary.

Clinician-scientists in Canada: barriers to career entry and progress.

PubMed

Lander, Bryn; Hanley, Gillian E; Atkinson-Grosjean, Janet

2010-10-04

Clinician-scientists play an important role in translating between research and clinical practice. Significant concerns about a decline in their numbers have been raised. Potential barriers for career entry and progress are explored in this study. Case-study research methods were used to identify barriers perceived by clinician-scientists and their research teams in two Canadian laboratories. These perceptions were then compared against statistical analysis of data from Canadian Institutes of Health Research (CIHR) databases on grant and award performance of clinician-scientists and non-clinical PhDs for fiscal years 2000 to 2008. Three main barriers were identified through qualitative analysis: research training, research salaries, and research grants. We then looked for evidence of these barriers in the Canada-wide statistical dataset for our study period. Clinician-scientists had a small but statistically significant higher mean number of degrees (3.3) than non-clinical scientists (3.2), potentially confirming the perception of longer training times. But evidence of the other two barriers was equivocal. For example, while overall growth in salary awards was minimal, awards to clinician-scientists increased by 45% compared to 6.3% for non-clinical PhDs. Similarly, in terms of research funding, awards to clinician-scientists increased by more than 25% compared with 5% for non-clinical PhDs. However, clinician-scientist-led grants funded under CIHR's Clinical thematic area decreased significantly from 61% to 51% (p-value<0.001) suggesting that clinician-scientists may be shifting their attention to other research domains. While clinician-scientists continue to perceive barriers to career entry and progress, quantitative results suggest improvements over the last decade. Clinician-scientists are awarded an increasing proportion of CIHR research grants and salary awards. Given the translational importance of this group, however, it may be prudent to adopt specific policy and funding incentives to ensure the ongoing viability of the career path.

Clinician-Scientists in Canada: Barriers to Career Entry and Progress

PubMed Central

Lander, Bryn; Hanley, Gillian E.; Atkinson-Grosjean, Janet

2010-01-01

Background Clinician-scientists play an important role in translating between research and clinical practice. Significant concerns about a decline in their numbers have been raised. Potential barriers for career entry and progress are explored in this study. Methods Case-study research methods were used to identify barriers perceived by clinician-scientists and their research teams in two Canadian laboratories. These perceptions were then compared against statistical analysis of data from Canadian Institutes of Health Research (CIHR) databases on grant and award performance of clinician-scientists and non-clinical PhDs for fiscal years 2000 to 2008. Results Three main barriers were identified through qualitative analysis: research training, research salaries, and research grants. We then looked for evidence of these barriers in the Canada-wide statistical dataset for our study period. Clinician-scientists had a small but statistically significant higher mean number of degrees (3.3) than non-clinical scientists (3.2), potentially confirming the perception of longer training times. But evidence of the other two barriers was equivocal. For example, while overall growth in salary awards was minimal, awards to clinician-scientists increased by 45% compared to 6.3% for non-clinical PhDs. Similarly, in terms of research funding, awards to clinician-scientists increased by more than 25% compared with 5% for non-clinical PhDs. However, clinician-scientist-led grants funded under CIHR's Clinical thematic area decreased significantly from 61% to 51% (p-value<0.001) suggesting that clinician-scientists may be shifting their attention to other research domains. Conclusion While clinician-scientists continue to perceive barriers to career entry and progress, quantitative results suggest improvements over the last decade. Clinician-scientists are awarded an increasing proportion of CIHR research grants and salary awards. Given the translational importance of this group, however, it may be prudent to adopt specific policy and funding incentives to ensure the ongoing viability of the career path. PMID:20957175

PCEIS - THE PACIFIC COAST ECOSYSTEM INFORMATION SYSTEM, CHANGING THE WAY SCIENTISTS VIEW THE NATURAL HISTORY OF SPECIES

EPA Science Inventory

The Pacific Coast Ecosystem Information System (PCEIS) is a database that provides biological, ecological and geospatial information for over 8100 species from Alaska to Baja. PCEIS goes beyond capturing species’ taxonomic information by integrating monitoring information from Co...

Greenhouse Gas Mitigation Options Database and Tool - Data repository of GHG mitigation technologies.

EPA Science Inventory

Industry and electricity production facilities generate over 50 percent of greenhouse gas (GHG) emissions in the United States. There is a growing consensus among scientists that the primary cause of climate change is anthropogenic greenhouse gas (GHG) emissions. Reducing GHG emi...

USDA develops a database for flavonoids to assess dietary intakes

USDA-ARS?s Scientific Manuscript database

The beneficial health effects of dietary flavonoids continue to interest the scientific community in associating the flavonoid intakes and certain chronic diseases. Scientists at the Nutrient Data Laboratory (NDL) and the Food Surveys Research Group (FSRG), USDA planned a study of the intakes of fl...

Establishment of the Fox Chase Network Breast Cancer Risk Registry.

DTIC Science & Technology

1998-10-01

urologists, pathologists, nurses, health educators, genetic counselors, epidemiologists, behavioral scientists, nutritionists and basic scientists. The...data can readily be translated into a family pedigree for counseling and teaching purposes. Our success in confirming diagnoses with medical records...didactic and interactive teaching covering the following topics: fundamentals of cancer genetics; cancer inheritance patterns; risk assessment and

Staff Scientist - RNA Bioinformatics | Center for Cancer Research

Cancer.gov

The newly established RNA Biology Laboratory (RBL) at the Center for Cancer Research (CCR), National Cancer Institute (NCI), National Institutes of Health (NIH) in Frederick, Maryland is recruiting a Staff Scientist with strong expertise in RNA bioinformatics to join the Intramural Research Program’s mission of high impact, high reward science. The RBL is the equivalent of an

EMEN2: An Object Oriented Database and Electronic Lab Notebook

PubMed Central

Rees, Ian; Langley, Ed; Chiu, Wah; Ludtke, Steven J.

2013-01-01

Transmission electron microscopy and associated methods such as single particle analysis, 2-D crystallography, helical reconstruction and tomography, are highly data-intensive experimental sciences, which also have substantial variability in experimental technique. Object-oriented databases present an attractive alternative to traditional relational databases for situations where the experiments themselves are continually evolving. We present EMEN2, an easy to use object-oriented database with a highly flexible infrastructure originally targeted for transmission electron microscopy and tomography, which has been extended to be adaptable for use in virtually any experimental science. It is a pure object-oriented database designed for easy adoption in diverse laboratory environments, and does not require professional database administration. It includes a full featured, dynamic web interface in addition to APIs for programmatic access. EMEN2 installations currently support roughly 800 scientists worldwide with over 1/2 million experimental records and over 20 TB of experimental data. The software is freely available with complete source. PMID:23360752

Organizing, exploring, and analyzing antibody sequence data: the case for relational-database managers.

PubMed

Owens, John

2009-01-01

Technological advances in the acquisition of DNA and protein sequence information and the resulting onrush of data can quickly overwhelm the scientist unprepared for the volume of information that must be evaluated and carefully dissected to discover its significance. Few laboratories have the luxury of dedicated personnel to organize, analyze, or consistently record a mix of arriving sequence data. A methodology based on a modern relational-database manager is presented that is both a natural storage vessel for antibody sequence information and a conduit for organizing and exploring sequence data and accompanying annotation text. The expertise necessary to implement such a plan is equal to that required by electronic word processors or spreadsheet applications. Antibody sequence projects maintained as independent databases are selectively unified by the relational-database manager into larger database families that contribute to local analyses, reports, interactive HTML pages, or exported to facilities dedicated to sophisticated sequence analysis techniques. Database files are transposable among current versions of Microsoft, Macintosh, and UNIX operating systems.

Establishment of an inferior vena cava filter database and interventional radiology led follow-up - retrieval rates and patients lost to follow-up.

PubMed

Klinken, Sven; Humphries, Charlotte; Ferguson, John

2017-10-01

To evaluate the rates of inferior vena cava (IVC) filter retrieval and the number of patient's lost to follow-up, before and after the establishment of an IVC filter database and interventional radiology (inserting physician) led follow-up. On the 1st of June 2012, an electronic interventional radiology database was established at our Institution. In addition, the interventional radiology team took responsibility for follow-up of IVC filters. Data were prospectively collected from the database for all patients who had an IVC filter inserted between the 1st June 2012 and the 31st May 2014. Data on patients who had an IVC filter inserted between the 1st of June 2009 to the 31st of May 2012 were retrospectively reviewed. Patient demographics, insertion indications, filter types, retrieval status, documented retrieval decisions, time in situ, trackable events and complications were obtained in the pre-database (n = 136) and post-database (n = 118) cohorts. Attempted IVC filter retrieval rates were improved from 52.9% to 72.9% (P = 0.001) following the establishment of the database. The number of patients with no documented decision (lost to follow-up) regarding their IVC filter reduced from 31 of 136 (23%) to 0 of 118 patients (P = < 0.001). There was a non-significant reduction in IVC filter dwell time in the post-database group (113 as compared to 137 days, P = 0.129). Following the establishment of an IVC filter database and interventional radiology led follow-up, we demonstrate a significant improvement in the attempted retrieval rates of IVC filters and the number of patient's lost to follow-up. © 2017 The Royal Australian and New Zealand College of Radiologists.

International Polar Year Information Resources: Science Librarians Behind the Scenes and in the Field

NASA Astrophysics Data System (ADS)

Hicks, G. J.; Sommer, S.

2006-12-01

As the International Polar Year approaches, research institutes, scientists, and students are preparing for the challenges of field research and the resulting reports and papers. In support of these researchers, libraries and information centers are developing programs and special projects to provide the information and repositories vital to dissemination of the resulting data and reports. From the National Snow and Ice Data Center's DAHLI project to Scott Polar Research Institute's Discovering the Poles, polar science librarians around the world are gearing up to provide service and information to researchers at home and in the field. Not only will these information specialists and librarians provide resources or answer questions for the scientist in the office, they will also provide much of those same services to the researcher in the field. IPY resources are a special case of the on-demand services science librarians typically provide. They help scientists formulate search strategies and take advantage of new developments in scientific databases at their home institutes. They provide many of the same services to researchers in the field. Whether sitting on an ice breaker in the Southern Ocean or in a tent on a glacier in Spitsbergen, field scientists can email or IM a question to a librarian for digital copies of papers, answers to reference questions, or information from a source in the office. IPY data and publications will be distributed among many existing and a few new clearinghouses and article databases. Science librarians will ensure that their researchers can locate and use these resources, providing a vital service and many important resources for this global effort to understand the current status of climate change and its effect around the globe.

Possible Origin of Stagnation and Variability of Earth's Biodiversity

NASA Astrophysics Data System (ADS)

Stollmeier, Frank; Geisel, Theo; Nagler, Jan

2014-06-01

The magnitude and variability of Earth's biodiversity have puzzled scientists ever since paleontologic fossil databases became available. We identify and study a model of interdependent species where both endogenous and exogenous impacts determine the nonstationary extinction dynamics. The framework provides an explanation for the qualitative difference of marine and continental biodiversity growth. In particular, the stagnation of marine biodiversity may result from a global transition from an imbalanced to a balanced state of the species dependency network. The predictions of our framework are in agreement with paleontologic databases.

A Visual Database System for Image Analysis on Parallel Computers and its Application to the EOS Amazon Project

NASA Technical Reports Server (NTRS)

Shapiro, Linda G.; Tanimoto, Steven L.; Ahrens, James P.

1996-01-01

The goal of this task was to create a design and prototype implementation of a database environment that is particular suited for handling the image, vision and scientific data associated with the NASA's EOC Amazon project. The focus was on a data model and query facilities that are designed to execute efficiently on parallel computers. A key feature of the environment is an interface which allows a scientist to specify high-level directives about how query execution should occur.

Establishment of an international database for genetic variants in esophageal cancer.

PubMed

Vihinen, Mauno

2016-10-01

The establishment of a database has been suggested in order to collect, organize, and distribute genetic information about esophageal cancer. The World Organization for Specialized Studies on Diseases of the Esophagus and the Human Variome Project will be in charge of a central database of information about esophageal cancer-related variations from publications, databases, and laboratories; in addition to genetic details, clinical parameters will also be included. The aim will be to get all the central players in research, clinical, and commercial laboratories to contribute. The database will follow established recommendations and guidelines. The database will require a team of dedicated curators with different backgrounds. Numerous layers of systematics will be applied to facilitate computational analyses. The data items will be extensively integrated with other information sources. The database will be distributed as open access to ensure exchange of the data with other databases. Variations will be reported in relation to reference sequences on three levels--DNA, RNA, and protein-whenever applicable. In the first phase, the database will concentrate on genetic variations including both somatic and germline variations for susceptibility genes. Additional types of information can be integrated at a later stage. © 2016 New York Academy of Sciences.

[Establishment of a comprehensive database for laryngeal cancer related genes and the miRNAs].

PubMed

Li, Mengjiao; E, Qimin; Liu, Jialin; Huang, Tingting; Liang, Chuanyu

2015-09-01

By collecting and analyzing the laryngeal cancer related genes and the miRNAs, to build a comprehensive laryngeal cancer-related gene database, which differs from the current biological information database with complex and clumsy structure and focuses on the theme of gene and miRNA, and it could make the research and teaching more convenient and efficient. Based on the B/S architecture, using Apache as a Web server, MySQL as coding language of database design and PHP as coding language of web design, a comprehensive database for laryngeal cancer-related genes was established, providing with the gene tables, protein tables, miRNA tables and clinical information tables of the patients with laryngeal cancer. The established database containsed 207 laryngeal cancer related genes, 243 proteins, 26 miRNAs, and their particular information such as mutations, methylations, diversified expressions, and the empirical references of laryngeal cancer relevant molecules. The database could be accessed and operated via the Internet, by which browsing and retrieval of the information were performed. The database were maintained and updated regularly. The database for laryngeal cancer related genes is resource-integrated and user-friendly, providing a genetic information query tool for the study of laryngeal cancer.

NASA's SMD Cross-Forum Resources for Supporting Scientist Engagement in Education and Public Outreach Activities

NASA Astrophysics Data System (ADS)

Buxner, S.; Cobabe-Ammann, E. A.; Hsu, B. C.; Sharma, M.; Peticolas, L. M.; Schwerin, T. G.; Shipp, S. S.; Smith, D.

2012-12-01

Sharing the excitement of ongoing scientific discoveries is an important aspect of scientific activity for researchers. Directly engaging scientists in education and public outreach (E/PO) activities has the benefit of directly connecting the public to those who engage in scientific activities. A shortage of training in education methods, public speaking, and working with various public audiences increases barriers to engaging scientists in these types in E/PO activities. NASA's Science Mission Directorate (SMD) Education and Public forums (astrophysics, earth science, heliophysics, and planetary science) support scientists currently involved in E/PO and who are interested in becoming involved in E/PO through a variety of avenues. Over the past three years, the forums have developed a variety of resources to help engage scientists in education and public outreach. We will showcase the following resources developed through the SMD E/PO cross-forum efforts: Professional development resources for writing NASA SMD E/PO proposals (webinars and other online tools), ongoing professional development at scientific conferences to increase scientist engagement in E/PO activities, toolkits for scientists interested in best practices in E/PO (online guides for K-12 education and public outreach), toolkits to inform scientists of science education resources developed within each scientific thematic community, EarthSpace (a community web space where instructors can find and share about teaching space and earth sciences in the undergraduate classroom, including class materials news and funding opportunities, and the latest education research, http://www.lpi.usra.edu/earthspace/), thematic resources for teaching about SMD science topics, and an online database of scientists interested in connecting with education programs. Learn more about the Forum and find resources at http://smdepo.org/.

The Two-Communities Theory and Knowledge Utilization.

ERIC Educational Resources Information Center

Caplan, Nathan

1979-01-01

Discusses strategies to improve policy makers' utilization of research based on the "two-communities" theory that social scientists and policy makers live in two different worlds. Notes that for high level decision making, collaboration must involve more general problems and a decision to use either data-based or nonresearch knowledge for solving…

Relational Information Management Data-Base System

NASA Technical Reports Server (NTRS)

Storaasli, O. O.; Erickson, W. J.; Gray, F. P.; Comfort, D. L.; Wahlstrom, S. O.; Von Limbach, G.

1985-01-01

DBMS with several features particularly useful to scientists and engineers. RIM5 interfaced with any application program written in language capable of Calling FORTRAN routines. Applications include data management for Space Shuttle Columbia tiles, aircraft flight tests, high-pressure piping, atmospheric chemistry, census, university registration, CAD/CAM Geometry, and civil-engineering dam construction.

Physician Scientist Training in the United States: A Survey of the Current Literature.

PubMed

Kosik, R O; Tran, D T; Fan, Angela Pei-Chen; Mandell, G A; Tarng, D C; Hsu, H S; Chen, Y S; Su, T P; Wang, S J; Chiu, A W; Lee, C H; Hou, M C; Lee, F Y; Chen, W S; Chen, Q

2016-03-01

The declining number of physician scientists is an alarming issue. A systematic review of all existing programs described in the literature was performed, so as to highlight which programs may serve as the best models for the training of successful physician scientists. Multiple databases were searched, and 1,294 articles related to physician scientist training were identified. Preference was given to studies that looked at number of confirmed publications and/or research grants as primary outcomes. Thirteen programs were identified in nine studies. Eighty-three percent of Medical Scientist Training Program (MSTP) graduates, 77% of Clinician Investigator Training Program (CI) graduates, and only 16% of Medical Fellows Program graduates entered a career in academics. Seventy-eight percent of MSTP graduates succeeded in obtaining National Institute of Health (NIH) grants, while only 15% of Mayo Clinic National Research Service Award-T32 graduates obtained NIH grants. MSTP physician scientists who graduated in 1990 had 13.5 ± 12.5 publications, while MSTP physician scientists who graduated in 1975 had 51.2 ± 38.3 publications. Additionally, graduates from the Mayo Clinic's MD-PhD Program, the CI Program, and the NSRA Program had 18.2 ± 20.1, 26.5 ± 24.5, and 17.9 ± 26.3 publications, respectively. MSTP is a successful model for the training of physician scientists in the United States, but training at the postgraduate level also shows promising outcomes. An increase in the number of positions available for training at the postgraduate level should be considered. © The Author(s) 2014.

Staff Scientist | Center for Cancer Research

Cancer.gov

The scientist will be tasked with independent research projects that support and/or further the scope of our laboratory goals as determined by the Principal Investigator. The scientist will be responsible for overseeing daily operations and coordination of projects in close conjunction with all laboratory personnel. The scientist will participate in teaching laboratory methods to first-time post-docs, research fellows, and students. The scientist will work closely with a full-time research biologist, both in collaboration of research projects and in the lab-critical administrative tasks of IRB-approval, animal protocols, budget, etc. Our laboratory has two post-doctoral researchers at any given time. This is a great opportunity for candidates who are interested in cancer biology and want to grow their research career by working in our program with outstanding support of other established laboratories and core facilities in the National Cancer Institute.

An ab initio electronic transport database for inorganic materials.

PubMed

Ricci, Francesco; Chen, Wei; Aydemir, Umut; Snyder, G Jeffrey; Rignanese, Gian-Marco; Jain, Anubhav; Hautier, Geoffroy

2017-07-04

Electronic transport in materials is governed by a series of tensorial properties such as conductivity, Seebeck coefficient, and effective mass. These quantities are paramount to the understanding of materials in many fields from thermoelectrics to electronics and photovoltaics. Transport properties can be calculated from a material's band structure using the Boltzmann transport theory framework. We present here the largest computational database of electronic transport properties based on a large set of 48,000 materials originating from the Materials Project database. Our results were obtained through the interpolation approach developed in the BoltzTraP software, assuming a constant relaxation time. We present the workflow to generate the data, the data validation procedure, and the database structure. Our aim is to target the large community of scientists developing materials selection strategies and performing studies involving transport properties.

Who trusts scientists for information about climate change? Nuclear power? Vaccines?

NASA Astrophysics Data System (ADS)

Hamilton, L.

2015-12-01

US public acceptance/rejection of science on the topic of climate change has become highly polarized, with a demographic profile well established through survey research. Trust in scientists for information about climate change tends to increase with education, decrease with age, and is higher among self-identified liberals and moderates than among conservatives. Demographic profiles of people who do or do not trust scientists regarding other disputed topics are less well established. Some observers have argued that certain domains such as vaccines, nuclear power or genetically modified organisms (GMOs) could present a mirror image of climate change, with liberals instead of conservatives disproportionately rejecting science on that topic. Evidence for this mirror-image hypothesis has been mainly anecdotal, however. Here we test it systematically using statewide survey data on more than 1200 interviews, comparing five similarly worded questions that ask respondents whether they trust, don't trust, or are unsure about scientists as a source of information about ... climate change, vaccines, evolution, nuclear power safety, or GMOs. Climate change proves to be the most polarized of these topics, but all five exhibit roughly similar age, education and ideological effects -- contrary to the mirror-image hypothesis. The common patterns across five science domains, chosen for their hypothetical contrasts, map out an unexpectedly cohesive picture of who trusts scientists for information, and who does not. Implications of these survey results for public outreach and science communication are explored.

Energy and scientific communication

NASA Astrophysics Data System (ADS)

De Sanctis, E.

2013-06-01

Energy communication is a paradigmatic case of scientific communication. It is particularly important today, when the world is confronted with a number of immediate, urgent problems. Science communication has become a real duty and a big challenge for scientists. It serves to create and foster a climate of reciprocal knowledge and trust between science and society, and to establish a good level of interest and enthusiasm for research. For an effective communication it is important to establish an open dialogue with the audience, and a close collaboration among scientists and science communicators. An international collaboration in energy communication is appropriate to better support international and interdisciplinary research and projects.

Modernized Techniques for Dealing with Quality Data and Derived Products

NASA Astrophysics Data System (ADS)

Neiswender, C.; Miller, S. P.; Clark, D.

2008-12-01

"I just want a picture of the ocean floor in this area" is expressed all too often by researchers, educators, and students in the marine geosciences. As more sophisticated systems are developed to handle data collection and processing, the demand for quality data, and standardized products continues to grow. Data management is an invisible bridge between science and researchers/educators. The SIOExplorer digital library presents more than 50 years of ocean-going research. Prior to publication, all data is checked for quality using standardized criterion developed for each data stream. Despite the evolution of data formats and processing systems, SIOExplorer continues to present derived products in well- established formats. Standardized products are published for each cruise, and include a cruise report, MGD77 merged data, multi-beam flipbook, and underway profiles. Creation of these products is made possible by processing scripts, which continue to change with ever-evolving data formats. We continue to explore the potential of database-enabled creation of standardized products, such as the metadata-rich MGD77 header file. Database-enabled, automated processing produces standards-compliant metadata for each data and derived product. Metadata facilitates discovery and interpretation of published products. This descriptive information is stored both in an ASCII file, and a searchable digital library database. SIOExplorer's underlying technology allows focused search and retrieval of data and products. For example, users can initiate a search of only multi-beam data, which includes data-specific parameters. This customization is made possible with a synthesis of database, XML, and PHP technology. The combination of standardized products and digital library technology puts quality data and derived products in the hands of scientists. Interoperable systems enable distribution these published resources using technology such as web services. By developing modernized strategies to deal with data, Scripps Institution of Oceanography is able to produce and distribute well-formed, and quality-tested derived products, which aid research, understanding, and education.

PDS and NASA Tournament Laboratory Project to Engage Citizen Scientists and to Provide New Access to Cassini Data

NASA Astrophysics Data System (ADS)

Odess, Jennifer; Gordon, Mitch; Showalter, Mark; LaMora, Andy; Del Villar, Ambi; Raugh, Anne; Erickson, Kristen; Galica, Carol; Grayzeck, Ed; Morgan, Thomas; Knopf, Bill

2014-11-01

Jennifer Odess (1), Mitch Gordon (2), Mark Showalter (2), Andy LaMora (1), Ambi Del Villar (1), Anne Raugh (3), Kristen Erickson (4), Carol Galica (4), Ed Grayzeck (5), T. Morgan (5), and Bill Knopf (4)1. Appirio Top Coder, Inc2. SETI Institute3. University of Maryland4. NASA Headquarters5. Goddard Space Flight CenterThe Planetary Data System (PDS), working with the NASA Tournament Lab (NTL) and TopCoder® , is using challenge-based competition to generate new applications that increase both access to planetary data and discoverability—allowing users to “mine” data, and thus, to make new discoveries from data already “on the ground”. The first challenge-based completion was an optimized database and API for comet data at the PDS Small Bodies Node (SBN) in 2012. Since start-up, the installation at SBN has been tweaked to provide access to the comet data holdings of the SBN, and has introduced new users and new developers to PDS data. A follow-on contest using Cassini images from the PDS Rings Discipline Node, was designed to challenge the competitors to create new, more transparent, agile tools for public access to NASA’s planetary data, where “public” includes citizen scientists and educators. The experience gained with the API at SBN was applied to establishing a second installation at the PDS Planetary Rings Node (Rings), to serve as the basis to develop similar access tools at Rings to make the growing archive of Cassini images available through the API. The Cassini-Rings project had as its goal to develop a crowd-sourcing project with eventual application across the PDS holdings. From the contest results, a preliminary algorithm can detect known satellites hidden in Saturn’s rings which should prove valuable to programmers. The contest approach is also of potential use to educators for exercises studying the solar system. The progress to date and results of this citizen-scientist project will be discussed.

[The Heidelberg CI database module : Quality control in hearing restoration with cochlear implants].

PubMed

Herisanu, I T; Hoth, S; Praetorius, M

2016-12-01

Cochlear implants (CI) have been established as the therapy of choice for functional deafness. The number of CI-rehabilitated patients is continuously growing. The resulting data can provide important information for physicians, health insurance companies, and scientists. Assessment and structuring of data becomes more feasible with the application of modern database systems. In collaboration with Innoforce Est., Liechtenstein, the authors developed a database module for the specific needs of CI patients. Data of 100 patients were included and evaluated. The main features of the module and an example data analysis are presented. Analysis of data from these 100 patients reveals 50 men and 50 women aged between 1 and 87 years, with a maximum value in the 51-60-years age group. More than 50% of the patients were also severely hearing impaired in the contralateral ear and fitted the CI indication criteria. Functional deafness in the ear subsequently fitted with CI in most of the patients had arisen more than 20 years previously. Preoperative diagnostic electrical stimulation of the cochlear nerve was positive in 67 patients. All 100 patients perceived auditory sensations with the CI. The presented patient cohort is representative of patients at the Department of Otorhinolaryngology, University of Heidelberg Medical Center, Germany, and the demographic distribution is in accordance with the literature. The state of the contralateral ear, often also fitting the CI indication, is not surprising, as cochlear implantation is a comparatively new procedure. Preoperative electrical stimulation turned out not to be significant by itself. The hearing results and overview of complications were easy to calculate in comparison to a pure data storage system such as i.s.h.med.

A New Approach to Data Publication in Ocean Sciences

NASA Astrophysics Data System (ADS)

Lowry, Roy; Urban, Ed; Pissierssens, Peter

2009-12-01

Data are collected from ocean sciences activities that range from a single investigator working in a laboratory to large teams of scientists cooperating on big, multinational, global ocean research projects. What these activities have in common is that all result in data, some of which are used as the basis for publications in peer-reviewed journals. However, two major problems regarding data remain. First, many data valuable for understanding ocean physics, chemistry, geology, biology, and how the oceans operate in the Earth system are never archived or made accessible to other scientists. Data underlying traditional journal articles are often difficult to obtain. Second, when scientists do contribute data to databases, their data become freely available, with little acknowledgment and no contribution to their career advancement. To address these problems, stronger ties must be made between data repositories and academic journals, and a “digital backbone” needs to be created for data related to journal publications.

Guidelines for establishing and maintaining construction quality databases.

DOT National Transportation Integrated Search

2006-11-01

The main objective of this study was to develop and present guidelines for State highway agencies (SHAs) in establishing and maintaining database systems geared towards construction quality issues for asphalt and concrete paving projects. To accompli...

New Catalog of Resources Enables Paleogeosciences Research

NASA Astrophysics Data System (ADS)

Lingo, R. C.; Horlick, K. A.; Anderson, D. M.

2014-12-01

The 21st century promises a new era for scientists of all disciplines, the age where cyber infrastructure enables research and education and fuels discovery. EarthCube is a working community of over 2,500 scientists and students of many Earth Science disciplines who are looking to build bridges between disciplines. The EarthCube initiative will create a digital infrastructure that connects databases, software, and repositories. A catalog of resources (databases, software, repositories) has been produced by the Research Coordination Network for Paleogeosciences to improve the discoverability of resources. The Catalog is currently made available within the larger-scope CINERGI geosciences portal (http://hydro10.sdsc.edu/geoportal/catalog/main/home.page). Other distribution points and web services are planned, using linked data, content services for the web, and XML descriptions that can be harvested using metadata protocols. The databases provide searchable interfaces to find data sets that would otherwise remain dark data, hidden in drawers and on personal computers. The software will be described in catalog entries so just one click will lead users to methods and analytical tools that many geoscientists were unaware of. The repositories listed in the Paleogeosciences Catalog contain physical samples found all across the globe, from natural history museums to the basements of university buildings. EarthCube has over 250 databases, 300 software systems, and 200 repositories which will grow in the coming year. When completed, geoscientists across the world will be connected into a productive workflow for managing, sharing, and exploring geoscience data and information that expedites collaboration and innovation within the paleogeosciences, potentially bringing about new interdisciplinary discoveries.

Environmental and Molecular Science Laboratory Arrow

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

2016-06-24

Arrows is a software package that combines NWChem, SQL and NOSQL databases, email, and social networks (e.g. Twitter, Tumblr) that simplifies molecular and materials modeling and makes these modeling capabilities accessible to all scientists and engineers. EMSL Arrows is very simple to use. The user just emails chemical reactions to arrows@emsl.pnnl.gov and then an email is sent back with thermodynamic, reaction pathway (kinetic), spectroscopy, and other results. EMSL Arrows parses the email and then searches the database for the compounds in the reactions. If a compound isn't there, an NWChem calculation is setup and submitted to calculate it. Once themore » calculation is finished the results are entered into the database and then results are emailed back.« less

Toward Phase IV, Populating the WOVOdat Database

NASA Astrophysics Data System (ADS)

Ratdomopurbo, A.; Newhall, C. G.; Schwandner, F. M.; Selva, J.; Ueda, H.

2009-12-01

One of challenges for volcanologists is the fact that more and more people are likely to live on volcanic slopes. Information about volcanic activity during unrest should be accurate and rapidly distributed. As unrest may lead to eruption, evacuation may be necessary to minimize damage and casualties. The decision to evacuate people is usually based on the interpretation of monitoring data. Over the past several decades, monitoring volcanoes has used more and more sophisticated instruments. A huge volume of data is collected in order to understand the state of activity and behaviour of a volcano. WOVOdat, The World Organization of Volcano Observatories (WOVO) Database of Volcanic Unrest, will provide context within which scientists can interpret the state of their own volcano, during and between crises. After a decision during the 2000 IAVCEI General Assembly to create WOVOdat, development has passed through several phases, from Concept Development (Phase-I in 2000-2002), Database Design (Phase-II, 2003-2006) and Pilot Testing (Phase-III in 2007-2008). For WOVOdat to be operational, there are still two (2) steps to complete, which are: Database Population (Phase-IV) and Enhancement and Maintenance (Phase-V). Since January 2009, the WOVOdat project is hosted by Earth Observatory of Singapore for at least a 5-year period. According to the original planning in 2002, this 5-year period will be used for completing the Phase-IV. As the WOVOdat design is not yet tested for all types of data, 2009 is still reserved for building the back-end relational database management system (RDBMS) of WOVOdat and testing it with more complex data. Fine-tuning of the WOVOdat’s RDBMS design is being done with each new upload of observatory data. The next and main phase of WOVOdat development will be data population, managing data transfer from multiple observatory formats to WOVOdat format. Data population will depend on two important things, the availability of SQL database in volcano observatories and their data sharing policy. Hence, a strong collaboration with every WOVO observatory is important. For some volcanoes where the data are not in an SQL system, the WOVOdat project will help scientists working on the volcano to start building an SQL database.

Scientists and Human Rights

NASA Astrophysics Data System (ADS)

Makdisi, Yousef

2012-02-01

The American Physical Society has a long history of involvement in defense of human rights. The Committee on International Freedom of Scientists was formed in the mid seventies as a subcommittee within the Panel On Public Affairs ``to deal with matters of an international nature that endangers the abilities of scientists to function as scientists'' and by 1980 it was established as an independent committee. In this presentation I will describe some aspects of the early history and the impetus that led to such an advocacy, the methods employed then and how they evolved to the present CIFS responsibility ``for monitoring concerns regarding human rights for scientists throughout the world''. I will also describe the current approach and some sample cases the committee has pursued recently, the interaction with other human rights organizations, and touch upon some venues through which the community can engage to help in this noble cause.

Addressing climate challenges in developing countries

NASA Astrophysics Data System (ADS)

Tilmes, Simone; Monaghan, Andrew; Done, James

2012-04-01

Advanced Study Program/Early Career Scientist Assembly Workshop on Regional Climate Issues in Developing Countries; Boulder, Colorado, 19-22 October 2011 The Early Career Scientist Assembly (ECSA) and the Advanced Study Program of the National Center for Atmospheric Research (NCAR) invited 35 early-career scientists from nearly 20 countries to attend a 3-day workshop at the NCAR Mesa Laboratory prior to the World Climate Research Programme (WCRP) Open Science Conference in October 2011. The goal of the workshop was to examine a range of regional climate challenges in developing countries. Topics included regional climate modeling, climate impacts, water resources, and air quality. The workshop fostered new ideas and collaborations between early-career scientists from around the world. The discussions underscored the importance of establishing partnerships with scientists located in typically underrepresented countries to understand and account for the local political, economic, and cultural factors on which climate change is superimposed.

Science policy fellowships

NASA Astrophysics Data System (ADS)

To encourage scientists to contribute to public policy issues that involve the natural sciences, the Brookings Institution in Washington, D.C., has established a Science Policy Fellowship program, slated to begin with the 1981-1982 academic year. The program will bring senior scientists to Washington for 1 year to work with the Brookings staff on science policy issues.Fellowships will be awarded annually to three scientists from among candidates nominated by an advisory committee, by departments of natural science at universities and private research institutions, and by the public sector. The new program is supported by a 3-year grant from the Sloan Foundation.

A New Breed of Database System: Volcano Global Risk Identification and Analysis Project (VOGRIPA)

NASA Astrophysics Data System (ADS)

Crosweller, H. S.; Sparks, R. S.; Siebert, L.

2009-12-01

VOGRIPA originated as part of the Global Risk Identification Programme (GRIP) that is being co-ordinated from the Earth Institute of Columbia University under the auspices of the United Nations and World Bank. GRIP is a five-year programme aiming at improving global knowledge about risk from natural hazards and is part of the international response to the catastrophic 2004 Asian tsunami. VOGRIPA is also a formal IAVCEI project. The objectives of VOGRIPA are to create a global database of volcanic activity, hazards and vulnerability information that can be analysed to identify locations at high risk from volcanism, gaps in knowledge about hazards and risk, and will allow scientists and disaster managers at specific locations to analyse risk within a global context of systematic information. It is this added scope of risk and vulnerability as well as hazard which sets VOGRIPA apart from most previous databases. The University of Bristol is the central coordinating centre for the project, which is an international partnership including the Smithsonian Institution, the Geological Survey of Japan, the Earth Observatory of Singapore (Chris Newhall), the British Geological Survey, the University of Buffalo (SUNY) and Munich Re. The partnership is intended to grow and any individuals or institutions who are able to contribute resources to VOGRIPA objectives are welcome to participate. Work has already begun (funded principally by Munich Re) on populating a database of large magnitude explosive eruptions reaching back to the Quaternary, with extreme-value statistics being used to evaluate the magnitude-frequency relationship of such events, and also an assessment of how the quality of records affect the results. The following 4 years of funding from the European Research Council for VOGRIPA will be used to establish further international collaborations in order to develop different aspects of the database, with the data being accessible online once it is sufficiently complete and analyses have been carried out. It is anticipated that such a resource would be of use to the scientific community, civil authorities with responsibility for mitigating and managing volcanic hazards, and the public.

Geographic Information Systems and Web Page Development

NASA Technical Reports Server (NTRS)

Reynolds, Justin

2004-01-01

The Facilities Engineering and Architectural Branch is responsible for the design and maintenance of buildings, laboratories, and civil structures. In order to improve efficiency and quality, the FEAB has dedicated itself to establishing a data infrastructure based on Geographic Information Systems, GIs. The value of GIS was explained in an article dating back to 1980 entitled "Need for a Multipurpose Cadastre which stated, "There is a critical need for a better land-information system in the United States to improve land-conveyance procedures, furnish a basis for equitable taxation, and provide much-needed information for resource management and environmental planning." Scientists and engineers both point to GIS as the solution. What is GIS? According to most text books, Geographic Information Systems is a class of software that stores, manages, and analyzes mapable features on, above, or below the surface of the earth. GIS software is basically database management software to the management of spatial data and information. Simply put, Geographic Information Systems manage, analyze, chart, graph, and map spatial information. At the outset, I was given goals and expectations from my branch and from my mentor with regards to the further implementation of GIs. Those goals are as follows: (1) Continue the development of GIS for the underground structures. (2) Extract and export annotated data from AutoCAD drawing files and construct a database (to serve as a prototype for future work). (3) Examine existing underground record drawings to determine existing and non-existing underground tanks. Once this data was collected and analyzed, I set out on the task of creating a user-friendly database that could be assessed by all members of the branch. It was important that the database be built using programs that most employees already possess, ruling out most AutoCAD-based viewers. Therefore, I set out to create an Access database that translated onto the web using Internet Explorer as the foundation. After some programming, it was possible to view AutoCAD files and other GIS-related applications on Internet Explorer, while providing the user with a variety of editing commands and setting options. I was also given the task of launching a divisional website using Macromedia Flash and other web- development programs.

Manufacturing Industries with High Concentrations of Scientists and Engineers Lead in 1965-77 Employment Growth. Science Resources Studies Highlights, April 20, 1979.

ERIC Educational Resources Information Center

National Science Foundation, Washington, DC. Div. of Science Resources Studies.

Presented are the results of a survey of over 100,000 manufacturing establishments, conducted for the National Science Foundation by the Bureau of Labor Statistics, covering average annual employment for calendar year 1977. Industries whose relative concentration of scientists and engineers was high in 1977, such as petroleum refining, chemicals,…

On the Role of Subjectivity in Establishing, Using, Operating and Evaluating Information Retrieval Systems. Treatise II on Retrieval System Theory

ERIC Educational Resources Information Center

Fugmann, Robert

1973-01-01

The personal literature search of a scientist is strongly governed by subjective influences. If he delegates his query, he must be aware of the problems emanating from this subjectivity. The information scientist, on the other hand, must consider the subjective character of the fundamental notions of information and order. (33 references)…

Bringing a needle to a laser fight: comparing greenhouse gas sampling methods with gas chromatography and fourier transform infrared spectroscopy

USDA-ARS?s Scientific Manuscript database

As scientists, producers, policymakers, and the general public become more concerned about impacts of climate change, there is an increasing need to understand and quantify greenhouse gas emissions from agricultural practices, which often feed into global, multi-institution databases. Current best p...

Appendix A of the Final Report of the Mid-Atlantic Marine Wildlife Surveys, Modeling, and Data

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

None

The Wind Program hosted a two-day workshop on July 24-25, 2012 with scientists and regulators engaged in marine ecological survey, modeling, and database efforts pertaining to the waters of the Mid-Atlantic region. This is the first appendix to the report, the workshop agenda.

Appendix E of the Final Report of the Mid-Atlantic Marine Wildlife Surveys, Modeling, and Data

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

None

The Wind Program hosted a two-day workshop on July 24-25, 2012 with scientists and regulators engaged in marine ecological survey, modeling, and database efforts pertaining to the waters of the Mid-Atlantic region. This is the fifth appendix to the report, the bibliography of references.

Globe, student inquiry, and learning communities

Treesearch

C.L. Henzel

2000-01-01

The Global Learning and Observations to Benefit the Environment (GLOBE) database is a web-based archive of environmental data gathered by K through 12 students in over 85 countries. The data are gathered under protocols developed by research scientists specializing in various fields of earth science. Students gather information, then enter and visualize the data via...

The EPA Online Database of Experimental and Predicted Data to Support Environmental Scientists (ACS Fall meeting)

EPA Science Inventory

As part of our efforts to develop a public platform to provide access to predictive models we have attempted to disentangle the influence of the quality versus quantity of data available to develop and validate QSAR models. Using a thorough manual review of the data underlying t...

The use of the Hirsch index in benchmarking hepatic surgery research.

PubMed

Cucchetti, Alessandro; Mazzotti, Federico; Pellegrini, Sara; Cescon, Matteo; Maroni, Lorenzo; Ercolani, Giorgio; Pinna, Antonio Daniele

2013-10-01

The Hirsch index (h-index) is recognized as an effective way to summarize an individual's scientific research output. However, a benchmark for evaluating surgeon scientists in the field of hepatic surgery is still not available. A total of 3,251 authors who published between 1949 and 2011 were identified using the Scopus identification number. The h-index, the total number of cited document, the total number of citations, and the scientific age were calculated for each author using both Scopus and Google Scholar. The median h-index was 6 and the median scientific age, assessed with Google Scholar, was 19 years. The numbers of cited documents, numbers of citations, and h-indexes obtained from Scopus and Google Scholar showed good correlation with one another; however, the results from the 2 databases were modified in different ways by scientific age. By plotting scientific age against h-index percentiles an h-index growth chart for both Scopus database and Google Scholar was provided. This analysis provides a first benchmark to assess surgeon scientists' productivity in the field of liver surgery. Copyright © 2013 Elsevier Inc. All rights reserved.

Gee Fu: a sequence version and web-services database tool for genomic assembly, genome feature and NGS data.

PubMed

Ramirez-Gonzalez, Ricardo; Caccamo, Mario; MacLean, Daniel

2011-10-01

Scientists now use high-throughput sequencing technologies and short-read assembly methods to create draft genome assemblies in just days. Tools and pipelines like the assembler, and the workflow management environments make it easy for a non-specialist to implement complicated pipelines to produce genome assemblies and annotations very quickly. Such accessibility results in a proliferation of assemblies and associated files, often for many organisms. These assemblies get used as a working reference by lots of different workers, from a bioinformatician doing gene prediction or a bench scientist designing primers for PCR. Here we describe Gee Fu, a database tool for genomic assembly and feature data, including next-generation sequence alignments. Gee Fu is an instance of a Ruby-On-Rails web application on a feature database that provides web and console interfaces for input, visualization of feature data via AnnoJ, access to data through a web-service interface, an API for direct data access by Ruby scripts and access to feature data stored in BAM files. Gee Fu provides a platform for storing and sharing different versions of an assembly and associated features that can be accessed and updated by bench biologists and bioinformaticians in ways that are easy and useful for each. http://tinyurl.com/geefu dan.maclean@tsl.ac.uk.

A database of radionuclide activity and metal concentrations for the Alligator Rivers Region uranium province.

PubMed

Doering, Che; Bollhöfer, Andreas

2016-10-01

This paper presents a database of radionuclide activity and metal concentrations for the Alligator Rivers Region (ARR) uranium province in the Australian wet-dry tropics. The database contains 5060 sample records and 57,473 concentration values. The data are for animal, plant, soil, sediment and water samples collected by the Environmental Research Institute of the Supervising Scientist (ERISS) as part of its statutory role to undertake research and monitoring into the impacts of uranium mining on the environment of the ARR. Concentration values are provided in the database for 11 radionuclides ( 227 Ac, 40 K, 210 Pb, 210 Po, 226 Ra, 228 Ra, 228 Th, 230 Th, 232 Th, 234 U, 238 U) and 26 metals (Al, As, Ba, Ca, Cd, Co, Cr, Cu, Fe, Hg, K, Mg, Mn, Na, Ni, P, Pb, Rb, S, Sb, Se, Sr, Th, U, V, Zn). Potential uses of the database are discussed. Crown Copyright © 2016. Published by Elsevier Ltd. All rights reserved.

Stratospheric emissions effects database development

NASA Technical Reports Server (NTRS)

Baughcum, Steven L.; Henderson, Stephen C.; Hertel, Peter S.; Maggiora, Debra R.; Oncina, Carlos A.

1994-01-01

This report describes the development of a stratospheric emissions effects database (SEED) of aircraft fuel burn and emissions from projected Year 2015 subsonic aircraft fleets and from projected fleets of high-speed civil transports (HSCT's). This report also describes the development of a similar database of emissions from Year 1990 scheduled commercial passenger airline and air cargo traffic. The objective of this work was to initiate, develop, and maintain an engineering database for use by atmospheric scientists conducting the Atmospheric Effects of Stratospheric Aircraft (AESA) modeling studies. Fuel burn and emissions of nitrogen oxides (NO(x) as NO2), carbon monoxide, and hydrocarbons (as CH4) have been calculated on a 1-degree latitude x 1-degree longitude x 1-kilometer altitude grid and delivered to NASA as electronic files. This report describes the assumptions and methodology for the calculations and summarizes the results of these calculations.

USGS-NoGaDat - A global dataset of noble gas concentrations and their isotopic ratios in volcanic systems

USGS Publications Warehouse

Abedini, Atosa A.; Hurwitz, S.; Evans, William C.

2006-01-01

The database (Version 1.0) is a MS-Excel file that contains close to 5,000 entries of published information on noble gas concentrations and isotopic ratios from volcanic systems in Mid-Ocean ridges, ocean islands, seamounts, and oceanic and continental arcs (location map). Where they were available we also included the isotopic ratios of strontium, neodymium, and carbon. The database is sub-divided both into material sampled (e.g., volcanic glass, different minerals, fumarole, spring), and into different tectonic settings (MOR, ocean islands, volcanic arcs). Included is also a reference list in MS-Word and pdf from which the data was derived. The database extends previous compilations by Ozima (1994), Farley and Neroda (1998), and Graham (2002). The extended database allows scientists to test competing hypotheses, and it provides a framework for analysis of noble gas data during periods of volcanic unrest.

An ab initio electronic transport database for inorganic materials

DOE PAGES

Ricci, Francesco; Chen, Wei; Aydemir, Umut; ...

2017-07-04

Electronic transport in materials is governed by a series of tensorial properties such as conductivity, Seebeck coefficient, and effective mass. These quantities are paramount to the understanding of materials in many fields from thermoelectrics to electronics and photovoltaics. Transport properties can be calculated from a material’s band structure using the Boltzmann transport theory framework. We present here the largest computational database of electronic transport properties based on a large set of 48,000 materials originating from the Materials Project database. Our results were obtained through the interpolation approach developed in the BoltzTraP software, assuming a constant relaxation time. We present themore » workflow to generate the data, the data validation procedure, and the database structure. In conclusion, our aim is to target the large community of scientists developing materials selection strategies and performing studies involving transport properties.« less

An ab initio electronic transport database for inorganic materials

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

Ricci, Francesco; Chen, Wei; Aydemir, Umut

Electronic transport in materials is governed by a series of tensorial properties such as conductivity, Seebeck coefficient, and effective mass. These quantities are paramount to the understanding of materials in many fields from thermoelectrics to electronics and photovoltaics. Transport properties can be calculated from a material’s band structure using the Boltzmann transport theory framework. We present here the largest computational database of electronic transport properties based on a large set of 48,000 materials originating from the Materials Project database. Our results were obtained through the interpolation approach developed in the BoltzTraP software, assuming a constant relaxation time. We present themore » workflow to generate the data, the data validation procedure, and the database structure. In conclusion, our aim is to target the large community of scientists developing materials selection strategies and performing studies involving transport properties.« less

A virtual radiation belt observatory: Looking forward to the electronic geophysical year

NASA Astrophysics Data System (ADS)

Baker, D. N.; Green, J. C.; Kroehl, H. W.; Kihn, E.; Virbo Team

During the International Geophysical Year (1957-1958), member countries established many new capabilities pursuing the major IGY objectives of collecting geophysical data as widely as possible and providing free access to these data for all scientists around the globe. A key achievement of the IGY was the establishment of a worldwide system of data centers and physical observatories. The worldwide scientific community has now endorsed and is promoting an electronic Geophysical Year (eGY) initiative. The proposed eGY concept would both commemorate the 50th anniversary of the IGY in 2007-2008 and would provide a forward impetus to geophysics in the 21st century, similar to that provide by the IGY fifty years ago. The eGY concept advocates the establishment of a series of virtual geophysical observatories now being deployed in cyberspace. We are developing the concept of a Virtual Radiation Belt Observatory (ViRBO) that will bring together near-earth particle and field measurements acquired by NASA, NOAA, DoD, DOE, and other spacecraft. We discuss plans to aggregate these measurements into a readily accessible database along with analysis, visualization, and display tools that will make radiation belt information available and useful both to the scientific community and to the user community. We envision that data from the various agencies along with models being developed under the auspices of the National Science Foundation Center for Integrated Space Weather Modeling (CISM) will help us to provide an excellent `climatology' of the radiation belts over the past several decades. In particular, we would plan to use these data to drive physical models of the radiation belts to form a gridded database which would characterize particle and field properties on solar-cycle (11-year) time scales. ViRBO will also provide up-to-date specification of conditions for event analysis and anomaly resolution. We are even examining the possibilities for near-realtime acquisition of data and utilization of CISM-developed forecast tools in order to provide users with advanced space weather capabilities.

NASA Science Mission Directorate Forum Support of Scientists and Engineers to Engage in Education and Outreach

NASA Astrophysics Data System (ADS)

Buxner, S.; Grier, J.; Meinke, B. K.; Schneider, N. M.; Low, R.; Schultz, G. R.; Manning, J. G.; Fraknoi, A.; Gross, N. A.; Shipp, S. S.

2015-12-01

For the past six years, the NASA Science Education and Public Outreach (E/PO) Forums have supported the NASA Science Mission Directorate (SMD) and its E/PO community by enhancing the coherency and efficiency of SMD-funded E/PO programs. The Forums have fostered collaboration and partnerships between scientists with content expertise and educators with pedagogy expertise. As part of this work, in collaboration with the AAS Division of Planetary Sciences, we have interviewed SMD scientists, and more recently engineers, to understand their needs, barriers, attitudes, and understanding of education and outreach work. Respondents told us that they needed additional resources and professional development to support their work in education and outreach, including information about how to get started, ways to improve their communication, and strategies and activities for their teaching and outreach. In response, the Forums have developed and made available a suite of tools to support scientists and engineers in their E/PO efforts. These include "getting started" guides, "tips and tricks" for engaging in E/PO, vetted lists of classroom and outreach activities, and resources for college classrooms. NASA Wavelength (http://nasawavelength.org/), an online repository of SMD funded activities that have been reviewed by both educators and scientists for quality and accuracy, provides a searchable database of resources for teaching as well as ready-made lists by topic and education level, including lists for introductory college classrooms. Additionally, we have also supported scientists at professional conferences through organizing oral and poster sessions, networking activities, E/PO helpdesks, professional development workshops, and support for students and early careers scientists. For more information and to access resources for scientists and engineers, visit http://smdepo.org.

Inter-rater reliability of h-index scores calculated by Web of Science and Scopus for clinical epidemiology scientists.

PubMed

Walker, Benjamin; Alavifard, Sepand; Roberts, Surain; Lanes, Andrea; Ramsay, Tim; Boet, Sylvain

2016-06-01

We investigated the inter-rater reliability of Web of Science (WoS) and Scopus when calculating the h-index of 25 senior scientists in the Clinical Epidemiology Program of the Ottawa Hospital Research Institute. Bibliometric information and the h-indices for the subjects were computed by four raters using the automatic calculators in WoS and Scopus. Correlation and agreement between ratings was assessed using Spearman's correlation coefficient and a Bland-Altman plot, respectively. Data could not be gathered from Google Scholar due to feasibility constraints. The Spearman's rank correlation between the h-index of scientists calculated with WoS was 0.81 (95% CI 0.72-0.92) and with Scopus was 0.95 (95% CI 0.92-0.99). The Bland-Altman plot showed no significant rater bias in WoS and Scopus; however, the agreement between ratings is higher in Scopus compared to WoS. Our results showed a stronger relationship and increased agreement between raters when calculating the h-index of a scientist using Scopus compared to WoS. The higher inter-rater reliability and simple user interface used in Scopus may render it the more effective database when calculating the h-index of senior scientists in epidemiology. © 2016 Health Libraries Group.

The establishment and use of the point source catalog database of the 2MASS near infrared survey

NASA Astrophysics Data System (ADS)

Gao, Y. F.; Shan, H. G.; Cheng, D.

2003-02-01

The 2MASS near infrared survey project is introduced briefly. The 2MASS point sources catalog (2MASS PSC) database and the network query system are established by using the PHP Hypertext Preprocessor and MySQL database server. By using the system, one can not only query information of sources listed in the catalog, but also draw the plots related. Moreover, after the 2MASS data are diagnosed , some research fields which can be benefited from this database are suggested.

A Molecular Framework for Understanding DCIS

DTIC Science & Technology

2016-10-01

well. Pathologic and Clinical Annotation Database A clinical annotation database titled the Breast Oncology Database has been established to...complement the procured SPORE sample characteristics and annotated pathology data. This Breast Oncology Database is an offsite clinical annotation...database adheres to CSMC Enterprise Information Services (EIS) research database security standards. The Breast Oncology Database consists of: 9 Baseline

Sharing Water Data to Encourage Sustainable Choices in Areas of the Marcellus Shale

NASA Astrophysics Data System (ADS)

Brantley, S. L.; Abad, J. D.; Vastine, J.; Yoxtheimer, D.; Wilderman, C.; Vidic, R.; Hooper, R. P.; Brasier, K.

2012-12-01

Natural gas sourced from shales but stored in more permeable formations has long been exploited as an energy resource. Now, however, gas is exploited directly from the low-porosity and low-permeability shale reservoirs through the use of hydrofracturing. Hydrofracturing is not a new technique: it has long been utilized in the energy industry to promote flow of oil and gas from traditional reservoirs. To exploit gas in reservoirs such as the Marcellus shale in PA, hydrofracturing is paired with directional drilling. Such hydrofracturing utilizes large volumes of water to increase porosity in the shale formations at depth. Small concentrations of chemicals are added to the water to improve the formation and maintenance of the fractures. Significant public controversy has developed in response to the use of hydrofracturing especially in the northeastern states underlain by the Marcellus shale where some citizens and scientists question whether shale gas recovery will contaminate local surface and ground waters. Researchers, government agencies, and citizen scientists in Pennsylvania are teaming up to run the ShaleNetwork (www.shalenetwork.org), an NSF-funded research collaboration network that is currently finding, collating, sharing, publishing, and exploring data related to water quality and quantity in areas that are exploiting shale gas. The effort, focussed initially on Pennsylvania, is now developing the ShaleNetwork database that can be accessed through HydroDesktop in the CUAHSI Hydrologic Information System. In the first year since inception, the ShaleNetwork ran a workshop and reached eight conclusions, largely focussed on issues related to the sources, entry, and use of data. First, the group discovered that extensive water data is available in areas of shale gas. Second, participants agreed that the Shale Network team should partner with state agencies and industry to move datasets online. Third, participants discovered that the database allows participants to assess data gaps. Fourth, the team was encouraged to search for data that plug gaps. Fifth, the database should be easily sustained by others long-term if the Shale Network team simplifies the process of uploading data and finds ways to create community buy-in or incentives for data uploads. Sixth, the database itself and the workshops for the database should drive future agreement about analytical protocols. Seventh, the database is already encouraging other groups to publish data online. Finally, a user interface is needed that is easier and more accessible for citizens to use. Overall, it is clear that sharing data is one way to build bridges among decision makers, scientists, and citizens to understand issues related to sustainable development of energy resources in the face of issues related to water quality and quantity.

Life science research in space - risks and chances for young scientists

NASA Astrophysics Data System (ADS)

Horn, Eberhard R.

2007-09-01

Research in Space is well established in most fields of Life Science, and the number of scientific publications in highly ranked journals increases steadily. However, this kind of research, in particular, fundamental research is coming more and more under pressure, funding decreases, and the discussion about its benefit for men increases continuously. The question is whether these conditions are favorable to the young generation of scientists who are not only interested in this field of research but who is urgently needed for a successful continuation of Life Science research in Space. There are pros and cons that are related to science specific factors as well as to factors specific for space research and space technologies. A young scientist also faces obstacles such as the ever- coming questions about the benefit/cost relation and the sustainability of fundamental research in Space. Continuation of a successful Life Science research in Space with a high level of competitive power should be based on three columns, (1) high- ranked state- of- art experiments, (2) motivated young scientists, and (3) scientific security after completion of projects to avoid loss of knowledge. This aim has to be supported by politicians who express clearly (political) support of Space exploration programs, by universities and private research institutions including industry. Establishment of a European FALL- BACK PLAN (FBP) for situations when flight opportunities are lacking is a way to support young Space scientists in their efforts to regain competitiveness with respect to normal scientists on the basis of first rate peer reviewed research projects that will stand on its own, i.e., transiently with no competition with ground- researchers.

Curation accuracy of model organism databases

PubMed Central

Keseler, Ingrid M.; Skrzypek, Marek; Weerasinghe, Deepika; Chen, Albert Y.; Fulcher, Carol; Li, Gene-Wei; Lemmer, Kimberly C.; Mladinich, Katherine M.; Chow, Edmond D.; Sherlock, Gavin; Karp, Peter D.

2014-01-01

Manual extraction of information from the biomedical literature—or biocuration—is the central methodology used to construct many biological databases. For example, the UniProt protein database, the EcoCyc Escherichia coli database and the Candida Genome Database (CGD) are all based on biocuration. Biological databases are used extensively by life science researchers, as online encyclopedias, as aids in the interpretation of new experimental data and as golden standards for the development of new bioinformatics algorithms. Although manual curation has been assumed to be highly accurate, we are aware of only one previous study of biocuration accuracy. We assessed the accuracy of EcoCyc and CGD by manually selecting curated assertions within randomly chosen EcoCyc and CGD gene pages and by then validating that the data found in the referenced publications supported those assertions. A database assertion is considered to be in error if that assertion could not be found in the publication cited for that assertion. We identified 10 errors in the 633 facts that we validated across the two databases, for an overall error rate of 1.58%, and individual error rates of 1.82% for CGD and 1.40% for EcoCyc. These data suggest that manual curation of the experimental literature by Ph.D-level scientists is highly accurate. Database URL: http://ecocyc.org/, http://www.candidagenome.org// PMID:24923819

Image Detective 2.0: Engaging Citizen Scientists with NASA Astronaut Photography

NASA Technical Reports Server (NTRS)

Higgins, Melissa; Graff, Paige Valderrama; Heydorn, James; Jagge, Amy; Vanderbloemen, Lisa; Stefanov, William; Runco, Susan; Lehan, Cory; Gay, Pamela

2017-01-01

Image Detective 2.0 engages citizen scientists with NASA astronaut photography of the Earth obtained by crew members on the International Space Station (ISS). Engaged citizen scientists are helping to build a more comprehensive and searchable database by geolocating this imagery and contributing to new imagery collections. Image Detective 2.0 is the newest addition to the suite of citizen scientist projects available through CosmoQuest, an effort led by the Astronomical Society of the Pacific (ASP) and supported through a NASA Science Mission Directorate Cooperative Agreement Notice award. CosmoQuest hosts a number of citizen science projects enabling individuals from around the world to engage in authentic NASA science. Image Detective 2.0, an effort that focuses on imagery acquired by astronauts on the International Space Station, builds on work initiated in 2012 by scientists and education specialists at the NASA Johnson Space Center. Through the many lessons learned, Image Detective 2.0 enhances the original project by offering new and improved options for participation. Existing users, as well as new Image Detective participants joining through the CosmoQuest platform, gain first-hand experience working with astronaut photography and become more engaged with this valuable data being obtained from the International Space Station. Citizens around the world are captivated by astronauts living and working in space. As crew members have a unique vantage point from which to view our Earth, the Crew Earth Observations (CEO) online database, referred to as the Gateway to Astronaut Photography of Earth (https://eol.jsc.nasa.gov/), provides a means for crew members to share their unique views of our home planet from the ISS with the scientific community and the public. Astronaut photography supports multiple uses including scientific investigations, visualizations, education, and outreach. These astronaut images record how the planet is changing over time, from human-made changes like urban growth and agriculture, to natural features and landforms such as tropical cyclones, aurora, coastlines, volcanoes and more. This imagery provides researchers on Earth with data to understand the planet from the perspective of the ISS, and is a useful complement to other remotely sensed datasets collected from robotic satellite platforms.

In Brief: NASA issues media rules

NASA Astrophysics Data System (ADS)

Zielinski, Sarah

2006-04-01

NASA issues media rules NASA scientists will be able to speak freely about their work to the media and the public, under a newly revised policy announced 30 March by NASA Administrator Michael Griffin. Earlier in the year, the agency had been widely criticized after allegations were published that scientists had been prevented from speaking about controversial topics, such as climate change (see Eos 97(9) 2006). The policy is intended to establish a `culture of openness,' in which scientists may communicate the results and conclusions of their scientific research to the public without hindrance. However, NASA scientists will be required to distinguish personal views from those of the agency. The revised policy also outlines the responsibilities other public affairs staff, who will be prohibited from altering or editing scientific information.

Nothing to lose: why early career scientists make ideal entrepreneurs.

PubMed

Thon, Jonathan N

2014-12-01

An entrepreneurial movement within science strives to invert the classical trajectory of academic research careers by positioning trainees at the apex of burgeoning industries. Young scientists today have nothing to lose and everything to gain by pursuing this 'third road', and academic institutes and established companies only stand to benefit from supporting this emerging movement of discovery research with economic purpose. Copyright © 2014 Elsevier Ltd. All rights reserved.

Citizen Science as a Tool for Mosquito Control.

PubMed

Jordan, Rebecca C; Sorensen, Amanda E; Ladeau, Shannon

2017-09-01

In this paper, we share our findings from a 2-year citizen science program called Mosquito Stoppers. This pest-oriented citizen science project is part of a larger coupled natural-human systems project seeking to understand the fundamental drivers of mosquito population density and spatial variability in potential exposure to mosquito-borne pathogens in a matrix of human construction, urban renewal, and individual behaviors. Focusing on residents in West Baltimore, participants were recruited through neighborhood workshops and festivals. Citizen scientists participated in yard surveys of potential mosquito habitat and in evaluating mosquito nuisance. We found that citizen scientists, with minimal education and training, were able to accurately collect data that reflect trends found in a comparable researcher-generated database.

Recommendation of short tandem repeat profiling for authenticating human cell lines, stem cells, and tissues

PubMed Central

Barallon, Rita; Bauer, Steven R.; Butler, John; Capes-Davis, Amanda; Dirks, Wilhelm G.; Furtado, Manohar; Kline, Margaret C.; Kohara, Arihiro; Los, Georgyi V.; MacLeod, Roderick A. F.; Masters, John R. W.; Nardone, Mark; Nardone, Roland M.; Nims, Raymond W.; Price, Paul J.; Reid, Yvonne A.; Shewale, Jaiprakash; Sykes, Gregory; Steuer, Anton F.; Storts, Douglas R.; Thomson, Jim; Taraporewala, Zenobia; Alston-Roberts, Christine; Kerrigan, Liz

2010-01-01

Cell misidentification and cross-contamination have plagued biomedical research for as long as cells have been employed as research tools. Examples of misidentified cell lines continue to surface to this day. Efforts to eradicate the problem by raising awareness of the issue and by asking scientists voluntarily to take appropriate actions have not been successful. Unambiguous cell authentication is an essential step in the scientific process and should be an inherent consideration during peer review of papers submitted for publication or during review of grants submitted for funding. In order to facilitate proper identity testing, accurate, reliable, inexpensive, and standardized methods for authentication of cells and cell lines must be made available. To this end, an international team of scientists is, at this time, preparing a consensus standard on the authentication of human cells using short tandem repeat (STR) profiling. This standard, which will be submitted for review and approval as an American National Standard by the American National Standards Institute, will provide investigators guidance on the use of STR profiling for authenticating human cell lines. Such guidance will include methodological detail on the preparation of the DNA sample, the appropriate numbers and types of loci to be evaluated, and the interpretation and quality control of the results. Associated with the standard itself will be the establishment and maintenance of a public STR profile database under the auspices of the National Center for Biotechnology Information. The consensus standard is anticipated to be adopted by granting agencies and scientific journals as appropriate methodology for authenticating human cell lines, stem cells, and tissues. PMID:20614197

Recommendation of short tandem repeat profiling for authenticating human cell lines, stem cells, and tissues.

PubMed

Barallon, Rita; Bauer, Steven R; Butler, John; Capes-Davis, Amanda; Dirks, Wilhelm G; Elmore, Eugene; Furtado, Manohar; Kline, Margaret C; Kohara, Arihiro; Los, Georgyi V; MacLeod, Roderick A F; Masters, John R W; Nardone, Mark; Nardone, Roland M; Nims, Raymond W; Price, Paul J; Reid, Yvonne A; Shewale, Jaiprakash; Sykes, Gregory; Steuer, Anton F; Storts, Douglas R; Thomson, Jim; Taraporewala, Zenobia; Alston-Roberts, Christine; Kerrigan, Liz

2010-10-01

Cell misidentification and cross-contamination have plagued biomedical research for as long as cells have been employed as research tools. Examples of misidentified cell lines continue to surface to this day. Efforts to eradicate the problem by raising awareness of the issue and by asking scientists voluntarily to take appropriate actions have not been successful. Unambiguous cell authentication is an essential step in the scientific process and should be an inherent consideration during peer review of papers submitted for publication or during review of grants submitted for funding. In order to facilitate proper identity testing, accurate, reliable, inexpensive, and standardized methods for authentication of cells and cell lines must be made available. To this end, an international team of scientists is, at this time, preparing a consensus standard on the authentication of human cells using short tandem repeat (STR) profiling. This standard, which will be submitted for review and approval as an American National Standard by the American National Standards Institute, will provide investigators guidance on the use of STR profiling for authenticating human cell lines. Such guidance will include methodological detail on the preparation of the DNA sample, the appropriate numbers and types of loci to be evaluated, and the interpretation and quality control of the results. Associated with the standard itself will be the establishment and maintenance of a public STR profile database under the auspices of the National Center for Biotechnology Information. The consensus standard is anticipated to be adopted by granting agencies and scientific journals as appropriate methodology for authenticating human cell lines, stem cells, and tissues.

Mentors, networks, and resources for early career female atmospheric scientists

NASA Astrophysics Data System (ADS)

Hallar, A. G.; Avallone, L. M.; Edwards, L. M.; Thiry, H.; Ascent

2011-12-01

Atmospheric Science Collaborations and Enriching NeTworks (ASCENT) is a workshop series designed to bring together early career female scientists in the field of atmospheric science and related disciplines. ASCENT is a multi-faceted approach to retaining these junior scientists through the challenges in their research and teaching career paths. During the workshop, senior women scientists discuss their career and life paths. They also lead seminars on tools, resources and methods that can help early career scientists to be successful. Networking is a significant aspect of ASCENT, and many opportunities for both formal and informal interactions among the participants (of both personal and professional nature) are blended in the schedule. The workshops are held in Steamboat Springs, Colorado, home of a high-altitude atmospheric science laboratory - Storm Peak Laboratory, which also allows for nearby casual outings and a pleasant environment for participants. Near the conclusion of each workshop, junior and senior scientists are matched in mentee-mentor ratios of two junior scientists per senior scientist. An external evaluation of the three workshop cohorts concludes that the workshops have been successful in establishing and expanding personal and research-related networks, and that seminars have been useful in creating confidence and sharing resources for such things as preparing promotion and tenure packages, interviewing and negotiating job offers, and writing successful grant proposals.

Strategies for Supporting Physician-Scientists in Faculty Roles: A Narrative Review With Key Informant Consultations.

PubMed

Lingard, Lorelei; Zhang, Peter; Strong, Michael; Steele, Margaret; Yoo, John; Lewis, James

2017-10-01

Physician-scientists are a population in decline globally. Solutions to reverse this decline often have focused on the training pipeline. Less attention has been paid to reducing attrition post training, when physician-scientists take up faculty roles. However, this period is a known time of vulnerability because of the pressures of clinical duties and the long timeline to securing independent research funding. This narrative review explored existing knowledge regarding how best to support physician-scientists for success in their faculty roles. The authors searched the Medline, Embase, ERIC, and Cochrane Library databases for articles published from 2000 to 2016 on this topic and interviewed key informants in 2015 to solicit their input on the review results. The authors reviewed 78 articles and interviewed 16 key informants. From the literature, they developed a framework of organizational (facilitate mentorship, foster community, value the physician-scientist role, minimize financial barriers) and individual (develop professional and research skills) strategies for supporting physician-scientists. They also outlined key knowledge gaps representing topics either rarely or never addressed in the reviewed articles (percent research time, structural hypocrisy, objective assessment, group metrics, professional identity). The key informants confirmed the identified strategies and discussed how the gaps were particularly important and impactful. This framework offers a basis for assessing an organization's existing support strategies, identifying outstanding needs, and developing targeted programming. The identified gaps require attention, as they threaten to undermine the benefits of existing support strategies.

The Eukaryotic Pathogen Databases: a functional genomic resource integrating data from human and veterinary parasites.

PubMed

Harb, Omar S; Roos, David S

2015-01-01

Over the past 20 years, advances in high-throughput biological techniques and the availability of computational resources including fast Internet access have resulted in an explosion of large genome-scale data sets "big data." While such data are readily available for download and personal use and analysis from a variety of repositories, often such analysis requires access to seldom-available computational skills. As a result a number of databases have emerged to provide scientists with online tools enabling the interrogation of data without the need for sophisticated computational skills beyond basic knowledge of Internet browser utility. This chapter focuses on the Eukaryotic Pathogen Databases (EuPathDB: http://eupathdb.org) Bioinformatic Resource Center (BRC) and illustrates some of the available tools and methods.

Steltzer Receives 2013 Sulzman Award for Excellence in Education and Mentoring: Response

NASA Astrophysics Data System (ADS)

Steltzer, Heidi

2014-07-01

I am honored to receive the AGU Sulzman Award and am especially honored to be the first recipient of this award established in memory of Elizabeth Sulzman. At the 2013 Fall Meeting, I learned about the thought and work that went into establishing this award and want to thank all who contributed to its establishment. Awards that recognize outstanding female scientists are needed.

[Design and establishment of modern literature database about acupuncture Deqi].

PubMed

Guo, Zheng-rong; Qian, Gui-feng; Pan, Qiu-yin; Wang, Yang; Xin, Si-yuan; Li, Jing; Hao, Jie; Hu, Ni-juan; Zhu, Jiang; Ma, Liang-xiao

2015-02-01

A search on acupuncture Deqi was conducted using four Chinese-language biomedical databases (CNKI, Wan-Fang, VIP and CBM) and PubMed database and using keywords "Deqi" or "needle sensation" "needling feeling" "needle feel" "obtaining qi", etc. Then, a "Modern Literature Database for Acupuncture Deqi" was established by employing Microsoft SQL Server 2005 Express Edition, introducing the contents, data types, information structure and logic constraint of the system table fields. From this Database, detailed inquiries about general information of clinical trials, acupuncturists' experience, ancient medical works, comprehensive literature, etc. can be obtained. The present databank lays a foundation for subsequent evaluation of literature quality about Deqi and data mining of undetected Deqi knowledge.

Appendix C of the Final Report of the Mid-Atlantic Marine Wildlife Surveys, Modeling, and Data

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

None

The Wind Program hosted a two-day workshop on July 24-25, 2012 with scientists and regulators engaged in marine ecological survey, modeling, and database efforts pertaining to the waters of the Mid-Atlantic region. This is the third appendix to the report, the compendium of pre-workshop answers.

Preparing a Data Scientist: A Pedagogic Experience in Designing a Big Data Analytics Course

ERIC Educational Resources Information Center

Asamoah, Daniel Adomako; Sharda, Ramesh; Hassan Zadeh, Amir; Kalgotra, Pankush

2017-01-01

In this article, we present an experiential perspective on how a big data analytics course was designed and delivered to students at a major Midwestern university. In reference to the "MSIS 2006 Model Curriculum," we designed this course as a level 2 course, with prerequisites in databases, computer programming, statistics, and data…

2017 ISCB Accomplishment by a Senior Scientist Award: Pavel Pevzner

PubMed Central

Fogg, Christiana N.; Kovats, Diane E.; Berger, Bonnie

2017-01-01

The International Society for Computational Biology ( ISCB) recognizes an established scientist each year with the Accomplishment by a Senior Scientist Award for significant contributions he or she has made to the field. This award honors scientists who have contributed to the advancement of computational biology and bioinformatics through their research, service, and education work. Pavel Pevzner, PhD, Ronald R. Taylor Professor of Computer Science and Director of the NIH Center for Computational Mass Spectrometry at University of California, San Diego, has been selected as the winner of the 2017 Accomplishment by a Senior Scientist Award. The ISCB awards committee, chaired by Dr. Bonnie Berger of the Massachusetts Institute of Technology, selected Pevzner as the 2017 winner. Pevzner will receive his award and deliver a keynote address at the 2017 Intelligent Systems for Molecular Biology-European Conference on Computational Biology joint meeting ( ISMB/ECCB 2017) held in Prague, Czech Republic from July 21-July 25, 2017. ISMB/ECCB is a biennial joint meeting that brings together leading scientists in computational biology and bioinformatics from around the globe. PMID:28713548

Building health behavior models to guide the development of just-in-time adaptive interventions: A pragmatic framework.

PubMed

Nahum-Shani, Inbal; Hekler, Eric B; Spruijt-Metz, Donna

2015-12-01

Advances in wireless devices and mobile technology offer many opportunities for delivering just-in-time adaptive interventions (JITAIs)-suites of interventions that adapt over time to an individual's changing status and circumstances with the goal to address the individual's need for support, whenever this need arises. A major challenge confronting behavioral scientists aiming to develop a JITAI concerns the selection and integration of existing empirical, theoretical and practical evidence into a scientific model that can inform the construction of a JITAI and help identify scientific gaps. The purpose of this paper is to establish a pragmatic framework that can be used to organize existing evidence into a useful model for JITAI construction. This framework involves clarifying the conceptual purpose of a JITAI, namely, the provision of just-in-time support via adaptation, as well as describing the components of a JITAI and articulating a list of concrete questions to guide the establishment of a useful model for JITAI construction. The proposed framework includes an organizing scheme for translating the relatively static scientific models underlying many health behavior interventions into a more dynamic model that better incorporates the element of time. This framework will help to guide the next generation of empirical work to support the creation of effective JITAIs. (PsycINFO Database Record (c) 2015 APA, all rights reserved).

MercNet: A national monitoring network to assess responses to changing mercury emissions in the United States

USGS Publications Warehouse

Schmeltz, D.; Evers, D.C.; Driscoll, C.T.; Artz, R.; Cohen, M.; Gay, D.; Haeuber, R.; Krabbenhoft, D.P.; Mason, R.; Morris, K.; Wiener, J.G.

2011-01-01

A partnership of federal and state agencies, tribes, industry, and scientists from academic research and environmental organizations is establishing a national, policy-relevant mercury monitoring network, called MercNet, to address key questions concerning changes in anthropogenic mercury emissions and deposition, associated linkages to ecosystem effects, and recovery from mercury contamination. This network would quantify mercury in the atmosphere, land, water, and biota in terrestrial, freshwater, and coastal ecosystems to provide a national scientific capability for evaluating the benefits and effectiveness of emission controls. Program development began with two workshops, convened to establish network goals, to select key indicators for monitoring, to propose a geographic network of monitoring sites, and to design a monitoring plan. MercNet relies strongly on multi-institutional partnerships to secure the capabilities and comprehensive data that are needed to develop, calibrate, and refine predictive mercury models and to guide effective management. Ongoing collaborative efforts include the: (1) development of regional multi-media databases on mercury in the Laurentian Great Lakes, northeastern United States, and eastern Canada; (2) syntheses and reporting of these data for the scientific and policy communities; and (3) evaluation of potential monitoring sites. The MercNet approach could be applied to the development of other monitoring programs, such as emerging efforts to monitor and assess global mercury emission controls. ?? 2011 Springer Science+Business Media, LLC (outside the USA).

Surveys, Fields, and Collections in the Astronomical Photographic Data Archive at PARI

NASA Astrophysics Data System (ADS)

Cline, J. D.; Castelaz, M. W.; Barker, T.

2014-01-01

A diverse set of photometric, astrometric, spectral and surface brightness data exist on more than 100 years of photographic glass plates. About 20 percent of the plates in North America are located in the Astronomical Photographic Data Archive (APDA) at the Pisgah Astronomical Research Institute (PARI). APDA was established in November 2007 and is dedicated to the task of collecting, restoring, preserving and storing astronomical photographic data and PARI continues to accept collections. APDA is also tasked with scanning each image and establishing a database of images that can be accessed via the Internet by the global community of scientists, researchers and students. APDA is a new type of astronomical observatory - one that harnesses analog data of the night sky taken for more than a century and making that data available in a digital format. APDA currently has 50 collections with more than 250,000 plates taken for QSO identification, parallax measurements, spectral classification and monitoring, Magellanic Cloud studies, H-alpha emission star surveys, novae evolution, and astrometry of asteroids, outer planet satellites and Pluto. Some examples of collections include the complete set of the Henize H-alpha Southern Survey plates taken between 1949 and 1952 (Henize 1954, AJ, 59, 325), the Case Western Objective Prism All Sky Survey from 1958-1976 (e.g. Pesch, Sanduleak, and Stephenson 1996, ApJS, 103, 513), and QSO Survey from 1980 to 1991 (e.g. Pesch and Stephenson 1983, ApJS, 51, 171). We feature the contents of the APDA collections to provide the opportunity to the astronomical community to advance new and established areas of study.

[Predatory journals: how their publishers operate and how to avoid them].

PubMed

Kratochvíl, Jiří; Plch, Lukáš

Authors who publish in scientific or scholarly journals today face the risk of publishing in so-called predatory journals. These journals exploit the noble idea of the Open Access movement, whose goal is to make the latest scientific findings available for free. Predatory journals, unlike the reputable ones working on an Open Access basis, neglect the review process and publish low-quality submissions. The basic attributes of predatory journals are a very quick review process or even none at all, failure to be transparent about author fees for publishing an article, misleading potential authors by imitating the names of well-established journals, and false information on indexing in renowned databases or assigned impact factor. Some preventive measures against publishing in predatory journals or drawing information from them are: a thorough credibility check of the journals webpages, verification of the journals indexing on Bealls List and in the following databases: Web of Science Core Collection, Scopus, ERIH PLUS and DOAJ. Asking other scientists or scholars about their experience with a given journal can also be helpful. Without these necessary steps authors face an increased risk of publishing in a journal of poor quality, which will prevent them from obtaining Research and Development Council points (awarded based on the Information Register of Research & Development results); even more importantly, it may damage their reputation as well as the good name of their home institution in the professional community.Key words: academic writing - medical journals - Open Access - predatory journals - predatory publishers - scientific publications.

Exploiting PubChem for Virtual Screening

PubMed Central

Xie, Xiang-Qun

2011-01-01

Importance of the field PubChem is a public molecular information repository, a scientific showcase of the NIH Roadmap Initiative. The PubChem database holds over 27 million records of unique chemical structures of compounds (CID) derived from nearly 70 million substance depositions (SID), and contains more than 449,000 bioassay records with over thousands of in vitro biochemical and cell-based screening bioassays established, with targeting more than 7000 proteins and genes linking to over 1.8 million of substances. Areas covered in this review This review builds on recent PubChem-related computational chemistry research reported by other authors while providing readers with an overview of the PubChem database, focusing on its increasing role in cheminformatics, virtual screening and toxicity prediction modeling. What the reader will gain These publicly available datasets in PubChem provide great opportunities for scientists to perform cheminformatics and virtual screening research for computer-aided drug design. However, the high volume and complexity of the datasets, in particular the bioassay-associated false positives/negatives and highly imbalanced datasets in PubChem, also creates major challenges. Several approaches regarding the modeling of PubChem datasets and development of virtual screening models for bioactivity and toxicity predictions are also reviewed. Take home message Novel data-mining cheminformatics tools and virtual screening algorithms are being developed and used to retrieve, annotate and analyze the large-scale and highly complex PubChem biological screening data for drug design. PMID:21691435

[Review of digital ground object spectral library].

PubMed

Zhou, Xiao-Hu; Zhou, Ding-Wu

2009-06-01

A higher spectral resolution is the main direction of developing remote sensing technology, and it is quite important to set up the digital ground object reflectance spectral database library, one of fundamental research fields in remote sensing application. Remote sensing application has been increasingly relying on ground object spectral characteristics, and quantitative analysis has been developed to a new stage. The present article summarized and systematically introduced the research status quo and development trend of digital ground object reflectance spectral libraries at home and in the world in recent years. Introducing the spectral libraries has been established, including desertification spectral database library, plants spectral database library, geological spectral database library, soil spectral database library, minerals spectral database library, cloud spectral database library, snow spectral database library, the atmosphere spectral database library, rocks spectral database library, water spectral database library, meteorites spectral database library, moon rock spectral database library, and man-made materials spectral database library, mixture spectral database library, volatile compounds spectral database library, and liquids spectral database library. In the process of establishing spectral database libraries, there have been some problems, such as the lack of uniform national spectral database standard and uniform standards for the ground object features as well as the comparability between different databases. In addition, data sharing mechanism can not be carried out, etc. This article also put forward some suggestions on those problems.

The malleability of emotional perception: Short-term plasticity in retinotopic neurons accompanies the formation of perceptual biases to threat.

PubMed

Thigpen, Nina N; Bartsch, Felix; Keil, Andreas

2017-04-01

Emotional experience changes visual perception, leading to the prioritization of sensory information associated with threats and opportunities. These emotional biases have been extensively studied by basic and clinical scientists, but their underlying mechanism is not known. The present study combined measures of brain-electric activity and autonomic physiology to establish how threat biases emerge in human observers. Participants viewed stimuli designed to differentially challenge known properties of different neuronal populations along the visual pathway: location, eye, and orientation specificity. Biases were induced using aversive conditioning with only 1 combination of eye, orientation, and location predicting a noxious loud noise and replicated in a separate group of participants. Selective heart rate-orienting responses for the conditioned threat stimulus indicated bias formation. Retinotopic visual brain responses were persistently and selectively enhanced after massive aversive learning for only the threat stimulus and dissipated after extinction training. These changes were location-, eye-, and orientation-specific, supporting the hypothesis that short-term plasticity in primary visual neurons mediates the formation of perceptual biases to threat. (PsycINFO Database Record (c) 2017 APA, all rights reserved).

Reverse Asteroids: Searching for an Effective Tool to Combat Asteroid Belt Misconceptions

NASA Astrophysics Data System (ADS)

Summers, F.; Eisenhamer, B.

2014-12-01

The public 'knows' that asteroid belts are densely packed and dangerous for spaceships to cross. Visuals from "Star Wars" to, unfortunately, the recent "Cosmos" TV series have firmly established this astronomical misconception. However, even scientifically correct graphics, such as the Minor Planet Center's plot of the inner solar system, reinforces that view. Each pixel in the image is more than a million kilometers in width, making an accurate representation of the object density impossible.To address this widespread misconception, we are investigating an educational exercise built around a computer interactive that we call "Reverse Asteroids". In the arcade classic video game, the asteroids came to the player's spaceship. For our reverse implementation, we consider an inquiry-based activity in which the spaceship must go hunting for the asteroids, using a database of real objects in our solar system. Both 3D data visualization and basic statistical analysis play crucial roles in bringing out the true space density within the asteroid belt, and perhaps a reconciliation between imagination and reality. We also emphasize that a partnership of scientists and educators is fundamental to the success of such projects.

Unraveling the mystery of music: music as an evolved group process.

PubMed

Loersch, Chris; Arbuckle, Nathan L

2013-11-01

As prominently highlighted by Charles Darwin, music is one of the most mysterious aspects of human nature. Despite its ubiquitous presence across cultures and throughout recorded history, the reason humans respond emotionally to music remains unknown. Although many scientists and philosophers have offered hypotheses, there is little direct empirical evidence for any perspective. Here we address this issue, providing data which support the idea that music evolved in service of group living. Using 7 studies, we demonstrate that people's emotional responses to music are intricately tied to the other core social phenomena that bind us together into groups. In sum, this work establishes human musicality as a special form of social cognition and provides the first direct support for the hypothesis that music evolved as a tool of social living. In addition, the findings provide a reason for the intense psychological pull of music in modern life, suggesting that the pleasure we derive from listening to music results from its innate connection to the basic social drives that create our interconnected world. PsycINFO Database Record (c) 2013 APA, all rights reserved.

CDPP activities: Promoting research and education in space physics

NASA Astrophysics Data System (ADS)

Genot, V. N.; Andre, N.; Cecconi, B.; Gangloff, M.; Bouchemit, M.; Dufourg, N.; Pitout, F.; Budnik, E.; Lavraud, B.; Rouillard, A. P.; Heulet, D.; Bellucci, A.; Durand, J.; Delmas, D.; Alexandrova, O.; Briand, C.; Biegun, A.

2015-12-01

The French Plasma Physics Data Centre (CDPP, http://cdpp.eu/) addresses for more than 15 years all issues pertaining to natural plasma data distribution and valorization. Initially established by CNES and CNRS on the ground of a solid data archive, CDPP activities diversified with the advent of broader networks and interoperability standards, and through fruitful collaborations (e.g. with NASA/PDS): providing access to remote data, designing and building science driven analysis tools then became at the forefront of CDPP developments. For instance today AMDA helps scientists all over the world accessing and analyzing data from ancient to very recent missions (from Voyager, Galileo, Geotail, ... to Maven, Rosetta, MMS, ...) as well as results from models and numerical simulations. Other tools like the Propagation Tool or 3DView allow users to put their data in context and interconnect with other databases (CDAWeb, MEDOC) and tools (Topcat). This presentation will briefly review this evolution, show technical and science use cases, and finally put CDPP activities in the perspective of ongoing collaborative projects (Europlanet H2020, HELCATS, ...) and future missions (Bepicolombo, Solar Orbiter, ...).

The Role of NOAA's National Data Centers in the Earth and Space Science Infrastructure

NASA Astrophysics Data System (ADS)

Fox, C. G.

2008-12-01

NOAA's National Data Centers (NNDC) provide access to long-term archives of environmental data from NOAA and other sources. The NNDCs face significant challenges in the volume and complexity of modern data sets. Data volume challenges are being addressed using more capable data archive systems such as the Comprehensive Large Array-Data Stewardship System (CLASS). Challenges in assuring data quality and stewardship are in many ways more challenging. In the past, scientists at the Data Centers could provide reasonable stewardship of data sets in their area of expertise. As staff levels have decreased and data complexity has increased, Data Centers depend on their data providers and user communities to provide high-quality metadata, feedback on data problems and improvements. This relationship requires strong partnerships between the NNDCs and academic, commercial, and international partners, as well as advanced data management and access tools that conform to established international standards when available. The NNDCs are looking to geospatial databases, interactive mapping, web services, and other Application Program Interface approaches to help preserve NNDC data and information and to make it easily available to the scientific community.

A Data Analysis Expert System For Large Established Distributed Databases

NASA Astrophysics Data System (ADS)

Gnacek, Anne-Marie; An, Y. Kim; Ryan, J. Patrick

1987-05-01

The purpose of this work is to analyze the applicability of artificial intelligence techniques for developing a user-friendly, parallel interface to large isolated, incompatible NASA databases for the purpose of assisting the management decision process. To carry out this work, a survey was conducted to establish the data access requirements of several key NASA user groups. In addition, current NASA database access methods were evaluated. The results of this work are presented in the form of a design for a natural language database interface system, called the Deductively Augmented NASA Management Decision Support System (DANMDS). This design is feasible principally because of recently announced commercial hardware and software product developments which allow cross-vendor compatibility. The goal of the DANMDS system is commensurate with the central dilemma confronting most large companies and institutions in America, the retrieval of information from large, established, incompatible database systems. The DANMDS system implementation would represent a significant first step toward this problem's resolution.

Is there a need for a code of ethics in science communication and Communicating Uncertainties on Climate Change?

NASA Astrophysics Data System (ADS)

Cegnar, T.; Benestad, R.; Billard, C.

2010-09-01

The EMS Media team recognises that: Scientific knowledge is valuable for society, but it also becomes fragile in a media-dominated society where the distortion of facts clouds the validity of the information. The use of scientific titles in communication normally brings expectations of high standards regarding the information content. Freedom of speech is fragile in the sense that it can be diluted by a high proportion of false information. The value of scientific and scholastic titles is degraded when they are used to give the impression of false validity. Science communication is powerful, and implies a certain responsibility and ethical standard. The scientific community operates with a more or less tacit ethics code in all areas touching the scientists' activities. Even though many scientific questions cannot be completely resolved, there is a set of established and unequivocal scientific practices, methods, and tests, on which our scientific knowledge rests. Scientists are assumed to master the scientific practices, methods, and tests. High standard in science-related communication and media exposure, openness, and honesty will increase the relevance of science, academies, and scientists in the society, in addition to benefiting the society itself. Science communication is important to maintain and enhance the general appreciation of science. The value of the role of science is likely to increase with a reduced distance between scientists and the society and a lower knowledge barrier. An awareness about the ethical aspects of science and science communication may aid scientists in making decisions about how and what to say. Scientists are often not trained in communication or ethics. A set of guide lines may lower the barrier for scientists concerned about tacit codes to come forward and talk to the media. Recommendations: The mass media should seek more insight into scientific knowledge, history, principles, and societies. Journalists and artists should be encouraged and receive support to attend the large scientific conferences organised by e.g the EMS, EGU, AMS, and the AGU. National meteorological societies can contribute by promoting the idea of media participation, e.g. through statements and letters of opinion to news papers, in TV and radio. They can point to media awards and best-practice examples (such as the Norwegian collaboration between the national broadcasting corporation and the meteorological service yr.no.) Tacit ethics codes and expectations from scientists should be spelled out. The role of scientists should be clear, and national academies and member organisations are encouraged to provide a clear list of expectations. Statements drawing on the authority of science should have a basis in well-established and unequivocal scientific practices, methods, and tests. This means, for instance, that analysis and statistics must conform to well-established robust methods, avoiding 'cherry picking' and the misrepresentation of data. The information should also - to the greatest possible degree - be based on open source and transparent methods and data.

Professor José Miguel Barea (1942-2018): a tribute to an inspiring scientist.

PubMed

Jeffries, Peter

2018-06-07

The mycorrhiza and, more generally, soil microbiology research communities recently have lost one of their most ardent scientists. José Miguel Barea was a world leader of arbuscular mycorrhiza research and pioneered the establishment of such studies in Spain and Latin American. He was a prolific publisher, enthusiastic teacher of many graduate students and a genial host to visitors of his beloved Granada. He will be missed wherever mycorrhizasts gather.

Scientists’ Prioritization of Communication Objectives for Public Engagement

PubMed Central

2016-01-01

Amid calls from scientific leaders for their colleagues to become more effective public communicators, this study examines the objectives that scientists’ report drive their public engagement behaviors. We explore how scientists evaluate five specific communication objectives, which include informing the public about science, exciting the public about science, strengthening the public’s trust in science, tailoring messages about science, and defending science from misinformation. We use insights from extant research, the theory of planned behavior, and procedural justice theory to identify likely predictors of scientists' views about these communication objectives. Results show that scientists most prioritize communication designed to defend science from misinformation and educate the public about science, and least prioritize communication that seeks to build trust and establish resonance with the public. Regression analyses reveal factors associated with scientists who prioritize each of the five specific communication objectives. Our findings highlight the need for communication trainers to help scientists select specific communication objectives for particular contexts and audiences. PMID:26913869

Advancing Science Literacy Through the Climate Change National Forum

NASA Astrophysics Data System (ADS)

Nielsen-Gammon, J. W.; Quirke, M.; Lefer, B. L.; Hester, T.

2014-12-01

The Climate Change National Forum (http://climatechangenationalforum.org) was established almost a year ago to provide a publicly visible platform for discussion of scientific issues related to climate change and, at a later date, policy options motivated by climate change science. The site is also designed to promote public literacy in the culture and conduct of science by incorporating dozens of active scientists in a broad range of climate science and related fields and encouraging dialogue among those scientists. The forum provides a rare window into scientific debate, allowing non-scientists to see how scientists evaluate the work of others, construct meaning out of various bits of evidence, formulate ideas, challenge their colleagues, and (on occasion) develop a consensus. As such, the site is intended to have educational value well beyond its climate science focus.

Analytics to Better Interpret and Use Large Amounts of Heterogeneous Data

NASA Astrophysics Data System (ADS)

Mathews, T. J.; Baskin, W. E.; Rinsland, P. L.

2014-12-01

Data scientists at NASA's Atmospheric Science Data Center (ASDC) are seasoned software application developers who have worked with the creation, archival, and distribution of large datasets (multiple terabytes and larger). In order for ASDC data scientists to effectively implement the most efficient processes for cataloging and organizing data access applications, they must be intimately familiar with data contained in the datasets with which they are working. Key technologies that are critical components to the background of ASDC data scientists include: large RBMSs (relational database management systems) and NoSQL databases; web services; service-oriented architectures; structured and unstructured data access; as well as processing algorithms. However, as prices of data storage and processing decrease, sources of data increase, and technologies advance - granting more people to access to data at real or near-real time - data scientists are being pressured to accelerate their ability to identify and analyze vast amounts of data. With existing tools this is becoming exceedingly more challenging to accomplish. For example, NASA Earth Science Data and Information System (ESDIS) alone grew from having just over 4PBs of data in 2009 to nearly 6PBs of data in 2011. This amount then increased to roughly10PBs of data in 2013. With data from at least ten new missions to be added to the ESDIS holdings by 2017, the current volume will continue to grow exponentially and drive the need to be able to analyze more data even faster. Though there are many highly efficient, off-the-shelf analytics tools available, these tools mainly cater towards business data, which is predominantly unstructured. Inadvertently, there are very few known analytics tools that interface well to archived Earth science data, which is predominantly heterogeneous and structured. This presentation will identify use cases for data analytics from an Earth science perspective in order to begin to identify specific tools that may be able to address those challenges.

Perceptions and experiences of a gender gap at a Canadian research institute and potential strategies to mitigate this gap: a sequential mixed-methods study.

PubMed

Mascarenhas, Alekhya; Moore, Julia E; Tricco, Andrea C; Hamid, Jemila; Daly, Caitlin; Bain, Julie; Jassemi, Sabrina; Kiran, Tara; Baxter, Nancy; Straus, Sharon E

2017-01-01

The gender gap in academia is long-standing. Failure to ensure that our academic faculty reflect our student pool and national population deprives Canada of talent. We explored the gender distribution and perceptions of the gender gap at a Canadian university-affiliated, hospital-based research institute. We completed a sequential mixed-methods study. In phase 1, we used the research institute's registry of scientists (1999-2014) and estimated overall prevalence of a gender gap and the gap with respect to job description (e.g., associate v. full-time) and research discipline. In phase 2, we conducted qualitative interviews to provide context for phase 1 data. Both purposive and snowball sampling were used for recruitment. The institute included 30.1% ( n = 62) women and 69.9% ( n = 144) men, indicating a 39.8% gender gap. Most full-time scientists (60.3%, n = 70) were clinicians; there were 54.2% more male than female clinician scientists. Ninety-five percent of basic scientists were men, indicating a 90.5% gap. Seven key themes emerged from 21 interviews, including perceived impact of the gender gap, factors perceived to influence the gap, recruitment trends, presence of institutional support, mentorship and suggestions to mitigate the gap. Several factors were postulated to contribute to the gender gap, including unconscious bias in hiring. A substantial gender gap exists within this research institute. Participants identified strategies to address this gap, such as establishing transparent search processes, providing opportunities for informal networking and mentorship of female scientists and establishing institutional support for work-life balance.

[Tools for junior scientists support from medical societies: survey amongst members organized in the Association of the Scientific Medical Societies (AWMF)].

PubMed

Meybohm, Patrick; Lindau, Simone; Schürholz, Tobias; Larmann, Jan; Stehr, Sebastian N; Nau, Carla

2015-01-01

A decreasing number of young physicians go for an academic career. The most frequently cited reasons are deficient structures and a lack of perspectives. The German Research Foundation warned against supply gaps in the medical sciences and in 2010 published recommendations for the improvement of professional development at all levels of medical education. A systematic survey of existing support tools and their dissemination among the medical societies has not yet been conducted. Network members of the AWMF were contacted by e-mail and asked to answer 59 questions regarding the support of junior scientists in their respective societies. 28 out of 147 societies replied to the questionnaire. Most of the societies offer at least one of the following tools (multiple responses; selective topics): award for oral presentations (n=27), free attendance at conferences (n=15), financial research funding (n=19), assessment of any funding application (n=10), mentoring (n=6), support of students working on their doctoral thesis (n=26), support of studies abroad (n=16), training course on statistics/ laboratory methods (n=17), support with clinical studies (n=22). Here, we present our survey findings on established support tools for junior scientists for the first time. Apart from the medical schools, several medical-scientific societies have also started to provide tools of support for their junior scientists. However, to ensure that long-term perspectives and attractive conditions are provided in the field of medical science for junior scientists, broader support and interdisciplinary exchange of established tools are needed. Copyright © 2015. Published by Elsevier GmbH.

What does it take to be a successful pediatric surgeon-scientist?

PubMed

Watson, Carey; King, Alice; Mitra, Shaheel; Shaaban, Aimen F; Goldstein, Allan M; Morowitz, Michael J; Warner, Brad W; Crombleholme, Timothy M; Keswani, Sundeep G

2015-06-01

The factors that contribute to success as a pediatric surgeon-scientist are not well defined. The purpose of this study is to define a group of NIH-funded pediatric surgeons, assess their academic productivity, and elucidate factors that have contributed to their success. Pediatric surgeons were queried in the NIH report database to determine NIH funding awarded. Academic productivity was then assessed. An online survey was then targeted to NIH-funded pediatric surgeons. Since 1988, 83 pediatric surgeon-investigators have received major NIH funding. Currently, there are 37 pediatric surgeons with 43 NIH-sponsored awards. The mean h-index of this group of pediatric surgeons was 18 ± 1.1, mean number of publications (since 2001) was 21 ± 2.1, and both increase commensurate with academic rank. In response to the survey, 81% engaged in research during their surgical residency, and 48% were mentored by a pediatric surgeon-scientist. More than 60% of respondents had significant protected time and financial support. Factors felt to be most significant for academic success included mentorship, perseverance, and protected time. Mentorship, perseverance, institutional commitment to protected research time, and financial support are considered to be important to facilitate the successes of pediatric surgeon-scientists. These results will be useful to aspiring pediatric surgeon-scientists and departments wishing to develop a robust research program. Copyright © 2015 Elsevier Inc. All rights reserved.

Project Zoom IN, Citizen Perspectives on Climate and Water Resources

NASA Astrophysics Data System (ADS)

Glaser, J. P.

2012-12-01

Perspective on climate and water resources can come from the top, scientists sharing invaluable data and findings about how climate dynamics function or quantifications of systems in flux. However, citizens are endowed with an equally as powerful tool for insight: ground zero experience. Project Zoom In is a nascent project undertaken by Global Media Forge to empower youth, educators and scientists with tools to reach the media with locale-specific imagery and perspective of climate dynamics and evidence of anecdotal resource management of liquid gold: fresh water. Zoom In is taking root in Colorado but is designed for national/international scaling. This effort has three limbs: (1) student, scientist and educator workshops teaching invaluable video production skills (2) engaging Colorado school systems to stimulate submission of clips to full video productions to our database, and (3) embedding the findings on a taxonomic GIS interface on-line. The website will be invaluable in classrooms and link network media to individuals with firsthand viewpoints on change.; Climate and Water Resources

Towards Semantic e-Science for Traditional Chinese Medicine

PubMed Central

Chen, Huajun; Mao, Yuxin; Zheng, Xiaoqing; Cui, Meng; Feng, Yi; Deng, Shuiguang; Yin, Aining; Zhou, Chunying; Tang, Jinming; Jiang, Xiaohong; Wu, Zhaohui

2007-01-01

Background Recent advances in Web and information technologies with the increasing decentralization of organizational structures have resulted in massive amounts of information resources and domain-specific services in Traditional Chinese Medicine. The massive volume and diversity of information and services available have made it difficult to achieve seamless and interoperable e-Science for knowledge-intensive disciplines like TCM. Therefore, information integration and service coordination are two major challenges in e-Science for TCM. We still lack sophisticated approaches to integrate scientific data and services for TCM e-Science. Results We present a comprehensive approach to build dynamic and extendable e-Science applications for knowledge-intensive disciplines like TCM based on semantic and knowledge-based techniques. The semantic e-Science infrastructure for TCM supports large-scale database integration and service coordination in a virtual organization. We use domain ontologies to integrate TCM database resources and services in a semantic cyberspace and deliver a semantically superior experience including browsing, searching, querying and knowledge discovering to users. We have developed a collection of semantic-based toolkits to facilitate TCM scientists and researchers in information sharing and collaborative research. Conclusion Semantic and knowledge-based techniques are suitable to knowledge-intensive disciplines like TCM. It's possible to build on-demand e-Science system for TCM based on existing semantic and knowledge-based techniques. The presented approach in the paper integrates heterogeneous distributed TCM databases and services, and provides scientists with semantically superior experience to support collaborative research in TCM discipline. PMID:17493289

Conceptual biology, hypothesis discovery, and text mining: Swanson's legacy.

PubMed

Bekhuis, Tanja

2006-04-03

Innovative biomedical librarians and information specialists who want to expand their roles as expert searchers need to know about profound changes in biology and parallel trends in text mining. In recent years, conceptual biology has emerged as a complement to empirical biology. This is partly in response to the availability of massive digital resources such as the network of databases for molecular biologists at the National Center for Biotechnology Information. Developments in text mining and hypothesis discovery systems based on the early work of Swanson, a mathematician and information scientist, are coincident with the emergence of conceptual biology. Very little has been written to introduce biomedical digital librarians to these new trends. In this paper, background for data and text mining, as well as for knowledge discovery in databases (KDD) and in text (KDT) is presented, then a brief review of Swanson's ideas, followed by a discussion of recent approaches to hypothesis discovery and testing. 'Testing' in the context of text mining involves partially automated methods for finding evidence in the literature to support hypothetical relationships. Concluding remarks follow regarding (a) the limits of current strategies for evaluation of hypothesis discovery systems and (b) the role of literature-based discovery in concert with empirical research. Report of an informatics-driven literature review for biomarkers of systemic lupus erythematosus is mentioned. Swanson's vision of the hidden value in the literature of science and, by extension, in biomedical digital databases, is still remarkably generative for information scientists, biologists, and physicians.

Telescience Support Center Data System Software

NASA Technical Reports Server (NTRS)

Rahman, Hasan

2010-01-01

The Telescience Support Center (TSC) team has developed a databasedriven, increment-specific Data Require - ment Document (DRD) generation tool that automates much of the work required for generating and formatting the DRD. It creates a database to load the required changes to configure the TSC data system, thus eliminating a substantial amount of labor in database entry and formatting. The TSC database contains the TSC systems configuration, along with the experimental data, in which human physiological data must be de-commutated in real time. The data for each experiment also must be cataloged and archived for future retrieval. TSC software provides tools and resources for ground operation and data distribution to remote users consisting of PIs (principal investigators), bio-medical engineers, scientists, engineers, payload specialists, and computer scientists. Operations support is provided for computer systems access, detailed networking, and mathematical and computational problems of the International Space Station telemetry data. User training is provided for on-site staff and biomedical researchers and other remote personnel in the usage of the space-bound services via the Internet, which enables significant resource savings for the physical facility along with the time savings versus traveling to NASA sites. The software used in support of the TSC could easily be adapted to other Control Center applications. This would include not only other NASA payload monitoring facilities, but also other types of control activities, such as monitoring and control of the electric grid, chemical, or nuclear plant processes, air traffic control, and the like.

Breast Imaging in the Era of Big Data: Structured Reporting and Data Mining.

PubMed

Margolies, Laurie R; Pandey, Gaurav; Horowitz, Eliot R; Mendelson, David S

2016-02-01

The purpose of this article is to describe structured reporting and the development of large databases for use in data mining in breast imaging. The results of millions of breast imaging examinations are reported with structured tools based on the BI-RADS lexicon. Much of these data are stored in accessible media. Robust computing power creates great opportunity for data scientists and breast imagers to collaborate to improve breast cancer detection and optimize screening algorithms. Data mining can create knowledge, but the questions asked and their complexity require extremely powerful and agile databases. New data technologies can facilitate outcomes research and precision medicine.

EVLncRNAs: a manually curated database for long non-coding RNAs validated by low-throughput experiments.

PubMed

Zhou, Bailing; Zhao, Huiying; Yu, Jiafeng; Guo, Chengang; Dou, Xianghua; Song, Feng; Hu, Guodong; Cao, Zanxia; Qu, Yuanxu; Yang, Yuedong; Zhou, Yaoqi; Wang, Jihua

2018-01-04

Long non-coding RNAs (lncRNAs) play important functional roles in various biological processes. Early databases were utilized to deposit all lncRNA candidates produced by high-throughput experimental and/or computational techniques to facilitate classification, assessment and validation. As more lncRNAs are validated by low-throughput experiments, several databases were established for experimentally validated lncRNAs. However, these databases are small in scale (with a few hundreds of lncRNAs only) and specific in their focuses (plants, diseases or interactions). Thus, it is highly desirable to have a comprehensive dataset for experimentally validated lncRNAs as a central repository for all of their structures, functions and phenotypes. Here, we established EVLncRNAs by curating lncRNAs validated by low-throughput experiments (up to 1 May 2016) and integrating specific databases (lncRNAdb, LncRANDisease, Lnc2Cancer and PLNIncRBase) with additional functional and disease-specific information not covered previously. The current version of EVLncRNAs contains 1543 lncRNAs from 77 species that is 2.9 times larger than the current largest database for experimentally validated lncRNAs. Seventy-four percent lncRNA entries are partially or completely new, comparing to all existing experimentally validated databases. The established database allows users to browse, search and download as well as to submit experimentally validated lncRNAs. The database is available at http://biophy.dzu.edu.cn/EVLncRNAs. © The Author(s) 2017. Published by Oxford University Press on behalf of Nucleic Acids Research.

EVLncRNAs: a manually curated database for long non-coding RNAs validated by low-throughput experiments

PubMed Central

Zhao, Huiying; Yu, Jiafeng; Guo, Chengang; Dou, Xianghua; Song, Feng; Hu, Guodong; Cao, Zanxia; Qu, Yuanxu

2018-01-01

Abstract Long non-coding RNAs (lncRNAs) play important functional roles in various biological processes. Early databases were utilized to deposit all lncRNA candidates produced by high-throughput experimental and/or computational techniques to facilitate classification, assessment and validation. As more lncRNAs are validated by low-throughput experiments, several databases were established for experimentally validated lncRNAs. However, these databases are small in scale (with a few hundreds of lncRNAs only) and specific in their focuses (plants, diseases or interactions). Thus, it is highly desirable to have a comprehensive dataset for experimentally validated lncRNAs as a central repository for all of their structures, functions and phenotypes. Here, we established EVLncRNAs by curating lncRNAs validated by low-throughput experiments (up to 1 May 2016) and integrating specific databases (lncRNAdb, LncRANDisease, Lnc2Cancer and PLNIncRBase) with additional functional and disease-specific information not covered previously. The current version of EVLncRNAs contains 1543 lncRNAs from 77 species that is 2.9 times larger than the current largest database for experimentally validated lncRNAs. Seventy-four percent lncRNA entries are partially or completely new, comparing to all existing experimentally validated databases. The established database allows users to browse, search and download as well as to submit experimentally validated lncRNAs. The database is available at http://biophy.dzu.edu.cn/EVLncRNAs. PMID:28985416

Active fault databases: building a bridge between earthquake geologists and seismic hazard practitioners, the case of the QAFI v.3 database

NASA Astrophysics Data System (ADS)

García-Mayordomo, Julián; Martín-Banda, Raquel; Insua-Arévalo, Juan M.; Álvarez-Gómez, José A.; Martínez-Díaz, José J.; Cabral, João

2017-08-01

Active fault databases are a very powerful and useful tool in seismic hazard assessment, particularly when singular faults are considered seismogenic sources. Active fault databases are also a very relevant source of information for earth scientists, earthquake engineers and even teachers or journalists. Hence, active fault databases should be updated and thoroughly reviewed on a regular basis in order to keep a standard quality and uniformed criteria. Desirably, active fault databases should somehow indicate the quality of the geological data and, particularly, the reliability attributed to crucial fault-seismic parameters, such as maximum magnitude and recurrence interval. In this paper we explain how we tackled these issues during the process of updating and reviewing the Quaternary Active Fault Database of Iberia (QAFI) to its current version 3. We devote particular attention to describing the scheme devised for classifying the quality and representativeness of the geological evidence of Quaternary activity and the accuracy of the slip rate estimation in the database. Subsequently, we use this information as input for a straightforward rating of the level of reliability of maximum magnitude and recurrence interval fault seismic parameters. We conclude that QAFI v.3 is a much better database than version 2 either for proper use in seismic hazard applications or as an informative source for non-specialized users. However, we already envision new improvements for a future update.

The Coral Trait Database, a curated database of trait information for coral species from the global oceans

NASA Astrophysics Data System (ADS)

Madin, Joshua S.; Anderson, Kristen D.; Andreasen, Magnus Heide; Bridge, Tom C. L.; Cairns, Stephen D.; Connolly, Sean R.; Darling, Emily S.; Diaz, Marcela; Falster, Daniel S.; Franklin, Erik C.; Gates, Ruth D.; Hoogenboom, Mia O.; Huang, Danwei; Keith, Sally A.; Kosnik, Matthew A.; Kuo, Chao-Yang; Lough, Janice M.; Lovelock, Catherine E.; Luiz, Osmar; Martinelli, Julieta; Mizerek, Toni; Pandolfi, John M.; Pochon, Xavier; Pratchett, Morgan S.; Putnam, Hollie M.; Roberts, T. Edward; Stat, Michael; Wallace, Carden C.; Widman, Elizabeth; Baird, Andrew H.

2016-03-01

Trait-based approaches advance ecological and evolutionary research because traits provide a strong link to an organism’s function and fitness. Trait-based research might lead to a deeper understanding of the functions of, and services provided by, ecosystems, thereby improving management, which is vital in the current era of rapid environmental change. Coral reef scientists have long collected trait data for corals; however, these are difficult to access and often under-utilized in addressing large-scale questions. We present the Coral Trait Database initiative that aims to bring together physiological, morphological, ecological, phylogenetic and biogeographic trait information into a single repository. The database houses species- and individual-level data from published field and experimental studies alongside contextual data that provide important framing for analyses. In this data descriptor, we release data for 56 traits for 1547 species, and present a collaborative platform on which other trait data are being actively federated. Our overall goal is for the Coral Trait Database to become an open-source, community-led data clearinghouse that accelerates coral reef research.

The Coral Trait Database, a curated database of trait information for coral species from the global oceans

PubMed Central

Madin, Joshua S.; Anderson, Kristen D.; Andreasen, Magnus Heide; Bridge, Tom C.L.; Cairns, Stephen D.; Connolly, Sean R.; Darling, Emily S.; Diaz, Marcela; Falster, Daniel S.; Franklin, Erik C.; Gates, Ruth D.; Hoogenboom, Mia O.; Huang, Danwei; Keith, Sally A.; Kosnik, Matthew A.; Kuo, Chao-Yang; Lough, Janice M.; Lovelock, Catherine E.; Luiz, Osmar; Martinelli, Julieta; Mizerek, Toni; Pandolfi, John M.; Pochon, Xavier; Pratchett, Morgan S.; Putnam, Hollie M.; Roberts, T. Edward; Stat, Michael; Wallace, Carden C.; Widman, Elizabeth; Baird, Andrew H.

2016-01-01

Trait-based approaches advance ecological and evolutionary research because traits provide a strong link to an organism’s function and fitness. Trait-based research might lead to a deeper understanding of the functions of, and services provided by, ecosystems, thereby improving management, which is vital in the current era of rapid environmental change. Coral reef scientists have long collected trait data for corals; however, these are difficult to access and often under-utilized in addressing large-scale questions. We present the Coral Trait Database initiative that aims to bring together physiological, morphological, ecological, phylogenetic and biogeographic trait information into a single repository. The database houses species- and individual-level data from published field and experimental studies alongside contextual data that provide important framing for analyses. In this data descriptor, we release data for 56 traits for 1547 species, and present a collaborative platform on which other trait data are being actively federated. Our overall goal is for the Coral Trait Database to become an open-source, community-led data clearinghouse that accelerates coral reef research. PMID:27023900

The Coral Trait Database, a curated database of trait information for coral species from the global oceans.

PubMed

Madin, Joshua S; Anderson, Kristen D; Andreasen, Magnus Heide; Bridge, Tom C L; Cairns, Stephen D; Connolly, Sean R; Darling, Emily S; Diaz, Marcela; Falster, Daniel S; Franklin, Erik C; Gates, Ruth D; Harmer, Aaron; Hoogenboom, Mia O; Huang, Danwei; Keith, Sally A; Kosnik, Matthew A; Kuo, Chao-Yang; Lough, Janice M; Lovelock, Catherine E; Luiz, Osmar; Martinelli, Julieta; Mizerek, Toni; Pandolfi, John M; Pochon, Xavier; Pratchett, Morgan S; Putnam, Hollie M; Roberts, T Edward; Stat, Michael; Wallace, Carden C; Widman, Elizabeth; Baird, Andrew H

2016-03-29

Trait-based approaches advance ecological and evolutionary research because traits provide a strong link to an organism's function and fitness. Trait-based research might lead to a deeper understanding of the functions of, and services provided by, ecosystems, thereby improving management, which is vital in the current era of rapid environmental change. Coral reef scientists have long collected trait data for corals; however, these are difficult to access and often under-utilized in addressing large-scale questions. We present the Coral Trait Database initiative that aims to bring together physiological, morphological, ecological, phylogenetic and biogeographic trait information into a single repository. The database houses species- and individual-level data from published field and experimental studies alongside contextual data that provide important framing for analyses. In this data descriptor, we release data for 56 traits for 1547 species, and present a collaborative platform on which other trait data are being actively federated. Our overall goal is for the Coral Trait Database to become an open-source, community-led data clearinghouse that accelerates coral reef research.

Establishment of a database of fetal congenital heart malformations and preliminary investigation of its clinical application.

PubMed

Gao, Jun-Xue; Pei, Qiu-Yan; Li, Yun-Tao; Yang, Zhen-Juan

2015-06-01

The aim of this study was to create a database of anatomical ultrathin cross-sectional images of fetal hearts with different congenital heart diseases (CHDs) and preliminarily to investigate its clinical application. Forty Chinese fetal heart samples from induced labor due to different CHDs were cut transversely at 60-μm thickness. All thoracic organs were removed from the thoracic cavity after formalin fixation, embedded in optimum cutting temperature compound, and then frozen at -25°C for 2 hours. Subsequently, macro shots of the frozen serial sections were obtained using a digital camera in order to build a database of anatomical ultrathin cross-sectional images. Images in the database clearly displayed the fetal heart structures. After importing the images into three-dimensional software, the following functions could be realized: (1) based on the original database of transverse sections, databases of sagittal and coronal sections could be constructed; and (2) the original and constructed databases could be displayed continuously and dynamically, and rotated in arbitrary angles. They could also be displayed synchronically. The aforementioned functions of the database allowed for the retrieval of images and three-dimensional anatomy characteristics of the different fetal CHDs, and virtualization of fetal echocardiography findings. A database of 40 different cross-sectional fetal CHDs was established. An extensive database library of fetal CHDs, from which sonographers and students can study the anatomical features of fetal CHDs and virtualize fetal echocardiography findings via either centralized training or distance education, can be established in the future by accumulating further cases. Copyright © 2015. Published by Elsevier B.V.

Bedside Back to Bench: Building Bridges between Basic and Clinical Genomic Research.

PubMed

Manolio, Teri A; Fowler, Douglas M; Starita, Lea M; Haendel, Melissa A; MacArthur, Daniel G; Biesecker, Leslie G; Worthey, Elizabeth; Chisholm, Rex L; Green, Eric D; Jacob, Howard J; McLeod, Howard L; Roden, Dan; Rodriguez, Laura Lyman; Williams, Marc S; Cooper, Gregory M; Cox, Nancy J; Herman, Gail E; Kingsmore, Stephen; Lo, Cecilia; Lutz, Cathleen; MacRae, Calum A; Nussbaum, Robert L; Ordovas, Jose M; Ramos, Erin M; Robinson, Peter N; Rubinstein, Wendy S; Seidman, Christine; Stranger, Barbara E; Wang, Haoyi; Westerfield, Monte; Bult, Carol

2017-03-23

Genome sequencing has revolutionized the diagnosis of genetic diseases. Close collaborations between basic scientists and clinical genomicists are now needed to link genetic variants with disease causation. To facilitate such collaborations, we recommend prioritizing clinically relevant genes for functional studies, developing reference variant-phenotype databases, adopting phenotype description standards, and promoting data sharing. Published by Elsevier Inc.

Bedside Back to Bench: Building Bridges between Basic and Clinical Genomic Research

PubMed Central

Manolio, Teri A.; Fowler, Douglas M.; Starita, Lea M.; Haendel, Melissa A.; MacArthur, Daniel G.; Biesecker, Leslie G.; Worthey, Elizabeth; Chisholm, Rex L.; Green, Eric D.; Jacob, Howard J.; McLeod, Howard L.; Roden, Dan; Rodriguez, Laura Lyman; Williams, Marc S.; Cooper, Gregory M.; Cox, Nancy J.; Herman, Gail E.; Kingsmore, Stephen; Lo, Cecilia; Lutz, Cathleen; MacRae, Calum A.; Nussbaum, Robert L.; Ordovas, Jose M.; Ramos, Erin M.; Robinson, Peter N.; Rubinstein, Wendy S.; Seidman, Christine; Stranger, Barbara E.; Wang, Haoyi; Westerfield, Monte; Bult, Carol

2017-01-01

Summary Genome sequencing has revolutionized the diagnosis of genetic diseases. Close collaborations between basic scientists and clinical genomicists are now needed to link genetic variants with disease causation. To facilitate such collaborations we recommend prioritizing clinically relevant genes for functional studies, developing reference variant-phenotype databases, adopting phenotype description standards, and promoting data sharing. PMID:28340351

Cloning and submission to the Natural Center for Biotechnology Information (NCBI) database of two complete vitellogenin genes from the varroa mite, Varroa destructor

USDA-ARS?s Scientific Manuscript database

The varroa mite, Varroa destructor, is a honeybee ectoparasite considered the most important pest in apiaries throughout the US. Vitellogenins are the yolk proteins produced by the ovipositing female mite and deposited into the oocytes to provide nutrients to the developing embryo. Scientists at CMA...

eButterfly: Leveraging Massive Online Citizen Science for Butterfly Conservation

PubMed Central

Prudic, Kathleen L.; McFarland, Kent P.; Oliver, Jeffrey C.; Hutchinson, Rebecca A.; Long, Elizabeth C.; Kerr, Jeremy T.; Larrivée, Maxim

2017-01-01

Data collection, storage, analysis, visualization, and dissemination are changing rapidly due to advances in new technologies driven by computer science and universal access to the internet. These technologies and web connections place human observers front and center in citizen science-driven research and are critical in generating new discoveries and innovation in such fields as astronomy, biodiversity, and meteorology. Research projects utilizing a citizen science approach address scientific problems at regional, continental, and even global scales otherwise impossible for a single lab or even a small collection of academic researchers. Here we describe eButterfly an integrative checklist-based butterfly monitoring and database web-platform that leverages the skills and knowledge of recreational butterfly enthusiasts to create a globally accessible unified database of butterfly observations across North America. Citizen scientists, conservationists, policy makers, and scientists are using eButterfly data to better understand the biological patterns of butterfly species diversity and how environmental conditions shape these patterns in space and time. eButterfly in collaboration with thousands of butterfly enthusiasts has created a near real-time butterfly data resource producing tens of thousands of observations per year open to all to share and explore. PMID:28524117

Cassini Tour Atlas Automated Generation

NASA Technical Reports Server (NTRS)

Grazier, Kevin R.; Roumeliotis, Chris; Lange, Robert D.

2011-01-01

During the Cassini spacecraft s cruise phase and nominal mission, the Cassini Science Planning Team developed and maintained an online database of geometric and timing information called the Cassini Tour Atlas. The Tour Atlas consisted of several hundreds of megabytes of EVENTS mission planning software outputs, tables, plots, and images used by mission scientists for observation planning. Each time the nominal mission trajectory was altered or tweaked, a new Tour Atlas had to be regenerated manually. In the early phases of Cassini s Equinox Mission planning, an a priori estimate suggested that mission tour designers would develop approximately 30 candidate tours within a short period of time. So that Cassini scientists could properly analyze the science opportunities in each candidate tour quickly and thoroughly so that the optimal series of orbits for science return could be selected, a separate Tour Atlas was required for each trajectory. The task of manually generating the number of trajectory analyses in the allotted time would have been impossible, so the entire task was automated using code written in five different programming languages. This software automates the generation of the Cassini Tour Atlas database. It performs with one UNIX command what previously took a day or two of human labor.

CompNanoTox2015: novel perspectives from a European conference on computational nanotoxicology on predictive nanotoxicology.

PubMed

Bañares, Miguel A; Haase, Andrea; Tran, Lang; Lobaskin, Vladimir; Oberdörster, Günter; Rallo, Robert; Leszczynski, Jerzy; Hoet, Peter; Korenstein, Rafi; Hardy, Barry; Puzyn, Tomasz

2017-09-01

A first European Conference on Computational Nanotoxicology, CompNanoTox, was held in November 2015 in Benahavís, Spain with the objectives to disseminate and integrate results from the European modeling and database projects (NanoPUZZLES, ModENPTox, PreNanoTox, MembraneNanoPart, MODERN, eNanoMapper and EU COST TD1204 MODENA) as well as to create synergies within the European NanoSafety Cluster. This conference was supported by the COST Action TD1204 MODENA on developing computational methods for toxicological risk assessment of engineered nanoparticles and provided a unique opportunity for cross fertilization among complementary disciplines. The efforts to develop and validate computational models crucially depend on high quality experimental data and relevant assays which will be the basis to identify relevant descriptors. The ambitious overarching goal of this conference was to promote predictive nanotoxicology, which can only be achieved by a close collaboration between the computational scientists (e.g. database experts, modeling experts for structure, (eco) toxicological effects, performance and interaction of nanomaterials) and experimentalists from different areas (in particular toxicologists, biologists, chemists and material scientists, among others). The main outcome and new perspectives of this conference are summarized here.

eButterfly: Leveraging Massive Online Citizen Science for Butterfly Consevation.

PubMed

Prudic, Kathleen L; McFarland, Kent P; Oliver, Jeffrey C; Hutchinson, Rebecca A; Long, Elizabeth C; Kerr, Jeremy T; Larrivée, Maxim

2017-05-18

Data collection, storage, analysis, visualization, and dissemination are changing rapidly due to advances in new technologies driven by computer science and universal access to the internet. These technologies and web connections place human observers front and center in citizen science-driven research and are critical in generating new discoveries and innovation in such fields as astronomy, biodiversity, and meteorology. Research projects utilizing a citizen science approach address scientific problems at regional, continental, and even global scales otherwise impossible for a single lab or even a small collection of academic researchers. Here we describe eButterfly an integrative checklist-based butterfly monitoring and database web-platform that leverages the skills and knowledge of recreational butterfly enthusiasts to create a globally accessible unified database of butterfly observations across North America. Citizen scientists, conservationists, policy makers, and scientists are using eButterfly data to better understand the biological patterns of butterfly species diversity and how environmental conditions shape these patterns in space and time. eButterfly in collaboration with thousands of butterfly enthusiasts has created a near real-time butterfly data resource producing tens of thousands of observations per year open to all to share and explore.

Biomarker Benchmarks: Reproductive and Endocrine Biomarkers in Largemouth Bass and Common Carp from United States Waters

USGS Publications Warehouse

Goodbred, Steven L.; Smith, Stephen B.; Greene, Patricia S.; Rauschenberger, Richard H.; Bartish, Timothy M.

2007-01-01

The U.S. Geological Survey (USGS) has developed a national database and report on endocrine and reproductive condition in two species of fish collected in U.S. streams and rivers. This information provides scientists with a national basis for comparing results of endocrine measurements in fish from individual sites throughout the country, so that scientists can better ascertain normal levels of biomarkers. The database includes information on several measures of reproductive and endocrine condition for common carp and largemouth bass. Data summaries are provided by reproductive season and geographic region. A national-scale reconnaissance investigation was initiated in 1994 by the USGS that utilized a suite of biological assays (biomarkers) as indicators of reproductive health, and potentially, endocrine disruption in two widely distributed species of teleost (bony) fish, largemouth bass (Micropterus salmoides) and common carp (Cyrinus carpio). The suite of assays included plasma sex-steroid hormones, stage of gonadal development, and plasma vitellogenin, an egg protein that indicates exposure to estrogenic compounds when found in male fish. More than 2,200 common carp and 650 largemouth bass were collected at 119 rivers and streams (fig. 1).

CompNanoTox2015: novel perspectives from a European conference on computational nanotoxicology on predictive nanotoxicology

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

Bañares, Miguel A.; Haase, Andrea; Tran, Lang

A first European Conference on Computational Nanotoxicology, CompNanoTox, was held in November 2015 in Benahavís, Spain with the objectives to disseminate and integrate results from the European modeling and database projects (NanoPUZZLES, ModENPTox, PreNanoTox, MembraneNanoPart, MODERN, eNanoMapper and EU COST TD1204 MODENA) as well as to create synergies within the European NanoSafety Cluster. This conference was supported by the COST Action TD1204 MODENA on developing computational methods for toxicological risk assessment of engineered nanoparticles and provided a unique opportunity for crossfertilization among complementary disciplines. The efforts to develop and validate computational models crucially depend on high quality experimental data andmore » relevant assays which will be the basis to identify relevant descriptors. The ambitious overarching goal of this conference was to promote predictive nanotoxicology, which can only be achieved by a close collaboration between the computational scientists (e.g. database experts, modeling experts for structure, (eco) toxicological effects, performance and interaction of nanomaterials) and experimentalists from different areas (in particular toxicologists, biologists, chemists and material scientists, among others). The main outcome and new perspectives of this conference are summarized here.« less

Informatics and data quality at collaborative multicenter Breast and Colon Cancer Family Registries.

PubMed

McGarvey, Peter B; Ladwa, Sweta; Oberti, Mauricio; Dragomir, Anca Dana; Hedlund, Erin K; Tanenbaum, David Michael; Suzek, Baris E; Madhavan, Subha

2012-06-01

Quality control and harmonization of data is a vital and challenging undertaking for any successful data coordination center and a responsibility shared between the multiple sites that produce, integrate, and utilize the data. Here we describe a coordinated effort between scientists and data managers in the Cancer Family Registries to implement a data governance infrastructure consisting of both organizational and technical solutions. The technical solution uses a rule-based validation system that facilitates error detection and correction for data centers submitting data to a central informatics database. Validation rules comprise both standard checks on allowable values and a crosscheck of related database elements for logical and scientific consistency. Evaluation over a 2-year timeframe showed a significant decrease in the number of errors in the database and a concurrent increase in data consistency and accuracy.

Informatics and data quality at collaborative multicenter Breast and Colon Cancer Family Registries

PubMed Central

McGarvey, Peter B; Ladwa, Sweta; Oberti, Mauricio; Dragomir, Anca Dana; Hedlund, Erin K; Tanenbaum, David Michael; Suzek, Baris E

2012-01-01

Quality control and harmonization of data is a vital and challenging undertaking for any successful data coordination center and a responsibility shared between the multiple sites that produce, integrate, and utilize the data. Here we describe a coordinated effort between scientists and data managers in the Cancer Family Registries to implement a data governance infrastructure consisting of both organizational and technical solutions. The technical solution uses a rule-based validation system that facilitates error detection and correction for data centers submitting data to a central informatics database. Validation rules comprise both standard checks on allowable values and a crosscheck of related database elements for logical and scientific consistency. Evaluation over a 2-year timeframe showed a significant decrease in the number of errors in the database and a concurrent increase in data consistency and accuracy. PMID:22323393

Tobacco Industry Influence on Science and Scientists in Germany

PubMed Central

Grüning, Thilo; Gilmore, Anna B.; McKee, Martin

2006-01-01

Using tobacco industry documents, we examined how and why the tobacco industry sought to influence science and scientists in Germany as a possible factor in explaining the German opposition to stricter tobacco regulation. Smoking and health research programs were organized both separately by individual tobacco companies and jointly through their German trade organization. An extensive network of scientists and scientific institutions with tobacco industry links was developed. Science was distorted in 5 ways: suppression, dilution, distraction, concealment, and manipulation. The extent of tobacco industry influence over the scientific establishment in Germany is profound. The industry introduced serious bias that probably influenced scientific and public opinion in Germany. This influence likely undermined efforts to control tobacco use. PMID:16317203

Libraries and Information Science: the Profession. Alternative Career Opportunities for Atmospheric, Earth, and Geo-scientists.

NASA Astrophysics Data System (ADS)

Love, A. M.

2003-12-01

Many graduate students, researchers and scientists may not be aware that there are other career opportunities available to them as scientists besides the traditional academic, government, industrial and private sector tracks. Subject specialists with science backgrounds are in great demand. Knowledge management and information services affiliated with science and research is an exciting and creative profession. Contributing to, finding and delivering the range of information now emerging from new and established disciplines in all formats defines Information Science and Librarianship with a multitude of opportunities. This poster will offer information to encourage students and researchers with these skills and backgrounds to consider Information and Library Science as an exciting career path.

Scientific management of Space Telescope

NASA Technical Reports Server (NTRS)

Odell, C. R.

1981-01-01

A historical summay is given on the science management of the Space Telescope, the inception of which began in 1962, when scientists and engineers first recommended the development of a nearly diffraction limited substantial-size optical telescope. Phase A, the feasibility requirements generation phase, began in 1971 and consisted largely of NASA scientists and a NASA design. Phase B, the preliminary design phase, established a tiered structure of scientists, led by the Large Space Telescope operations and Management Work Group. A Mission Operations Working Group headed six instrument definition teams to develop the essential instrument definitions. Many changes took place during Phase B, before design and development, which began in 1978 and still continues today.

Nonproliferation and Threat Reduction Assistance: U.S. Programs in the Former Soviet Union

DTIC Science & Technology

2007-11-28

former Soviet Union.67 The State Department also manages and funds the International Science and Technology Center ( ISTC ) in Moscow and its companion...late 1992, the United States, Japan, the European Union, and Russia established the International Science and Technology Center ( ISTC ) in Moscow...funded nearly 1,700 projects that engaged about 41,000 scientists. In 2001, the ISTC in Moscow supported more than 22,000 scientists with more than $29

Yang-Mills Theory at 60: Milestones, Landmarks and Interesting Questions

NASA Astrophysics Data System (ADS)

Chau, Ling-Lie

On the auspicious occasion of celebrating the 60th anniversary of the Yang-Mills theory, and Professor Yang's many other important contributions to physics and mathematics, I will highlight the impressive milestones and landmarks that have been established in the last 60 years, as well as some interesting questions that are worthy of answers from future researches. The paper is written (without equations) for the interest of non-scientists as well as of scientists.

Forging School-Scientist Partnerships: A Case of Easier Said than Done?

NASA Astrophysics Data System (ADS)

Falloon, Garry

2013-12-01

Since the early 1980s, a number of initiatives have been undertaken worldwide which have involved scientists and teachers working together in projects designed to support the science learning of students. Many of these have attempted to establish school-scientist partnerships. In these, scientists, teachers, and students formed teams engaged in mutually beneficial science-based activities founded on principles such as equal recognition and input, and shared vision, responsibility and risk. This article uses two partnership programmes run by a New Zealand Science Research Institute, to illustrate the challenges faced by scientists and teachers as they attempted to forge meaningful and effective partnerships. It argues that achieving the theorised position of a shared partnership space at the intersection of the worlds of scientists and teachers is problematic, and that scientists must instead be prepared to penetrate deeply into the world of the classroom when undertaking any such interactions. Findings indicate epistemological differences, curriculum and school systems and issues, and teacher efficacy and science knowledge significantly affect the process of partnership formation. Furthermore, it is argued that a re-thinking of partnerships is needed to reflect present economic and education environments, which are very different to those in which they were originally conceived nearly 30 years ago. It suggests that technology has an important role to play in future partnership interactions.

Climate Research by K-12 Students: Can They Do It? Will Anybody Care?

NASA Astrophysics Data System (ADS)

Brooks, D. R.

2011-12-01

Starting from the premise that engaging students in authentic science research is an activity that benefits science education in general, it is first necessary to consider whether students, in collaboration with teachers and climate scientists, can do climate-related research that actually has scientific value. A workshop held in November 2010, co-sponsored by NSF and NOAA, addressed this question. It took as its starting point this "scientific interest" test: "If students conduct a climate-related research project according to protocols designed in collaboration with climate scientists, when they get done, will any of those scientists care whether they did it or not?" If the answer to this question is "yes," then the project may constitute authentic research, but if the answer is "no," then the project may have educational value, but it is not research. This test is important because only when climate scientists (and other stakeholders interested in climate and climate change) are invested in the outcomes of student research will meaningful student research programs with sustainable support be forthcoming. The absence of climate-related projects in high-level student science fair competitions indicates that, currently, the investment and infrastructure required to support student climate research is lacking. As a result, climate science is losing the battle for the "hearts and minds" of today's best students. The critical task for student climate research is to define projects that are theoretically and practically accessible. This excludes the "big questions" of climate science, such as "Is Earth getting warmer?", but includes many observationally based projects that can help to refine our understanding of climate and climate change. The characteristics of collaborative climate research with students include: 1. carefully drawn distinctions between inquiry-based "learning about" activities and actual research; 2. an identified audience of potential stakeholders who will care about the results of the research; 3. clearly defined expectations, logistics, and outcomes for all participants. Some examples of appropriate data-based research topics include: 1. monitoring black carbon, atmospheric aerosols, and water vapor; 2. pyranometry at sufficiently high temporal resolution to study cloud patterns; 3. urban heat island and other microclimate effects; 4. monitoring benthic habitats and seafloor temperatures; 5. monitoring free-floating ocean buoys to help in the establishment of mobile marine sanctuaries; 6. monitoring surface reflectivity to generate highly localized normalized difference vegetation indices; 7. tracking habitats for vector-borne disease carriers in developing countries. Both education and science communities need to work harder to support student climate research. Educational institutions must build authentic student research into their mission statements. Scientists need to be more aware of the constraints under which teachers and their students must operate on a day-to-day basis. But, students can participate in authentic climate research if educators and scientists expect them to do real research, are honest with them about what is required to do real research, and are willing to provide persistent ongoing support.

InfoTrac TFD: a microcomputer implementation of the Transcription Factor Database TFD with a graphical user interface.

PubMed

Hoeck, W G

1994-06-01

InfoTrac TFD provides a graphical user interface (GUI) for viewing and manipulating datasets in the Transcription Factor Database, TFD. The interface was developed in Filemaker Pro 2.0 by Claris Corporation, which provides cross platform compatibility between Apple Macintosh computers running System 7.0 and higher and IBM-compatibles running Microsoft Windows 3.0 and higher. TFD ASCII-tables were formatted to fit data into several custom data tables using Add/Strip, a shareware utility and Filemaker Pro's lookup feature. The lookup feature was also put to use to allow TFD data tables to become linked within a flat-file database management system. The 'Navigator', consisting of several pop-up menus listing transcription factor abbreviations, facilitates the search for transcription factor entries. Data are presented onscreen in several layouts, that can be further customized by the user. InfoTrac TFD makes the transcription factor database accessible to a much wider community of scientists by making it available on two popular microcomputer platforms.

The Fabric for Frontier Experiments Project at Fermilab

NASA Astrophysics Data System (ADS)

Kirby, Michael

2014-06-01

The FabrIc for Frontier Experiments (FIFE) project is a new, far-reaching initiative within the Fermilab Scientific Computing Division to drive the future of computing services for experiments at FNAL and elsewhere. It is a collaborative effort between computing professionals and experiment scientists to produce an end-to-end, fully integrated set of services for computing on the grid and clouds, managing data, accessing databases, and collaborating within experiments. FIFE includes 1) easy to use job submission services for processing physics tasks on the Open Science Grid and elsewhere; 2) an extensive data management system for managing local and remote caches, cataloging, querying, moving, and tracking the use of data; 3) custom and generic database applications for calibrations, beam information, and other purposes; 4) collaboration tools including an electronic log book, speakers bureau database, and experiment membership database. All of these aspects will be discussed in detail. FIFE sets the direction of computing at Fermilab experiments now and in the future, and therefore is a major driver in the design of computing services worldwide.

Teaching Scientists to Fish, as Inspired by Jack Dymond

NASA Astrophysics Data System (ADS)

Franks, S. E.

2004-12-01

It is almost inconceivable that as Jack Dymond's graduate student for eight years, I never mastered the skill of fly-fishing, a pursuit so near and dear to his heart. In fact, Jack did inspire me, not to tie flies and cast, but eventually to teach fellow scientists to fish. The work I'll present - connecting scientists and educators to achieve societal benefit - is profoundly influenced by Jack's dedication to applying scientific understanding and critical thinking to societal issues. With colleagues in the Centers for Ocean Sciences Education Excellence (COSEE), http://www.cosee.net/, I enable scientists to efficiently make meaningful contributions to educational outreach. A key goal of the multi-Center, national COSEE Network is helping scientists build the skills and acquire the resources needed to share their science with diverse audiences. At Scripps, we are piloting an innovative approach to helping scientists meet funding agencies' broader impact requirements. Key elements of the approach include: 1) services to identify educational outreach options that best fit scientists' research and preferences; 2) assistance establishing partnerships with educational outreach providers who have the skills and resources to develop and implement effective programs and exhibits; and 3) nuts and bolts (line and fly) assistance writing proposal text, drafting budgets, and coordinating with institutional business offices to ensure that the proposed educational outreach effort is compelling and sufficiently funded. Where does the fishing lesson come in? We facilitators of scientist-educator partnerships empower scientists to launch enduring collaborations. Once comfortable working with top-notch educational organizations, scientists can tap these resources, project after project, often with little or no additional involvement on our part. Our initial investment in brokering the relationships is richly rewarded. By helping scientists get started, it's as if we are teaching them to fish, rather than merely giving them fish.

Analysis of commercial and public bioactivity databases.

PubMed

Tiikkainen, Pekka; Franke, Lutz

2012-02-27

Activity data for small molecules are invaluable in chemoinformatics. Various bioactivity databases exist containing detailed information of target proteins and quantitative binding data for small molecules extracted from journals and patents. In the current work, we have merged several public and commercial bioactivity databases into one bioactivity metabase. The molecular presentation, target information, and activity data of the vendor databases were standardized. The main motivation of the work was to create a single relational database which allows fast and simple data retrieval by in-house scientists. Second, we wanted to know the amount of overlap between databases by commercial and public vendors to see whether the former contain data complementing the latter. Third, we quantified the degree of inconsistency between data sources by comparing data points derived from the same scientific article cited by more than one vendor. We found that each data source contains unique data which is due to different scientific articles cited by the vendors. When comparing data derived from the same article we found that inconsistencies between the vendors are common. In conclusion, using databases of different vendors is still useful since the data overlap is not complete. It should be noted that this can be partially explained by the inconsistencies and errors in the source data.

40 CFR 1400.13 - Read-only database.

Code of Federal Regulations, 2012 CFR

2012-07-01

... 40 Protection of Environment 34 2012-07-01 2012-07-01 false Read-only database. 1400.13 Section... INFORMATION Other Provisions § 1400.13 Read-only database. The Administrator is authorized to establish... public off-site consequence analysis information by means of a central database under the control of the...

40 CFR 1400.13 - Read-only database.

Code of Federal Regulations, 2014 CFR

2014-07-01

... 40 Protection of Environment 33 2014-07-01 2014-07-01 false Read-only database. 1400.13 Section... INFORMATION Other Provisions § 1400.13 Read-only database. The Administrator is authorized to establish... public off-site consequence analysis information by means of a central database under the control of the...

40 CFR 1400.13 - Read-only database.

Code of Federal Regulations, 2011 CFR

2011-07-01

... 40 Protection of Environment 33 2011-07-01 2011-07-01 false Read-only database. 1400.13 Section... INFORMATION Other Provisions § 1400.13 Read-only database. The Administrator is authorized to establish... public off-site consequence analysis information by means of a central database under the control of the...

40 CFR 1400.13 - Read-only database.

Code of Federal Regulations, 2013 CFR

2013-07-01

... 40 Protection of Environment 34 2013-07-01 2013-07-01 false Read-only database. 1400.13 Section... INFORMATION Other Provisions § 1400.13 Read-only database. The Administrator is authorized to establish... public off-site consequence analysis information by means of a central database under the control of the...

19 CFR 351.304 - Establishing business proprietary treatment of information.

Code of Federal Regulations, 2012 CFR

2012-04-01

... information. 351.304 Section 351.304 Customs Duties INTERNATIONAL TRADE ADMINISTRATION, DEPARTMENT OF COMMERCE...) Electronic databases. In accordance with § 351.303(c)(3), an electronic database need not contain brackets... in the database. The public version of the database must be publicly summarized and ranged in...

19 CFR 351.304 - Establishing business proprietary treatment of information.

Code of Federal Regulations, 2013 CFR

2013-04-01

... information. 351.304 Section 351.304 Customs Duties INTERNATIONAL TRADE ADMINISTRATION, DEPARTMENT OF COMMERCE...) Electronic databases. In accordance with § 351.303(c)(3), an electronic database need not contain brackets... in the database. The public version of the database must be publicly summarized and ranged in...

19 CFR 351.304 - Establishing business proprietary treatment of information.

Code of Federal Regulations, 2014 CFR

2014-04-01

... information. 351.304 Section 351.304 Customs Duties INTERNATIONAL TRADE ADMINISTRATION, DEPARTMENT OF COMMERCE...) Electronic databases. In accordance with § 351.303(c)(3), an electronic database need not contain brackets... in the database. The public version of the database must be publicly summarized and ranged in...

Ethnic cartography and politics in Vienna, 1918-1945.

PubMed

Svatek, Petra

2018-03-01

In Vienna, the close of the First World War and the period of the peace negotiations in Paris saw an enormous boom of ethnic-geographic research approaches and ethnic map-making. This process continued with the appointment of the Viennese geographer Hugo Hassinger (1877-1952) to the chair of human geography at the University of Vienna in 1931 and intensified with the establishment of the South East German Research Association and the National Socialist takeover in March 1938. But did the initiatives to create ethnic maps originate with politicians and authorities, or did they come from the scientists themselves? This article argues that scientists embarked upon ethnic geographies on their own initiative. Although political institutions used scientists and their resources for their own, political ends (ethnographic maps served as an important source for the National Socialists in their operations for ethnic consolidation), scientists also mobilized resources from the political sphere for career and disciplinary purposes.

Two Challenges to Communicating Climate Science

NASA Astrophysics Data System (ADS)

Oreskes, N.; Evans, J. H.; Feng, J.

2011-12-01

Climate scientists have been frustrated by the persistence of public opinion at odds with established scientific evidence about anthropogenic climate change. Traditionally, scientists have attributed the gap between scientific knowledge and public perception to scientific illiteracy, which could be remedied by a better and more abundant supply of well-communicated scientific information. Social scientific research, however, illustrates that this "deficit model" is insufficient to explain the current state of affairs: many individuals who reject the conclusions of climate scientists are highly educated, and some evidence suggests that, among certain demographics, more educated people are more likely than less educated ones to reject climate science. This talk explores two possible sources of resistance to, or outright rejection of, scientific conclusions about climate change: 1) the effects of long-standing organized efforts to challenge climate science and the credibility of climate scientists; 2) conservative Protestant religious beliefs concerning how factual claims about the earth are determined and how their significance is judged.

In/dependent Collaborations: Perceptions and Experiences of African Scientists in Transnational HIV Research

PubMed Central

Moyi Okwaro, Ferdinand; Geissler, P. W.

2015-01-01

This article examines collaboration in transnational medical research from the viewpoint of African scientists working in partnerships with northern counterparts. It draws on ethnographic fieldwork in an HIV laboratory of an East African state university, with additional data from interviews with scientists working in related research institutions. Collaboration is today the preferred framework for the mechanisms by which northern institutions support research in the south. The concept signals a shift away from the legacy of unequal (post‐) colonial power relations, although, amid persisting inequalities, the rhetorical emphasis on equality might actually hinder critical engagement with conflicts of interest and injustice. To collaborate, African scientists engage various strategies: They establish a qualified but flexible, non‐permanent workforce, diversify collaborators and research areas, source complementary funding to assemble infrastructures, and maintain prospective research populations to attract transnational clinical trials. Through this labor of collaboration, they sustain their institutions under prevailing conditions of scarcity. PMID:25800667

Five scientists at Johns Hopkins in the modern evolution of neuroscience.

PubMed

Harrison, T S

2000-08-01

Neuroscience's evolution at Johns Hopkins, from neurophysiology to the new field of neurobiology, though unplanned, was rapid and important. Beginning in 1933 when Philip Bard became professor of physiology at Johns Hopkins, members of his department concentrated initially on neuroanatomical control of placing reactions and sexual activity. Vernon Mountcastle, extending available techniques, discovered vertical somato-sensory columns in the 1950's. Stephen Kuffler, who arrived at Hopkins in 1947, was a pioneer in single unit microelectrode recording techniques. He soon attracted scientists from all over the world to his laboratory. Among them, Torsten Wiesel and David Hubel discovered vertical neuronal columns in the visual cortex. During several decades at Johns Hopkins, these five scientists set extremely high scientific standards and established a climate of inquiry in which ideas were shared and young scientists encouraged. They contributed significantly to the emerging discipline of neuroscience.

Assessing scientists for hiring, promotion, and tenure.

PubMed

Moher, David; Naudet, Florian; Cristea, Ioana A; Miedema, Frank; Ioannidis, John P A; Goodman, Steven N

2018-03-01

Assessment of researchers is necessary for decisions of hiring, promotion, and tenure. A burgeoning number of scientific leaders believe the current system of faculty incentives and rewards is misaligned with the needs of society and disconnected from the evidence about the causes of the reproducibility crisis and suboptimal quality of the scientific publication record. To address this issue, particularly for the clinical and life sciences, we convened a 22-member expert panel workshop in Washington, DC, in January 2017. Twenty-two academic leaders, funders, and scientists participated in the meeting. As background for the meeting, we completed a selective literature review of 22 key documents critiquing the current incentive system. From each document, we extracted how the authors perceived the problems of assessing science and scientists, the unintended consequences of maintaining the status quo for assessing scientists, and details of their proposed solutions. The resulting table was used as a seed for participant discussion. This resulted in six principles for assessing scientists and associated research and policy implications. We hope the content of this paper will serve as a basis for establishing best practices and redesigning the current approaches to assessing scientists by the many players involved in that process.

Assessing scientists for hiring, promotion, and tenure

PubMed Central

Naudet, Florian; Cristea, Ioana A.; Miedema, Frank; Ioannidis, John P. A.; Goodman, Steven N.

2018-01-01

Assessment of researchers is necessary for decisions of hiring, promotion, and tenure. A burgeoning number of scientific leaders believe the current system of faculty incentives and rewards is misaligned with the needs of society and disconnected from the evidence about the causes of the reproducibility crisis and suboptimal quality of the scientific publication record. To address this issue, particularly for the clinical and life sciences, we convened a 22-member expert panel workshop in Washington, DC, in January 2017. Twenty-two academic leaders, funders, and scientists participated in the meeting. As background for the meeting, we completed a selective literature review of 22 key documents critiquing the current incentive system. From each document, we extracted how the authors perceived the problems of assessing science and scientists, the unintended consequences of maintaining the status quo for assessing scientists, and details of their proposed solutions. The resulting table was used as a seed for participant discussion. This resulted in six principles for assessing scientists and associated research and policy implications. We hope the content of this paper will serve as a basis for establishing best practices and redesigning the current approaches to assessing scientists by the many players involved in that process. PMID:29596415

The Protein Information Resource: an integrated public resource of functional annotation of proteins

PubMed Central

Wu, Cathy H.; Huang, Hongzhan; Arminski, Leslie; Castro-Alvear, Jorge; Chen, Yongxing; Hu, Zhang-Zhi; Ledley, Robert S.; Lewis, Kali C.; Mewes, Hans-Werner; Orcutt, Bruce C.; Suzek, Baris E.; Tsugita, Akira; Vinayaka, C. R.; Yeh, Lai-Su L.; Zhang, Jian; Barker, Winona C.

2002-01-01

The Protein Information Resource (PIR) serves as an integrated public resource of functional annotation of protein data to support genomic/proteomic research and scientific discovery. The PIR, in collaboration with the Munich Information Center for Protein Sequences (MIPS) and the Japan International Protein Information Database (JIPID), produces the PIR-International Protein Sequence Database (PSD), the major annotated protein sequence database in the public domain, containing about 250 000 proteins. To improve protein annotation and the coverage of experimentally validated data, a bibliography submission system is developed for scientists to submit, categorize and retrieve literature information. Comprehensive protein information is available from iProClass, which includes family classification at the superfamily, domain and motif levels, structural and functional features of proteins, as well as cross-references to over 40 biological databases. To provide timely and comprehensive protein data with source attribution, we have introduced a non-redundant reference protein database, PIR-NREF. The database consists of about 800 000 proteins collected from PIR-PSD, SWISS-PROT, TrEMBL, GenPept, RefSeq and PDB, with composite protein names and literature data. To promote database interoperability, we provide XML data distribution and open database schema, and adopt common ontologies. The PIR web site (http://pir.georgetown.edu/) features data mining and sequence analysis tools for information retrieval and functional identification of proteins based on both sequence and annotation information. The PIR databases and other files are also available by FTP (ftp://nbrfa.georgetown.edu/pir_databases). PMID:11752247

Mapping older forests: satellites, statistics, and boots on the ground

Treesearch

Paul Meznarich; Janet Ohmann; Warren Cohen

2011-01-01

The 1994 Northwest Forest Plan (NWFP) established a common management approach across federal land within the range of the northern spotted owl. It also established a monitoring framework to track, among other things, the plan’s effectiveness at maintaining and restoring late-successional and old-growth forests.Station scientists Janet Ohmann and Warren...

Establishing a research and demonstration area initiated by managers: the Sharkey Restoration Research and Demonstration Site

Treesearch

E. Gardiner; J. Stanturf; T. Leininger; P. Hamel; L. Jr. Dorris; J. Portwood; J. Shepard

2008-01-01

As forest scientists increase their role in the process of science delivery, many research organizations are searching for novel methods to effectively build collaboration with managers to produce valued results. This article documents our experience with establishment of a forest restoration research and demonstration area in the Lower Mississippi Alluvial Valley (...

Guidelines for establishing and maintaining construction quality databases : tech brief.

DOT National Transportation Integrated Search

2006-12-01

Construction quality databases contain a variety of construction-related data that characterize the quality of materials and workmanship. The primary purpose of construction quality databases is to help State highway agencies (SHAs) assess the qualit...

Benefits of Exchange Between Computer Scientists and Perceptual Scientists: A Panel Discussion

NASA Technical Reports Server (NTRS)

Kaiser, Mary K.; Null, Cynthia H. (Technical Monitor)

1995-01-01

We have established several major goals for this panel: 1) Introduce the computer graphics community to some specific leaders in the use of perceptual psychology relating to computer graphics; 2) Enumerate the major results that are known, and provide a set of resources for finding others; 3) Identify research areas where knowledge of perceptual psychology can help computer system designers improve their systems; and 4) Provide advice to researchers on how they can establish collaborations in their own research programs. We believe this will be a very important panel. In addition to generating lively discussion, we hope to point out some of the fundamental issues that occur at the boundary between computer science and perception, and possibly help researchers avoid some of the common pitfalls.

Mitochondrial DNA control region sequences from Nairobi (Kenya): inferring phylogenetic parameters for the establishment of a forensic database.

PubMed

Brandstätter, Anita; Peterson, Christine T; Irwin, Jodi A; Mpoke, Solomon; Koech, Davy K; Parson, Walther; Parsons, Thomas J

2004-10-01

Large forensic mtDNA databases which adhere to strict guidelines for generation and maintenance, are not available for many populations outside of the United States and western Europe. We have established a high quality mtDNA control region sequence database for urban Nairobi as both a reference database for forensic investigations, and as a tool to examine the genetic variation of Kenyan sequences in the context of known African variation. The Nairobi sequences exhibited high variation and a low random match probability, indicating utility for forensic testing. Haplogroup identification and frequencies were compared with those reported from other published studies on African, or African-origin populations from Mozambique, Sierra Leone, and the United States, and suggest significant differences in the mtDNA compositions of the various populations. The quality of the sequence data in our study was investigated and supported using phylogenetic measures. Our data demonstrate the diversity and distinctiveness of African populations, and underline the importance of establishing additional forensic mtDNA databases of indigenous African populations.

Developing a Nursing Database System in Kenya

PubMed Central

Riley, Patricia L; Vindigni, Stephen M; Arudo, John; Waudo, Agnes N; Kamenju, Andrew; Ngoya, Japheth; Oywer, Elizabeth O; Rakuom, Chris P; Salmon, Marla E; Kelley, Maureen; Rogers, Martha; St Louis, Michael E; Marum, Lawrence H

2007-01-01

Objective To describe the development, initial findings, and implications of a national nursing workforce database system in Kenya. Principal Findings Creating a national electronic nursing workforce database provides more reliable information on nurse demographics, migration patterns, and workforce capacity. Data analyses are most useful for human resources for health (HRH) planning when workforce capacity data can be linked to worksite staffing requirements. As a result of establishing this database, the Kenya Ministry of Health has improved capability to assess its nursing workforce and document important workforce trends, such as out-migration. Current data identify the United States as the leading recipient country of Kenyan nurses. The overwhelming majority of Kenyan nurses who elect to out-migrate are among Kenya's most qualified. Conclusions The Kenya nursing database is a first step toward facilitating evidence-based decision making in HRH. This database is unique to developing countries in sub-Saharan Africa. Establishing an electronic workforce database requires long-term investment and sustained support by national and global stakeholders. PMID:17489921

The ChArMEx database

NASA Astrophysics Data System (ADS)

Ferré, Hélène; Belmahfoud, Nizar; Boichard, Jean-Luc; Brissebrat, Guillaume; Cloché, Sophie; Descloitres, Jacques; Fleury, Laurence; Focsa, Loredana; Henriot, Nicolas; Mière, Arnaud; Ramage, Karim; Vermeulen, Anne; Boulanger, Damien

2015-04-01

The Chemistry-Aerosol Mediterranean Experiment (ChArMEx, http://charmex.lsce.ipsl.fr/) aims at a scientific assessment of the present and future state of the atmospheric environment in the Mediterranean Basin, and of its impacts on the regional climate, air quality, and marine biogeochemistry. The project includes long term monitoring of environmental parameters , intensive field campaigns, use of satellite data and modelling studies. Therefore ChARMEx scientists produce and need to access a wide diversity of data. In this context, the objective of the database task is to organize data management, distribution system and services, such as facilitating the exchange of information and stimulating the collaboration between researchers within the ChArMEx community, and beyond. The database relies on a strong collaboration between ICARE, IPSL and OMP data centers and has been set up in the framework of the Mediterranean Integrated Studies at Regional And Locals Scales (MISTRALS) program data portal. ChArMEx data, either produced or used by the project, are documented and accessible through the database website: http://mistrals.sedoo.fr/ChArMEx. The website offers the usual but user-friendly functionalities: data catalog, user registration procedure, search tool to select and access data... The metadata (data description) are standardized, and comply with international standards (ISO 19115-19139; INSPIRE European Directive; Global Change Master Directory Thesaurus). A Digital Object Identifier (DOI) assignement procedure allows to automatically register the datasets, in order to make them easier to access, cite, reuse and verify. At present, the ChArMEx database contains about 120 datasets, including more than 80 in situ datasets (2012, 2013 and 2014 summer campaigns, background monitoring station of Ersa...), 25 model output sets (dust model intercomparison, MEDCORDEX scenarios...), a high resolution emission inventory over the Mediterranean... Many in situ datasets have been inserted in a relational database, in order to enable more accurate selection and download of different datasets in a shared format. Many dedicated satellite products (SEVIRI, TRIMM, PARASOL...) are processed and will soon be accessible through the database website. In order to meet the operational needs of the airborne and ground based observational teams during the ChArMEx campaigns, a day-to-day chart display website has been developed and operated: http://choc.sedoo.org. It offers a convenient way to browse weather conditions and chemical composition during the campaign periods. Every scientist is invited to visit the ChArMEx websites, to register and to request data. Feel free to contact charmex-database@sedoo.fr for any question.

The ChArMEx database

NASA Astrophysics Data System (ADS)

Ferré, Hélène; Descloitres, Jacques; Fleury, Laurence; Boichard, Jean-Luc; Brissebrat, Guillaume; Focsa, Loredana; Henriot, Nicolas; Mastrorillo, Laurence; Mière, Arnaud; Vermeulen, Anne

2013-04-01

The Chemistry-Aerosol Mediterranean Experiment (ChArMEx, http://charmex.lsce.ipsl.fr/) aims at a scientific assessment of the present and future state of the atmospheric environment in the Mediterranean Basin, and of its impacts on the regional climate, air quality, and marine biogeochemistry. The project includes long term monitoring of environmental parameters, intensive field campaigns, use of satellite data and modelling studies. Therefore ChARMEx scientists produce and need to access a wide diversity of data. In this context, the objective of the database task is to organize data management, distribution system and services such as facilitating the exchange of information and stimulating the collaboration between researchers within the ChArMEx community, and beyond. The database relies on a strong collaboration between OMP and ICARE data centres and falls within the scope of the Mediterranean Integrated Studies at Regional And Locals Scales (MISTRALS) program data portal. All the data produced by or of interest for the ChArMEx community will be documented in the data catalogue and accessible through the database website: http://mistrals.sedoo.fr/ChArMEx. The database website offers different tools: - A registration procedure which enables any scientist to accept the data policy and apply for a user database account. - Forms to document observations or products that will be provided to the database in compliance with metadata international standards (ISO 19115-19139; INSPIRE; Global Change Master Directory Thesaurus). - A search tool to browse the catalogue using thematic, geographic and/or temporal criteria. - Sorted lists of the datasets by thematic keywords, by measured parameters, by instruments or by platform type. - A shopping-cart web interface to order in situ data files. At present datasets from the background monitoring station of Ersa, Cape Corsica and from the 2012 ChArMEx pre-campaign are available. - A user-friendly access to satellite products (SEVIRI, TRIMM, PARASOL...) stored in the ICARE data archive using OpeNDAP protocole The website will soon propose new facilities. In particular, many in situ datasets will be homogenized and inserted in a relational database, in order to enable more accurate data selection and download of different datasets in a shared format. In order to meet the operational needs of the airborne and ground based observational teams during the ChArMEx 2012 pre-campaign and the 2013 experiment, a day-to-day quick look and report display website has been developed too: http://choc.sedoo.org. It offers a convenient way to browse weather conditions and chemical composition during the campaign periods.

How can scientists bring research to use: the HENVINET experience.

PubMed

Bartonova, Alena

2012-06-28

Health concerns have driven the European environmental policies of the last 25 years, with issues becoming more complex. Addressing these concerns requires an approach that is both interdisciplinary and engages scientists with society. In response to this requirement, the FP6 coordination action "Health and Environment Network" HENVINET was set up to create a permanent inter-disciplinary network of professionals in the field of health and environment tasked to bridge the communication gap between science and society. In this paper we describe how HENVINET delivered on this task. The HENVINET project approached the issue of inter-disciplinary collaboration in four ways. (1) The Drivers-Pressures-State-Exposure-Effect-Action framework was used to structure information gathering, collaboration and communication between scientists in the field of health and the environment. (2) Interactive web-based tools were developed to enhance methods for knowledge evaluation, and use these methods to formulate policy advice. (3) Quantification methods were adapted to measure scientific agreement. And (4) Open architecture web technology was used to develop an information repository and a web portal to facilitate collaboration and communication among scientists. Twenty-five organizations from Europe and five from outside Europe participated in the Health and Environment Network HENVINET, which lasted for 3.5 years. The consortium included partners in environmental research, public health and veterinary medicine; included medical practitioners and representatives of local administrations; and had access to national policy making and EEA and WHO expertise. Dedicated web-based tools for visualisation of environmental health issues and knowledge evaluation allowed remote expert elicitation, and were used as a basis for developing policy advice in five health areas (asthma and allergies; cancer; neurodevelopmental disorders; endocrine disruption; and engineered nanoparticles in the environment). An open searchable database of decision support tools was established and populated. A web based social networking tool was developed to enhance collaboration and communication between scientists and society. HENVINET addressed key issues that arise in inter-disciplinary research on health and environment and in communicating research results to policy makers and society. HENVINET went beyond traditional scientific tools and methods to bridge the communication gap between science and policy makers. The project identified the need for a common framework and delivered it. It developed and implemented a variety of novel methods and tools and, using several representative examples, demonstrated the process of producing politically relevant scientific advice based on an open participation of experts. It highlighted the need for, and benefits of, a liaison between health and environment professionals and professionals in the social sciences and liberal arts. By adopting critical complexity thinking, HENVINET extended the traditional approach to environment and health research, and set the standard for current approaches to bridge the gap between science and society.

Annual Review of Database Development: 1992.

ERIC Educational Resources Information Center

Basch, Reva

1992-01-01

Reviews recent trends in databases and online systems. Topics discussed include new access points for established databases; acquisitions, consolidations, and competition between vendors; European coverage; international services; online reference materials, including telephone directories; political and legal materials and public records;…

Soviet scientists speak out

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

Holloway, D.

1993-05-01

In this article, Russian bomb designers answer the KGB's claim that espionage, not science, produced the Soviet bomb. Yuli Khariton and Yuri Smirnov wholly reject the argument that Soviet scientists can claim little credit for the first Soviet bomb. In a lecture delivered at the Kurchatov Institute, established in 1943 when Igor Kurchatov became the director of the Soviet nuclear weapons project, Khariton and Smironov point to the work done by Soviet nuclear physicists before 1941 and refute assertions that have been made in Western literature regarding the hydrogen bomb.

Stephen H. Schneider (1945-2010)

NASA Astrophysics Data System (ADS)

Santer, Ben; Solomon, Susan

2010-10-01

Stephen H. Schneider, a pioneering climate scientist, prolific author, and inspirational teacher, passed away on 19 July 2010 while on travel in Europe. He was 65. As is clear from the outpouring of testimonials since his passing, atmospheric science has lost a towering figure, one whose impact as a scientist and communicator was exceeded only by his extraordinary human qualities. Steve Schneider touched lives; built bridges of communication to the public, to policy makers, and across disciplines; and established a distinguished record of seminal scientific breakthroughs.

Visualising Astronomy: Invisible - Impacts and Rings better

NASA Astrophysics Data System (ADS)

Wyatt, R.

2009-11-01

Stories about unpleasant experiences when collaborating with journalists circulate among many scientists. Some of them regard journalists as potential enemies against whom they have to be prepared. But is the idea that a journalist must be either friend or foe appropriate at all? This article briefly examines the changing relationship between astronomers, science journalists and the general public over the last few decades. It then gives a view from inside science journalism and finally suggests some ideas on how to establish a better relationship between scientists and journalists.

Systems engineering and the user: Incorporation of user requirements into the SE process

NASA Technical Reports Server (NTRS)

Naugle, John E.

1993-01-01

This paper is organized into four parts. In the Gestation Phase, I describe the process of starting a new mission and establishing its rough boundaries. Next I show how the scientific experiments are selected. Then we enter the Preliminary Design Phase, where we incorporate the scientist's instruments into the systems engineering process. Finally, I show how the Preliminary Design Review (PDR) assures NASA management and the scientists that the scientific requirements have been incorporated into the systems engineering process to everyone's satisfaction.

Perceptions and experiences of a gender gap at a Canadian research institute and potential strategies to mitigate this gap: a sequential mixed-methods study

PubMed Central

Mascarenhas, Alekhya; Moore, Julia E.; Tricco, Andrea C.; Hamid, Jemila; Daly, Caitlin; Bain, Julie; Jassemi, Sabrina; Kiran, Tara; Baxter, Nancy; Straus, Sharon E.

2017-01-01

Background: The gender gap in academia is long-standing. Failure to ensure that our academic faculty reflect our student pool and national population deprives Canada of talent. We explored the gender distribution and perceptions of the gender gap at a Canadian university-affiliated, hospital-based research institute. Methods: We completed a sequential mixed-methods study. In phase 1, we used the research institute's registry of scientists (1999-2014) and estimated overall prevalence of a gender gap and the gap with respect to job description (e.g., associate v. full-time) and research discipline. In phase 2, we conducted qualitative interviews to provide context for phase 1 data. Both purposive and snowball sampling were used for recruitment. Results: The institute included 30.1% (n = 62) women and 69.9% (n = 144) men, indicating a 39.8% gender gap. Most full-time scientists (60.3%, n = 70) were clinicians; there were 54.2% more male than female clinician scientists. Ninety-five percent of basic scientists were men, indicating a 90.5% gap. Seven key themes emerged from 21 interviews, including perceived impact of the gender gap, factors perceived to influence the gap, recruitment trends, presence of institutional support, mentorship and suggestions to mitigate the gap. Several factors were postulated to contribute to the gender gap, including unconscious bias in hiring. Interpretation: A substantial gender gap exists within this research institute. Participants identified strategies to address this gap, such as establishing transparent search processes, providing opportunities for informal networking and mentorship of female scientists and establishing institutional support for work-life balance. PMID:28401131

U-Science (Invited)

NASA Astrophysics Data System (ADS)

Borne, K. D.

2009-12-01

The emergence of e-Science over the past decade as a paradigm for Internet-based science was an inevitable evolution of science that built upon the web protocols and access patterns that were prevalent at that time, including Web Services, XML-based information exchange, machine-to-machine communication, service registries, the Grid, and distributed data. We now see a major shift in web behavior patterns to social networks, user-provided content (e.g., tags and annotations), ubiquitous devices, user-centric experiences, and user-led activities. The inevitable accrual of these social networking patterns and protocols by scientists and science projects leads to U-Science as a new paradigm for online scientific research (i.e., ubiquitous, user-led, untethered, You-centered science). U-Science applications include components from semantic e-science (ontologies, taxonomies, folksonomies, tagging, annotations, and classification systems), which is much more than Web 2.0-based science (Wikis, blogs, and online environments like Second Life). Among the best examples of U-Science are Citizen Science projects, including Galaxy Zoo, Stardust@Home, Project Budburst, Volksdata, CoCoRaHS (the Community Collaborative Rain, Hail and Snow network), and projects utilizing Volunteer Geographic Information (VGI). There are also scientist-led projects for scientists that engage a wider community in building knowledge through user-provided content. Among the semantic-based U-Science projects for scientists are those that specifically enable user-based annotation of scientific results in databases. These include the Heliophysics Knowledgebase, BioDAS, WikiProteins, The Entity Describer, and eventually AstroDAS. Such collaborative tagging of scientific data addresses several petascale data challenges for scientists: how to find the most relevant data, how to reuse those data, how to integrate data from multiple sources, how to mine and discover new knowledge in large databases, how to represent and encode the new knowledge, and how to curate the discovered knowledge. This talk will address the emergence of U-Science as a type of Semantic e-Science, and will explore challenges, implementations, and results. Semantic e-Science and U-Science applications and concepts will be discussed within the context of one particular implementation (AstroDAS: Astronomy Distributed Annotation System) and its applicability to petascale science projects such as the LSST (Large Synoptic Survey Telescope), coming online within the next few years.

A web-based genomic sequence database for the Streptomycetaceae: a tool for systematics and genome mining

USDA-ARS?s Scientific Manuscript database

The ARS Microbial Genome Sequence Database (http://199.133.98.43), a web-based database server, was established utilizing the BIGSdb (Bacterial Isolate Genomics Sequence Database) software package, developed at Oxford University, as a tool to manage multi-locus sequence data for the family Streptomy...

24 CFR 81.72 - Public-use database and public information.

Code of Federal Regulations, 2012 CFR

2012-04-01

... 24 Housing and Urban Development 1 2012-04-01 2012-04-01 false Public-use database and public... Public-use database and public information. (a) General. Except as provided in paragraph (c) of this section, the Secretary shall establish and make available for public use, a public-use database containing...

24 CFR 81.72 - Public-use database and public information.

Code of Federal Regulations, 2013 CFR

2013-04-01

... 24 Housing and Urban Development 1 2013-04-01 2013-04-01 false Public-use database and public... Public-use database and public information. (a) General. Except as provided in paragraph (c) of this section, the Secretary shall establish and make available for public use, a public-use database containing...

78 FR 2363 - Notification of Deletion of a System of Records; Automated Trust Funds Database

Federal Register 2010, 2011, 2012, 2013, 2014

2013-01-11

... Database AGENCY: Animal and Plant Health Inspection Service, USDA. ACTION: Notice of deletion of a system... establishing the Automated Trust Funds (ATF) database system of records. The Federal Information Security... Integrity Act of 1982, Public Law 97-255, provided authority for the system. The ATF database has been...

24 CFR 81.72 - Public-use database and public information.

Code of Federal Regulations, 2010 CFR

2010-04-01

... 24 Housing and Urban Development 1 2010-04-01 2010-04-01 false Public-use database and public... Public-use database and public information. (a) General. Except as provided in paragraph (c) of this section, the Secretary shall establish and make available for public use, a public-use database containing...

24 CFR 81.72 - Public-use database and public information.

Code of Federal Regulations, 2014 CFR

2014-04-01

... 24 Housing and Urban Development 1 2014-04-01 2014-04-01 false Public-use database and public... Public-use database and public information. (a) General. Except as provided in paragraph (c) of this section, the Secretary shall establish and make available for public use, a public-use database containing...

24 CFR 81.72 - Public-use database and public information.

Code of Federal Regulations, 2011 CFR

2011-04-01

... 24 Housing and Urban Development 1 2011-04-01 2011-04-01 false Public-use database and public... Public-use database and public information. (a) General. Except as provided in paragraph (c) of this section, the Secretary shall establish and make available for public use, a public-use database containing...

NREL: U.S. Life Cycle Inventory Database - Advisory Committee

Science.gov Websites

Advisory Committee The U.S. Life Cycle Inventory (LCI) Database established an advisory committee to provide technical and financial guidance to the NREL database management team. The committee will Assessing and responding to user feedback to ensure that the database meets the needs of data providers

Design and Establishment of Quality Model of Fundamental Geographic Information Database

NASA Astrophysics Data System (ADS)

Ma, W.; Zhang, J.; Zhao, Y.; Zhang, P.; Dang, Y.; Zhao, T.

2018-04-01

In order to make the quality evaluation for the Fundamental Geographic Information Databases(FGIDB) more comprehensive, objective and accurate, this paper studies and establishes a quality model of FGIDB, which formed by the standardization of database construction and quality control, the conformity of data set quality and the functionality of database management system, and also designs the overall principles, contents and methods of the quality evaluation for FGIDB, providing the basis and reference for carry out quality control and quality evaluation for FGIDB. This paper designs the quality elements, evaluation items and properties of the Fundamental Geographic Information Database gradually based on the quality model framework. Connected organically, these quality elements and evaluation items constitute the quality model of the Fundamental Geographic Information Database. This model is the foundation for the quality demand stipulation and quality evaluation of the Fundamental Geographic Information Database, and is of great significance on the quality assurance in the design and development stage, the demand formulation in the testing evaluation stage, and the standard system construction for quality evaluation technology of the Fundamental Geographic Information Database.

Establishment and Assessment of Plasma Disruption and Warning Databases from EAST

NASA Astrophysics Data System (ADS)

Wang, Bo; Robert, Granetz; Xiao, Bingjia; Li, Jiangang; Yang, Fei; Li, Junjun; Chen, Dalong

2016-12-01

Disruption database and disruption warning database of the EAST tokamak had been established by a disruption research group. The disruption database, based on Structured Query Language (SQL), comprises 41 disruption parameters, which include current quench characteristics, EFIT equilibrium characteristics, kinetic parameters, halo currents, and vertical motion. Presently most disruption databases are based on plasma experiments of non-superconducting tokamak devices. The purposes of the EAST database are to find disruption characteristics and disruption statistics to the fully superconducting tokamak EAST, to elucidate the physics underlying tokamak disruptions, to explore the influence of disruption on superconducting magnets and to extrapolate toward future burning plasma devices. In order to quantitatively assess the usefulness of various plasma parameters for predicting disruptions, a similar SQL database to Alcator C-Mod for EAST has been created by compiling values for a number of proposed disruption-relevant parameters sampled from all plasma discharges in the 2015 campaign. The detailed statistic results and analysis of two databases on the EAST tokamak are presented. supported by the National Magnetic Confinement Fusion Science Program of China (No. 2014GB103000)

Application of the Coastal and Marine Ecological Classification Standard to ROV Video Data for Enhanced Analysis of Deep-Sea Habitats in the Gulf of Mexico

NASA Astrophysics Data System (ADS)

Ruby, C.; Skarke, A. D.; Mesick, S.

2016-02-01

The Coastal and Marine Ecological Classification Standard (CMECS) is a network of common nomenclature that provides a comprehensive framework for organizing physical, biological, and chemical information about marine ecosystems. It was developed by the National Oceanic and Atmospheric Administration (NOAA) Coastal Services Center, in collaboration with other feral agencies and academic institutions, as a means for scientists to more easily access, compare, and integrate marine environmental data from a wide range of sources and time frames. CMECS has been endorsed by the Federal Geographic Data Committee (FGDC) as a national metadata standard. The research presented here is focused on the application of CMECS to deep-sea video and environmental data collected by the NOAA ROV Deep Discoverer and the NOAA Ship Okeanos Explorer in the Gulf of Mexico in 2011-2014. Specifically, a spatiotemporal index of the physical, chemical, biological, and geological features observed in ROV video records was developed in order to allow scientist, otherwise unfamiliar with the specific content of existing video data, to rapidly determine the abundance and distribution of features of interest, and thus evaluate the applicability of those video data to their research. CMECS units (setting, component, or modifier) for seafloor images extracted from high-definition ROV video data were established based upon visual assessment as well as analysis of coincident environmental sensor (temperature, conductivity), navigation (ROV position, depth, attitude), and log (narrative dive summary) data. The resulting classification units were integrated into easily searchable textual and geo-databases as well as an interactive web map. The spatial distribution and associations of deep-sea habitats as indicated by CMECS classifications are described and optimized methodological approaches for application of CMECS to deep-sea video and environmental data are presented.

[Evaluation and prioritisation of the scientific research in Spain. Researchers' point of view].

PubMed

María Martín-Moreno, José; Juan Toharia, José; Gutiérrez Fuentes, José Antonio

2008-12-01

The assessment and prioritisation of research activity are essential components of any Science, Technology and Industry System. Data on researchers' perspectives in this respect are scarce. The objective of this paper was to describe Spanish scientists' point of view on the current evaluation system in Spain and how they believe this system should be functionally structured. From the sampling frame formed by established Spanish scientists, listed in the databases of CSIC and FIS (Institute of Health Carlos III), clinical, biomedical-non clinical, and physics and chemical researchers were randomly selected. Two hundred and eleven interviews were carried out by means of a computer-assisted telephone interviewing system. Researchers expressed their acknowledgement of progress in the Spanish research field but made their wish clear to progress towards better scientific scenarios. In their assessment, they gave a score of 5.4 to scientific policy, as opposed to 9.4 when speaking about the goals, reflecting the desire for a better policy definition, with clear objectives, stable strategies and better coordination of R&D activities (the current coordination received a score of 3.9, while the desirable coordination was valued as high as 9.2). There was certain agreement regarding the need for a prioritisation criteria which preserves some degree of creativity by researchers. They also stated that they would like to see an independent research structure with social prestige and influence. The interviewed researchers believe that the evaluation of scientific activities is fundamental in formulating a sound scientific policy. Prioritisation should arise from appropriate evaluation. Strategies properly coordinated among all the stakeholders (including the private sector) should be fostered. Budget sufficiency, stability, and better organization of independent researchers should be the backbone of any strategy tailored to increase their capacity to influence future scientific policies.

Neurological Complications of AIDS

MedlinePlus

... was established by the NINDS in 1993 to design and conduct clinical trials on HIV-associated neurologic ... Outcomes Data Training & Career Development High School, Undergraduate, & Post-Baccalaureate Predoctoral Fellows Postdoctoral Fellows Clinician-Scientists Faculty ...

Home sweet homepage

NASA Astrophysics Data System (ADS)

2010-09-01

The importance of an up to date and easy to find website should not be underestimated by scientists looking to establish links to others in their community - and represents good value for relatively little effort.

Home sweet homepage.

PubMed

2010-09-01

The importance of an up to date and easy to find website should not be underestimated by scientists looking to establish links to others in their community--and represents good value for relatively little effort.

Why the US science and engineering workforce is aging rapidly.

PubMed

Blau, David M; Weinberg, Bruce A

2017-04-11

The science and engineering workforce has aged rapidly in recent years, both in absolute terms and relative to the workforce as a whole. This is a potential concern if the large number of older scientists crowds out younger scientists, making it difficult for them to establish independent careers. In addition, scientists are believed to be most creative earlier in their careers, so the aging of the workforce may slow the pace of scientific progress. We develop and simulate a demographic model, which shows that a substantial majority of recent aging is a result of the aging of the large baby boom cohort of scientists. However, changes in behavior have also played a significant role, in particular, a decline in the retirement rate of older scientists, induced in part by the elimination of mandatory retirement in universities in 1994. Furthermore, the age distribution of the scientific workforce is still adjusting. Current retirement rates and other determinants of employment in science imply a steady-state mean age 2.3 y higher than the 2008 level of 48.6.

Why the US science and engineering workforce is aging rapidly

PubMed Central

Blau, David M.

2017-01-01

The science and engineering workforce has aged rapidly in recent years, both in absolute terms and relative to the workforce as a whole. This is a potential concern if the large number of older scientists crowds out younger scientists, making it difficult for them to establish independent careers. In addition, scientists are believed to be most creative earlier in their careers, so the aging of the workforce may slow the pace of scientific progress. We develop and simulate a demographic model, which shows that a substantial majority of recent aging is a result of the aging of the large baby boom cohort of scientists. However, changes in behavior have also played a significant role, in particular, a decline in the retirement rate of older scientists, induced in part by the elimination of mandatory retirement in universities in 1994. Furthermore, the age distribution of the scientific workforce is still adjusting. Current retirement rates and other determinants of employment in science imply a steady-state mean age 2.3 y higher than the 2008 level of 48.6. PMID:28348239

The Deep End of the Pool: Strategy, Skills and Priorities for Climate Communication

NASA Astrophysics Data System (ADS)

Moffitt, S. E.

2015-12-01

In the complex public landscape of climate science, scientists are tasked with the roles of communicator, entrepreneur, media strategist, and moral compass. These novel identities may or may not be welcome by individual scientists, however they clearly push the broader scientific community out of an established cultural role and into new and novel paradigms. For the individual scientist, an effective way to mitigate the risks and maximize the benefits of speaking about climate science in public arenas is to front-load the work of communication strategizing. Scientists can build their own roadmaps for how they will talk about both their own narrow field of study and the broad field of climate change. The workload generated by this includes prioritizing science communication training events, especially in the early career timeframe, building a suite of social media and entrepreneurial skills, and delineating personal boundaries of advocacy, objectivity, and morality. The use of such a framework for planning cycles of publication and media engagement may support risk adverse scientists to come forward in public settings.

The Role of Prototype Matching in Science Pursuits: Perceptions of Scientists That Are Inaccurate and Diverge From Self-Perceptions Predict Reduced Interest in a Science Career.

PubMed

McPherson, Erin; Park, Bernadette; Ito, Tiffany A

2018-06-01

Self-to-prototype matching is a strategy of mental comparisons between the self-concept and the typical or "representative" member of a group to make some judgment. Such a process might contribute to interest in pursuing a science career and, relatedly, women's underrepresentation in physical science, technology, engineering, and mathematics (pSTEM) fields. Across four studies, we measured self-scientist discrepancies on communal, agentic, and scientific dimensions, and assessed participants' interest in a science career. The most consistent predictor of science interest was the discrepancy between self and scientist on the scientific dimension (e.g., intelligent, meticulous). Study 4 established that students with larger self-scientist discrepancies also had less accurate perceptions of students pursuing science, and that inaccuracy was related to lower science interest. Thus, students with lower science interest do not just perceive scientists differently from themselves but also erroneously. Discrepancy and inaccuracy together explained a significant portion of the gender gap in pSTEM interest.

Web site lets solar scientists inform and inspire students

NASA Astrophysics Data System (ADS)

Hauck, Karin

2012-07-01

Where on the Web can a middle school girl ask a female solar scientist about solar storms, the course and behavior of charged solar particles, and the origin of the Sun's dynamo—and also find out what the scientist was like as a child, whether the scientist has tattoos or enjoys snowboarding, what she likes and dislikes about her career, and how she balances her energy for work and family life? These kinds of exchanges happen at Solar Week (http://www.solarweek.org; see Figure 1). Established in 2000, Solar Week is an online resource for middle and lower high school students about the science of the Sun, sponsored by the Center for Science Education at the Space Sciences Laboratory (CSE@SSL) at the University of California, Berkeley (UC Berkeley). The Web site's goals are to educate students about the Sun and solar physics and to encourage future careers in science—especially for girls. One way is by giving solar scientists the chance to be relatable role models, to answer students' questions, and to share their experiences in an online forum.

Centralized Oversight of Physician–Scientist Faculty Development at Vanderbilt: Early Outcomes

PubMed Central

Brown, Abigail M.; Morrow, Jason D.; Limbird, Lee E.; Byrne, Daniel W.; Gabbe, Steven G.; Balser, Jeffrey R.; Brown, Nancy J.

2013-01-01

Purpose In 2000, faced with a national concern over the decreasing number of physician–scientists, Vanderbilt School of Medicine established the institutionally funded Vanderbilt Physician–Scientist Development (VPSD) program to provide centralized oversight and financial support for physician–scientist career development. In 2002, Vanderbilt developed the National Institutes of Health (NIH)-funded Vanderbilt Clinical Research Scholars (VCRS) program using a similar model of centralized oversight. The authors evaluate the impact of the VPSD and VCRS programs on early career outcomes of physician–scientists. Method Physician–scientists who entered the VPSD or VCRS programs from 2000 through 2006 were compared with Vanderbilt physician–scientists who received NIH career development funding during the same period without participating in the VPSD or VCRS programs. Results Seventy-five percent of VPSD and 60% of VCRS participants achieved individual career award funding at a younger age than the comparison cohort. This shift to career development award funding at a younger age among VPSD and VCRS scholars was accompanied by a 2.6-fold increase in the number of new K awards funded and a rate of growth in K-award dollars at Vanderbilt that outpaced the national rate of growth in K-award funding. Conclusions Analysis of the early outcomes of the VPSD and VCRS programs suggests that centralized oversight can catalyze growth in the number of funded physician–scientists at an institution. Investment in this model of career development for physician–scientists may have had an additive effect on the recruitment and retention of talented trainees and junior faculty. PMID:18820531

Impact of a Scientist-Teacher Collaborative Model on Students, Teachers, and Scientists

NASA Astrophysics Data System (ADS)

Shein, Paichi Pat; Tsai, Chun-Yen

2015-09-01

Collaborations between the K-12 teachers and higher education or professional scientists have become a widespread approach to science education reform. Educational funding and efforts have been invested to establish these cross-institutional collaborations in many countries. Since 2006, Taiwan initiated the High Scope Program, a high school science curriculum reform to promote scientific innovation and inquiry through an integration of advanced science and technology in high school science curricula through partnership between high school teachers and higher education scientists and science educators. This study, as part of this governmental effort, a scientist-teacher collaborative model (STCM) was constructed by 8 scientists and 4 teachers to drive an 18-week high school science curriculum reform on environmental education in a public high school. Partnerships between scientists and teachers offer opportunities to strengthen the elements of effective science teaching identified by Shulman and ultimately affect students' learning. Mixed methods research was used for this study. Qualitative methods of interviews were used to understand the impact on the teachers' and scientists' science teaching. A quasi-experimental design was used to understand the impact on students' scientific competency and scientific interest. The findings in this study suggest that the use of the STCM had a medium effect on students' scientific competency and a large effect on students' scientific individual and situational interests. In the interviews, the teachers indicated how the STCM allowed them to improve their content knowledge and pedagogical content knowledge (PCK), and the scientists indicated an increased knowledge of learners, knowledge of curriculum, and PCK.

What can scientific practice look like in a classroom? Insights from scientists' critique of high school students' climate change argumentation practice

NASA Astrophysics Data System (ADS)

Walsh, E.; McGowan, V. C.

2015-12-01

The Next Generation Science Standards promote a vision in which learners engage in authentic knowledge in practice to tackle personally consequential science problems in the classroom. However, there is not yet a clear understanding amongst researchers and educators of what authentic practice looks like in a classroom and how this can be accomplished. This study explores these questions by examining interactions between scientists and students on a social media platform during two pilot enactments of a project-based curriculum focusing on the ecological impacts of climate change. During this unit, scientists provided feedback to students on infographics, visual representations of scientific information meant to communicate to an audience about climate change. We conceptualize the feedback and student work as boundary objects co-created by students and scientists moving between the school and scientific contexts, and analyze the structure and content of the scientists' feedback. We find that when giving feedback on a particular practice (e.g. argumentation), scientists would provide avenues, critiques and questions that incorporated many other practices (e.g. data analysis, visual communication); thus, scientists encouraged students to participate systemically in practices instead of isolating one particular practice. In addition, scientists drew attention to particular habits of mind that are valued in the scientific community and noted when students' work aligned with scientific values. In this way, scientists positioned students as capable of participating "scientifically." While traditionally, incorporating scientific inquiry in a classroom has emphasized student experimentation and data generation, in this work, we found that engaging with scientists around established scientific texts and data sets provided students with a platform for developing expertise in other important scientific practices during argment construction.

International anthropometric study of facial morphology in various ethnic groups/races.

PubMed

Farkas, Leslie G; Katic, Marko J; Forrest, Christopher R; Alt, Kurt W; Bagic, Ivana; Baltadjiev, Georgi; Cunha, Eugenia; Cvicelová, Marta; Davies, Scott; Erasmus, Ilse; Gillett-Netting, Rhonda; Hajnis, Karel; Kemkes-Grottenthaler, Arianne; Khomyakova, Irena; Kumi, Ashizava; Kgamphe, J Stranger; Kayo-daigo, Nakamura; Le, Thuy; Malinowski, Andrzej; Negasheva, Marina; Manolis, Sotiris; Ogetürk, Murat; Parvizrad, Ramin; Rösing, Friedrich; Sahu, Paresh; Sforza, Chiarella; Sivkov, Stefan; Sultanova, Nigar; Tomazo-Ravnik, Tatjana; Tóth, Gábor; Uzun, Ahmet; Yahia, Eman

2005-07-01

When anthropometric methods were introduced into clinical practice to quantify changes in the craniofacial framework, features distinguishing various races/ethnic groups were discovered. To treat congenital or post-traumatic facial disfigurements in members of these groups successfully, surgeons require access to craniofacial databases based on accurate anthropometric measurements. Normative data of facial measurements are indispensable to precise determination of the degree of deviations from the normal. The set of anthropometric measurements of the face in the population studied was gathered by an international team of scientists. Investigators in the country of the given ethnic group, experienced and/or specially trained in anthropometric methods, carried out the measurements. The normal range in each resultant database was then established, providing valuable information about major facial characteristics. Comparison of the ethnic groups' databases with the established norms of the North America whites (NAW) offered the most suitable way to select a method for successful treatment. The study group consisted of 1470 healthy subjects (18 to 30 years), 750 males and 720 females. The largest group (780 subjects, 53.1%) came from Europe, all of them Caucasians. Three were drawn from the Middle-East (180 subjects, 12.2%), five from Asia (300 subjects, 20.4%) and four from peoples of African origin (210 subjects, 14.3%). Their morphological characteristics were determined by 14 anthropometric measurements, 10 of them used already by classic facial artists, Leonardo da Vinci and Albrecht Dürer, complemented by four measurements from the nasal, labio-oral and ear regions. In the regions with single measurements, identical values to NAW in forehead height, mouth width, and ear height were found in 99.7% in both sexes, while in those with multiple measurements, vertical measurements revealed a higher frequency of identical values than horizontal ones. The orbital regions exhibited the greatest variations in identical and contrasting measurements in comparison to NAW. Nose heights and widths contrasted sharply: in relation to NAW the nose was very or extremely significantly wide in both sexes of Asian and Black ethnic groups. Among Caucasians, nose height significantly differed from NAW in three ethnic groups, with one shorter and two greater. In the Middle Eastern groups nose width was identical to those of NAW but the height was significantly greater. The present study, conducted by investigators working separately across the world and with small samples of the population, is clearly preliminary in nature and extent. Yet it may fulfill its mission if medical and anthropological investigators continue the work of establishing normative data of the face. These data are urgently needed by medical professionals but have been lacking up till now in western and northern Europe, Asia, and Africa.

CosmoQuest: A Glance at Citizen Science Building

NASA Astrophysics Data System (ADS)

Richardson, Matthew; Grier, Jennifer; Gay, Pamela; Lehan, Cory; Buxner, Sanlyn; CosmoQuest Team

2018-01-01

CosmoQuest is a virtual research facility focused on engaging people - citizen scientists - from across the world in authentic research projects designed to enhance our knowledge of the cosmos around us. Using image data acquired by NASA missions, our citizen scientists are first trained to identify specific features within the data and then requested to identify those features across large datasets. Responses submitted by the citizen scientists are then stored in our database where they await for analysis and eventual publication by CosmoQuest staff and collaborating professional research scientists.While it is clear that the driving power behind our projects are the eyes and minds of our citizen scientists, it is CosmoQuest’s custom software, Citizen Science Builder (CSB), that enables citizen science to be accomplished. On the front end, CosmoQuest’s CSB software allows for the creation of web-interfaces that users can access to perform image annotation through both drawing tools and questions that can accompany images. These tools include: using geometric shapes to identify regions within an image, tracing image attributes using freeform line tools, and flagging features within images. Additionally, checkboxes, dropdowns, and free response boxes may be used to collect information. On the back end, this software is responsible for the proper storage of all data, which allows project staff to perform periodic data quality checks and track the progress of each project. In this poster we present these available tools and resources and seek potential collaborations.

The BIRN Project: Imaging the Nervous System

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

Ellisman, Mark

The grand goal in neuroscience research is to understand how the interplay of structural, chemical and electrical signals in nervous tissue gives rise to behavior. Experimental advances of the past decades have given the individual neuroscientist an increasingly powerful arsenal for obtaining data, from the level of molecules to nervous systems. Scientists have begun the arduous and challenging process of adapting and assembling neuroscience data at all scales of resolution and across disciplines into computerized databases and other easily accessed sources. These databases will complement the vast structural and sequence databases created to catalogue, organize and analyze gene sequences andmore » protein products. The general premise of the neuroscience goal is simple; namely that with "complete" knowledge of the genome and protein structures accruing rapidly we next need to assemble an infrastructure that will facilitate acquisition of an understanding for how functional complexes operate in their cell and tissue contexts.« less

The BIRN Project: Imaging the Nervous System

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

Ellisman, Mark

The grand goal in neuroscience research is to understand how the interplay of structural, chemical and electrical signals in nervous tissue gives rise to behavior. Experimental advances of the past decades have given the individual neuroscientist an increasingly powerful arsenal for obtaining data, from the level of molecules to nervous systems. Scientists have begun the arduous and challenging process of adapting and assembling neuroscience data at all scales of resolution and across disciplines into computerized databases and other easily accessed sources. These databases will complement the vast structural and sequence databases created to catalogue, organize and analyze gene sequences andmore » protein products. The general premise of the neuroscience goal is simple; namely that with 'complete' knowledge of the genome and protein structures accruing rapidly we next need to assemble an infrastructure that will facilitate acquisition of an understanding for how functional complexes operate in their cell and tissue contexts.« less

IAEA Nuclear Data Section: provision of atomic and nuclear databases for user applications.

PubMed

Humbert, Denis P; Nichols, Alan L; Schwerer, Otto

2004-01-01

The Nuclear Data Section (NDS) of the International Atomic Energy Agency (IAEA) provides a wide range of atomic and nuclear data services to scientists worldwide, with particular emphasis placed on the needs of developing countries. Highly focused Co-ordinated Research Projects and multinational data networks are sponsored under the auspices of the IAEA for the development and assembly of databases through the organised participation of specialists from Member States. More than 100 data libraries are readily available cost-free through the Internet, CD-ROM and other media. These databases are used in a wide range of applications, including fission- and fusion-energy, non-energy applications and basic research studies. Further information concerning the various services can be found through the web address of the IAEA Nuclear Data Section: and a mirror site at IPEN, Brazil that is maintained by NDS staff:.

[Sixty years of HeLa cell cultures].

PubMed

Gilgenkrantz, Simone

2014-01-01

HeLa cells line was established in 1951 from cervical cancer cells taken from a young AfroAmerican patient, Henrietta Lacks, used without the permission of the family. Finally, in 2013, an agreement was established between the family and NIH: for any study, authorization is needed, first referred to a working group comprising scientists, ethicists and two members of the family.

Searching the Heavens and the Earth: This History of Jesuit Observatories

NASA Astrophysics Data System (ADS)

Udías, Agustín

2003-10-01

Jesuits established a large number of astronomical, geophysical and meteorological observatories during the 17th and 18th centuries and again during the 19th and 20th centuries throughout the world. The history of these observatories has never been published in a complete form. Many early European astronomical observatories were established in Jesuit colleges. During the 17th and 18th centuries Jesuits were the first western scientists to enter into contact with China and India. It was through them that western astronomy was first introduced in these countries. They made early astronomical observations in India and China and they directed for 150 years the Imperial Observatory of Beijing. In the 19th and 20th centuries a new set of observatories were established. Besides astronomy these now included meteorology and geophysics. Jesuits established some of the earliest observatories in Africa, South America and the Far East. Jesuit observatories constitute an often forgotten chapter of the history of these sciences. This volume is aimed at all scientists and students who do not want to forget the Jesuit contributions to science. Link: http://www.wkap.nl/prod/b/1-4020-1189-X

Configuration management program plan for Hanford site systems engineering

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

Kellie, C.L.

This plan establishes the integrated management program for the evolving technical baseline developed through the systems engineering process. This configuration management program aligns with the criteria identified in the DOE Standard, DOE-STD-1073-93. Included are specific requirements for control of the systems engineering RDD-100 database, and electronic data incorporated in the database that establishes the Hanford Site Technical Baseline.

Making the MagIC (Magnetics Information Consortium) Web Application Accessible to New Users and Useful to Experts

NASA Astrophysics Data System (ADS)

Minnett, R.; Koppers, A.; Jarboe, N.; Tauxe, L.; Constable, C.; Jonestrask, L.

2017-12-01

Challenges are faced by both new and experienced users interested in contributing their data to community repositories, in data discovery, or engaged in potentially transformative science. The Magnetics Information Consortium (https://earthref.org/MagIC) has recently simplified its data model and developed a new containerized web application to reduce the friction in contributing, exploring, and combining valuable and complex datasets for the paleo-, geo-, and rock magnetic scientific community. The new data model more closely reflects the hierarchical workflow in paleomagnetic experiments to enable adequate annotation of scientific results and ensure reproducibility. The new open-source (https://github.com/earthref/MagIC) application includes an upload tool that is integrated with the data model to provide early data validation feedback and ease the friction of contributing and updating datasets. The search interface provides a powerful full text search of contributions indexed by ElasticSearch and a wide array of filters, including specific geographic and geological timescale filtering, to support both novice users exploring the database and experts interested in compiling new datasets with specific criteria across thousands of studies and millions of measurements. The datasets are not large, but they are complex, with many results from evolving experimental and analytical approaches. These data are also extremely valuable due to the cost in collecting or creating physical samples and the, often, destructive nature of the experiments. MagIC is heavily invested in encouraging young scientists as well as established labs to cultivate workflows that facilitate contributing their data in a consistent format. This eLightning presentation includes a live demonstration of the MagIC web application, developed as a configurable container hosting an isomorphic Meteor JavaScript application, MongoDB database, and ElasticSearch search engine. Visitors can explore the MagIC Database through maps and image or plot galleries or search and filter the raw measurements and their derived hierarchy of analytical interpretations.

Generation and validation of a universal perinatal database and biospecimen repository: PeriBank.

PubMed

Antony, K M; Hemarajata, P; Chen, J; Morris, J; Cook, C; Masalas, D; Gedminas, M; Brown, A; Versalovic, J; Aagaard, K

2016-11-01

There is a dearth of biospecimen repositories available to perinatal researchers. In order to address this need, here we describe the methodology used to establish such a resource. With the collaboration of MedSci.net, we generated an online perinatal database with 847 fields of clinical information. Simultaneously, we established a biospecimen repository of the same clinical participants. The demographic and clinical outcomes data are described for the first 10 000 participants enrolled. The demographic characteristics are consistent with the demographics of the delivery hospitals. Quality analysis of the biospecimens reveals variation in very few analytes. Furthermore, since the creation of PeriBank, we have demonstrated validity of the database and tissue integrity of the biospecimen repository. Here we establish that the creation of a universal perinatal database and biospecimen collection is not only possible, but allows for the performance of state-of-the-science translational perinatal research and is a potentially valuable resource to academic perinatal researchers.

The AMMA information system

NASA Astrophysics Data System (ADS)

Brissebrat, Guillaume; Fleury, Laurence; Boichard, Jean-Luc; Cloché, Sophie; Eymard, Laurence; Mastrorillo, Laurence; Moulaye, Oumarou; Ramage, Karim; Asencio, Nicole; Favot, Florence; Roussot, Odile

2013-04-01

The AMMA information system aims at expediting data and scientific results communication inside the AMMA community and beyond. It has already been adopted as the data management system by several projects and is meant to become a reference information system about West Africa area for the whole scientific community. The AMMA database and the associated on line tools have been developed and are managed by two French teams (IPSL Database Centre, Palaiseau and OMP Data Service, Toulouse). The complete system has been fully duplicated and is operated by AGRHYMET Regional Centre in Niamey, Niger. The AMMA database contains a wide variety of datasets: - about 250 local observation datasets, that cover geophysical components (atmosphere, ocean, soil, vegetation) and human activities (agronomy, health...) They come from either operational networks or scientific experiments, and include historical data in West Africa from 1850; - 1350 outputs of a socio-economics questionnaire; - 60 operational satellite products and several research products; - 10 output sets of meteorological and ocean operational models and 15 of research simulations. Database users can access all the data using either the portal http://database.amma-international.org or http://amma.agrhymet.ne/amma-data. Different modules are available. The complete catalogue enables to access metadata (i.e. information about the datasets) that are compliant with the international standards (ISO19115, INSPIRE...). Registration pages enable to read and sign the data and publication policy, and to apply for a user database account. The data access interface enables to easily build a data extraction request by selecting various criteria like location, time, parameters... At present, the AMMA database counts more than 740 registered users and process about 80 data requests every month In order to monitor day-to-day meteorological and environment information over West Africa, some quick look and report display websites have been developed. They met the operational needs for the observational teams during the AMMA 2006 (http://aoc.amma-international.org) and FENNEC 2011 (http://fenoc.sedoo.fr) campaigns. But they also enable scientific teams to share physical indices along the monsoon season (http://misva.sedoo.fr from 2011). A collaborative WIKINDX tool has been set on line in order to manage scientific publications and communications of interest to AMMA (http://biblio.amma-international.org). Now the bibliographic database counts about 1200 references. It is the most exhaustive document collection about African Monsoon available for all. Every scientist is invited to make use of the different AMMA on line tools and data. Scientists or project leaders who have data management needs for existing or future datasets over West Africa are welcome to use the AMMA database framework and to contact ammaAdmin@sedoo.fr .

The ChArMEx database

NASA Astrophysics Data System (ADS)

Ferré, Helene; Belmahfoud, Nizar; Boichard, Jean-Luc; Brissebrat, Guillaume; Descloitres, Jacques; Fleury, Laurence; Focsa, Loredana; Henriot, Nicolas; Mastrorillo, Laurence; Mière, Arnaud; Vermeulen, Anne

2014-05-01

The Chemistry-Aerosol Mediterranean Experiment (ChArMEx, http://charmex.lsce.ipsl.fr/) aims at a scientific assessment of the present and future state of the atmospheric environment in the Mediterranean Basin, and of its impacts on the regional climate, air quality, and marine biogeochemistry. The project includes long term monitoring of environmental parameters, intensive field campaigns, use of satellite data and modelling studies. Therefore ChARMEx scientists produce and need to access a wide diversity of data. In this context, the objective of the database task is to organize data management, distribution system and services, such as facilitating the exchange of information and stimulating the collaboration between researchers within the ChArMEx community, and beyond. The database relies on a strong collaboration between OMP and ICARE data centres and has been set up in the framework of the Mediterranean Integrated Studies at Regional And Locals Scales (MISTRALS) program data portal. All the data produced by or of interest for the ChArMEx community will be documented in the data catalogue and accessible through the database website: http://mistrals.sedoo.fr/ChArMEx. At present, the ChArMEx database contains about 75 datasets, including 50 in situ datasets (2012 and 2013 campaigns, Ersa background monitoring station), 25 model outputs (dust model intercomparison, MEDCORDEX scenarios), and a high resolution emission inventory over the Mediterranean. Many in situ datasets have been inserted in a relational database, in order to enable more accurate data selection and download of different datasets in a shared format. The database website offers different tools: - A registration procedure which enables any scientist to accept the data policy and apply for a user database account. - A data catalogue that complies with metadata international standards (ISO 19115-19139; INSPIRE European Directive; Global Change Master Directory Thesaurus). - Metadata forms to document observations or products that will be provided to the database. - A search tool to browse the catalogue using thematic, geographic and/or temporal criteria. - A shopping-cart web interface to order in situ data files. - A web interface to select and access to homogenized datasets. Interoperability between the two data centres is being set up using the OPEnDAP protocol. The data portal will soon propose a user-friendly access to satellite products managed by the ICARE data centre (SEVIRI, TRIMM, PARASOL...). In order to meet the operational needs of the airborne and ground based observational teams during the ChArMEx 2012 and 2013 campaigns, a day-to-day chart and report display website has been developed too: http://choc.sedoo.org. It offers a convenient way to browse weather conditions and chemical composition during the campaign periods.

The hospital and the hospital: Infrastructure, human tissue, labour and the scientific production of relational value.

PubMed

Street, Alice

2016-12-01

How does science make a home for itself in a public hospital? This article explores how scientists working in 'resource poor' contexts of global health negotiate relationships with their hosts, in this case the doctors, nurses and patients who already inhabit a provincial-level hospital. Taking its lead from recent works on science, ethics and development, this article seeks to 'provincialize the laboratory' by focussing on the scientific tropics as a space of productive encounter and engagement. A view from the hospital reveals the tenuous process of 'setting up' a place for science, in a world that does not immediately recognize its value. The article examines the material exchanges of infrastructure, bodily tissues and labour that enable one young scientist to establish a scientific life for himself. The success of those transactions, it argues, ultimately derives from their objectification of scientific vulnerability and their enactment of relationships of mutual recognition. As opposed to asking how scientific knowledge is produced in the tropics, the view from the hospital challenges us to focus on the establishment of relationships between scientists and their hosts as a productive endeavour in its own right.

Improving usability and accessibility of cheminformatics tools for chemists through cyberinfrastructure and education.

PubMed

Guha, Rajarshi; Wiggins, Gary D; Wild, David J; Baik, Mu-Hyun; Pierce And, Marlon E; Fox, Geoffrey C

Some of the latest trends in cheminformatics, computation, and the world wide web are reviewed with predictions of how these are likely to impact the field of cheminformatics in the next five years. The vision and some of the work of the Chemical Informatics and Cyberinfrastructure Collaboratory at Indiana University are described, which we base around the core concepts of e-Science and cyberinfrastructure that have proven successful in other fields. Our chemical informatics cyberinfrastructure is realized by building a flexible, generic infrastructure for cheminformatics tools and databases, exporting "best of breed" methods as easily-accessible web APIs for cheminformaticians, scientists, and researchers in other disciplines, and hosting a unique chemical informatics education program aimed at scientists and cheminformatics practitioners in academia and industry.

NASA's MERBoard: An Interactive Collaborative Workspace Platform. Chapter 4

NASA Technical Reports Server (NTRS)

Trimble, Jay; Wales, Roxana; Gossweiler, Rich

2003-01-01

This chapter describes the ongoing process by which a multidisciplinary group at NASA's Ames Research Center is designing and implementing a large interactive work surface called the MERBoard Collaborative Workspace. A MERBoard system involves several distributed, large, touch-enabled, plasma display systems with custom MERBoard software. A centralized server and database back the system. We are continually tuning MERBoard to support over two hundred scientists and engineers during the surface operations of the Mars Exploration Rover Missions. These scientists and engineers come from various disciplines and are working both in small and large groups over a span of space and time. We describe the multidisciplinary, human-centered process by which this h4ERBoard system is being designed, the usage patterns and social interactions that we have observed, and issues we are currently facing.

Wikidata as a semantic framework for the Gene Wiki initiative.

PubMed

Burgstaller-Muehlbacher, Sebastian; Waagmeester, Andra; Mitraka, Elvira; Turner, Julia; Putman, Tim; Leong, Justin; Naik, Chinmay; Pavlidis, Paul; Schriml, Lynn; Good, Benjamin M; Su, Andrew I

2016-01-01

Open biological data are distributed over many resources making them challenging to integrate, to update and to disseminate quickly. Wikidata is a growing, open community database which can serve this purpose and also provides tight integration with Wikipedia. In order to improve the state of biological data, facilitate data management and dissemination, we imported all human and mouse genes, and all human and mouse proteins into Wikidata. In total, 59,721 human genes and 73,355 mouse genes have been imported from NCBI and 27,306 human proteins and 16,728 mouse proteins have been imported from the Swissprot subset of UniProt. As Wikidata is open and can be edited by anybody, our corpus of imported data serves as the starting point for integration of further data by scientists, the Wikidata community and citizen scientists alike. The first use case for these data is to populate Wikipedia Gene Wiki infoboxes directly from Wikidata with the data integrated above. This enables immediate updates of the Gene Wiki infoboxes as soon as the data in Wikidata are modified. Although Gene Wiki pages are currently only on the English language version of Wikipedia, the multilingual nature of Wikidata allows for usage of the data we imported in all 280 different language Wikipedias. Apart from the Gene Wiki infobox use case, a SPARQL endpoint and exporting functionality to several standard formats (e.g. JSON, XML) enable use of the data by scientists. In summary, we created a fully open and extensible data resource for human and mouse molecular biology and biochemistry data. This resource enriches all the Wikipedias with structured information and serves as a new linking hub for the biological semantic web. Database URL: https://www.wikidata.org/. © The Author(s) 2016. Published by Oxford University Press.

Computer analysis of digital sky surveys using citizen science and manual classification

NASA Astrophysics Data System (ADS)

Kuminski, Evan; Shamir, Lior

2015-01-01

As current and future digital sky surveys such as SDSS, LSST, DES, Pan-STARRS and Gaia create increasingly massive databases containing millions of galaxies, there is a growing need to be able to efficiently analyze these data. An effective way to do this is through manual analysis, however, this may be insufficient considering the extremely vast pipelines of astronomical images generated by the present and future surveys. Some efforts have been made to use citizen science to classify galaxies by their morphology on a larger scale than individual or small groups of scientists can. While these citizen science efforts such as Zooniverse have helped obtain reasonably accurate morphological information about large numbers of galaxies, they cannot scale to provide complete analysis of billions of galaxy images that will be collected by future ventures such as LSST. Since current forms of manual classification cannot scale to the masses of data collected by digital sky surveys, it is clear that in order to keep up with the growing databases some form of automation of the data analysis will be required, and will work either independently or in combination with human analysis such as citizen science. Here we describe a computer vision method that can automatically analyze galaxy images and deduce galaxy morphology. Experiments using Galaxy Zoo 2 data show that the performance of the method increases as the degree of agreement between the citizen scientists gets higher, providing a cleaner dataset. For several morphological features, such as the spirality of the galaxy, the algorithm agreed with the citizen scientists on around 95% of the samples. However, the method failed to analyze some of the morphological features such as the number of spiral arms, and provided accuracy of just ~36%.

75 FR 49489 - Establishment of a New System of Records for Personal Information Collected by the Environmental...

Federal Register 2010, 2011, 2012, 2013, 2014

2010-08-13

... information. Access to any such database system is limited to system administrators, individuals responsible... during the certification process. The above information will be contained in one or more databases (such as Lotus Notes) that reside on servers in EPA offices. The database(s) may be specific to one...

Estimates of the continuously publishing core in the scientific workforce.

PubMed

Ioannidis, John P A; Boyack, Kevin W; Klavans, Richard

2014-01-01

The ability of a scientist to maintain a continuous stream of publication may be important, because research requires continuity of effort. However, there is no data on what proportion of scientists manages to publish each and every year over long periods of time. Using the entire Scopus database, we estimated that there are 15,153,100 publishing scientists (distinct author identifiers) in the period 1996-2011. However, only 150,608 (<1%) of them have published something in each and every year in this 16-year period (uninterrupted, continuous presence [UCP] in the literature). This small core of scientists with UCP are far more cited than others, and they account for 41.7% of all papers in the same period and 87.1% of all papers with >1000 citations in the same period. Skipping even a single year substantially affected the average citation impact. We also studied the birth and death dynamics of membership in this influential UCP core, by imputing and estimating UCP-births and UCP-deaths. We estimated that 16,877 scientists would qualify for UCP-birth in 1997 (no publication in 1996, UCP in 1997-2012) and 9,673 scientists had their UCP-death in 2010. The relative representation of authors with UCP was enriched in Medical Research, in the academic sector and in Europe/North America, while the relative representation of authors without UCP was enriched in the Social Sciences and Humanities, in industry, and in other continents. The proportion of the scientific workforce that maintains a continuous uninterrupted stream of publications each and every year over many years is very limited, but it accounts for the lion's share of researchers with high citation impact. This finding may have implications for the structure, stability and vulnerability of the scientific workforce.

MS PHD'S: A Synergistic Model for Diversifying the Earth Science Community

NASA Astrophysics Data System (ADS)

Ricciardi, L.; Johnson, A.; Williamson Whitney, V.; Ithier-Guzman, W.; Braxton, L.; Johnson, A.

2013-05-01

The Minorities Striving and Pursuing Higher Degrees of Success in Earth System Science (MS PHD'S) program focuses on increasing the number of underrepresented minorities (URM) receiving advanced degrees in Earth system sciences (ESS). Subscribing to Aristotle's philosophy that the "whole is greater than the sum of its parts", MS PHD'S uses a synergistic model of tiered mentoring practices, successful minority scientist role models, peer-to-peer community building activities, professional development training techniques, networking opportunities, and state of the art virtual communication tools to facilitate the retention and advancement of underrepresented ESS scientists. Using a three-phase program structure supported by a virtual community, URM students in ESS are afforded opportunities to establish mentoring relationships with successful scientists, build meaningful ties with URM peers and future colleagues, strengthen oral and written communication skills, engage in networking opportunities within premier scientific venues, and maintain continuity of networks formed through program participation. Established in 2003, MS PHD'S is now in its ninth cohort. From the original cohort of 24 participants, the program has grown to support 213 participants. Of these 213 participants, 42 have obtained the doctorate and are employed within the ESS workforce. Another 71 are enrolled in doctoral programs. Looking to the future with the purpose of continually furthering its synergistic philosophy, MS PHD'S has developed a new initiative, Beyond the PhD, designed to support and advance the representation of URM scientists within a global workforce.

Just a little bit more: when sports scientists cross the line.

PubMed

Fox, Tyler

2014-06-01

Sports science has attracted controversy for the role it plays in an athlete's career and health, but Australian jurisprudence lacks any discussion of their criminal and civil liability when athletes suffer personal or professional harm. This article explores how liability may attach to both sports doctors and sports scientists in the future based on principles from current case law. It finds that criminal and civil liability attaching to personal harm could be proven, provided that consent to the risks or the treatment has not been given. Establishing professional harm caused by negligent advice regarding whether a substance does not comply with the World Anti-Doping Code is arguable considering the athlete's vulnerability to be exposed to sanctions. Expert evidence regarding what, and how a substance, is taken will be crucial to establishing causation in manslaughter prosecutions.

Georg Neumayer and Melbourne Observatory: an institutional legacy

NASA Astrophysics Data System (ADS)

Gillespie, Richard

This paper assesses Georg Neumayer's impact on the Victorian scientific community, and especially his role in the establishment of Melbourne Observatory as a major scientific institution in colonial Australia. Neumayer's arrival in Melbourne to pursue his own scientific project triggered a chain of events that would lead to the creation of Melbourne Observatory and the integration of Neumayer's geomagnetic and meteorological research into the ongoing program of the observatory. The location of the observatory in South Yarra was a direct result of Neumayer's insistence that the site was the most suitable for geomagnetic measurement. Most critically, Neumayer's attempts to get approval for his project highlighted the need for local scientists to establish political and scientific alliances that would ensure endorsement by international, notably British, scientists, and that would persuade local elites and government of the practical value of their research.

LIPS database with LIPService: a microscopic image database of intracellular structures in Arabidopsis guard cells.

PubMed

Higaki, Takumi; Kutsuna, Natsumaro; Hasezawa, Seiichiro

2013-05-16

Intracellular configuration is an important feature of cell status. Recent advances in microscopic imaging techniques allow us to easily obtain a large number of microscopic images of intracellular structures. In this circumstance, automated microscopic image recognition techniques are of extreme importance to future phenomics/visible screening approaches. However, there was no benchmark microscopic image dataset for intracellular organelles in a specified plant cell type. We previously established the Live Images of Plant Stomata (LIPS) database, a publicly available collection of optical-section images of various intracellular structures of plant guard cells, as a model system of environmental signal perception and transduction. Here we report recent updates to the LIPS database and the establishment of a database table, LIPService. We updated the LIPS dataset and established a new interface named LIPService to promote efficient inspection of intracellular structure configurations. Cell nuclei, microtubules, actin microfilaments, mitochondria, chloroplasts, endoplasmic reticulum, peroxisomes, endosomes, Golgi bodies, and vacuoles can be filtered using probe names or morphometric parameters such as stomatal aperture. In addition to the serial optical sectional images of the original LIPS database, new volume-rendering data for easy web browsing of three-dimensional intracellular structures have been released to allow easy inspection of their configurations or relationships with cell status/morphology. We also demonstrated the utility of the new LIPS image database for automated organelle recognition of images from another plant cell image database with image clustering analyses. The updated LIPS database provides a benchmark image dataset for representative intracellular structures in Arabidopsis guard cells. The newly released LIPService allows users to inspect the relationship between organellar three-dimensional configurations and morphometrical parameters.

[Quality management and participation into clinical database].

PubMed

Okubo, Suguru; Miyata, Hiroaki; Tomotaki, Ai; Motomura, Noboru; Murakami, Arata; Ono, Minoru; Iwanaka, Tadashi

2013-07-01

Quality management is necessary for establishing useful clinical database in cooperation with healthcare professionals and facilities. The ways of management are 1) progress management of data entry, 2) liaison with database participants (healthcare professionals), and 3) modification of data collection form. In addition, healthcare facilities are supposed to consider ethical issues and information security for joining clinical databases. Database participants should check ethical review boards and consultation service for patients.

Oceans of Data: In what ways can learning research inform the development of electronic interfaces and tools for use by students accessing large scientific databases?

NASA Astrophysics Data System (ADS)

Krumhansl, R. A.; Foster, J.; Peach, C. L.; Busey, A.; Baker, I.

2012-12-01

The practice of science and engineering is being revolutionized by the development of cyberinfrastructure for accessing near real-time and archived observatory data. Large cyberinfrastructure projects have the potential to transform the way science is taught in high school classrooms, making enormous quantities of scientific data available, giving students opportunities to analyze and draw conclusions from many kinds of complex data, and providing students with experiences using state-of-the-art resources and techniques for scientific investigations. However, online interfaces to scientific data are built by scientists for scientists, and their design can significantly impede broad use by novices. Knowledge relevant to the design of student interfaces to complex scientific databases is broadly dispersed among disciplines ranging from cognitive science to computer science and cartography and is not easily accessible to designers of educational interfaces. To inform efforts at bridging scientific cyberinfrastructure to the high school classroom, Education Development Center, Inc. and the Scripps Institution of Oceanography conducted an NSF-funded 2-year interdisciplinary review of literature and expert opinion pertinent to making interfaces to large scientific databases accessible to and usable by precollege learners and their teachers. Project findings are grounded in the fundamentals of Cognitive Load Theory, Visual Perception, Schemata formation and Universal Design for Learning. The Knowledge Status Report (KSR) presents cross-cutting and visualization-specific guidelines that highlight how interface design features can address/ ameliorate challenges novice high school students face as they navigate complex databases to find data, and construct and look for patterns in maps, graphs, animations and other data visualizations. The guidelines present ways to make scientific databases more broadly accessible by: 1) adjusting the cognitive load imposed by the user interface and visualizations so that it doesn't exceed the amount of information the learner can actively process; 2) drawing attention to important features and patterns; and 3) enabling customization of visualizations and tools to meet the needs of diverse learners.

Challenges and Experiences of Building Multidisciplinary Datasets across Cultures

NASA Astrophysics Data System (ADS)

Jamiyansharav, K.; Laituri, M.; Fernandez-Gimenez, M.; Fassnacht, S. R.; Venable, N. B. H.; Allegretti, A. M.; Reid, R.; Baival, B.; Jamsranjav, C.; Ulambayar, T.; Linn, S.; Angerer, J.

2017-12-01

Efficient data sharing and management are key challenges to multidisciplinary scientific research. These challenges are further complicated by adding a multicultural component. We address the construction of a complex database for social-ecological analysis in Mongolia. Funded by the National Science Foundation (NSF) Dynamics of Coupled Natural and Human (CNH) Systems, the Mongolian Rangelands and Resilience (MOR2) project focuses on the vulnerability of Mongolian pastoral systems to climate change and adaptive capacity. The MOR2 study spans over three years of fieldwork in 36 paired districts (Soum) from 18 provinces (Aimag) of Mongolia that covers steppe, mountain forest steppe, desert steppe and eastern steppe ecological zones. Our project team is composed of hydrologists, social scientists, geographers, and ecologists. The MOR2 database includes multiple ecological, social, meteorological, geospatial and hydrological datasets, as well as archives of original data and survey in multiple formats. Managing this complex database requires significant organizational skills, attention to detail and ability to communicate within collective team members from diverse disciplines and across multiple institutions in the US and Mongolia. We describe the database's rich content, organization, structure and complexity. We discuss lessons learned, best practices and recommendations for complex database management, sharing, and archiving in creating a cross-cultural and multi-disciplinary database.

Tox-Database.net: a curated resource for data describing chemical triggered in vitro cardiac ion channels inhibition

PubMed Central

2012-01-01

Background Drugs safety issues are now recognized as being factors generating the most reasons for drug withdrawals at various levels of development and at the post-approval stage. Among them cardiotoxicity remains the main reason, despite the substantial effort put into in vitro and in vivo testing, with the main focus put on hERG channel inhibition as the hypothesized surrogate of drug proarrhythmic potency. The large interest in the IKr current has resulted in the development of predictive tools and informative databases describing a drug's susceptibility to interactions with the hERG channel, although there are no similar, publicly available sets of data describing other ionic currents driven by the human cardiomyocyte ionic channels, which are recognized as an overlooked drug safety target. Discussion The aim of this database development and publication was to provide a scientifically useful, easily usable and clearly verifiable set of information describing not only IKr (hERG), but also other human cardiomyocyte specific ionic channels inhibition data (IKs, INa, ICa). Summary The broad range of data (chemical space and in vitro settings) and the easy to use user interface makes tox-database.net a useful tool for interested scientists. Database URL http://tox-database.net. PMID:22947121

Semantic-JSON: a lightweight web service interface for Semantic Web contents integrating multiple life science databases.

PubMed

Kobayashi, Norio; Ishii, Manabu; Takahashi, Satoshi; Mochizuki, Yoshiki; Matsushima, Akihiro; Toyoda, Tetsuro

2011-07-01

Global cloud frameworks for bioinformatics research databases become huge and heterogeneous; solutions face various diametric challenges comprising cross-integration, retrieval, security and openness. To address this, as of March 2011 organizations including RIKEN published 192 mammalian, plant and protein life sciences databases having 8.2 million data records, integrated as Linked Open or Private Data (LOD/LPD) using SciNetS.org, the Scientists' Networking System. The huge quantity of linked data this database integration framework covers is based on the Semantic Web, where researchers collaborate by managing metadata across public and private databases in a secured data space. This outstripped the data query capacity of existing interface tools like SPARQL. Actual research also requires specialized tools for data analysis using raw original data. To solve these challenges, in December 2009 we developed the lightweight Semantic-JSON interface to access each fragment of linked and raw life sciences data securely under the control of programming languages popularly used by bioinformaticians such as Perl and Ruby. Researchers successfully used the interface across 28 million semantic relationships for biological applications including genome design, sequence processing, inference over phenotype databases, full-text search indexing and human-readable contents like ontology and LOD tree viewers. Semantic-JSON services of SciNetS.org are provided at http://semanticjson.org.

Vision science literature of Nepal in the database "Web of Science".

PubMed

Risal, S; Prasad, H N

2012-01-01

Vision Science is considered to be a quite developed discipline in Nepal, with much research currently in progress. Though the results of these endeavors are published in scientific journals, formal citation analyses have not been performed on works contributed by Nepalese vision scientists. To study Nepal's contribution to vision science literature in the database "Web of Science". The primary data source of this paper was Web of Science, a citation database of Thomas Reuters. All bibliometric analyses were performed with the help of Web of Science analysis service. In the current database of vision science literature, Nepalese authors contributed 112 publications to Web of Science, 95 of which were original articles. Pokharel GP had the highest number of citations among contributing authors of Nepal. Hennig A contributed the highest number of article as a first author. The Nepal Eye Hospital contributed the highest number of articles as an institution to the field of Vision Science. Currently, only two journals from Nepal including Journal of Nepal Medical Association (JAMA) are indexed in the Web of Science database (Sieving, 2012). To evaluate the total productivity of vision science literature from Nepal, total publication counts from national journals and articles indexed in other databases such as PubMed and Scopus must also be considered. © NEPjOPH.

Comparison of locus-specific databases for BRCA1 and BRCA2 variants reveals disparity in variant classification within and among databases.

PubMed

Vail, Paris J; Morris, Brian; van Kan, Aric; Burdett, Brianna C; Moyes, Kelsey; Theisen, Aaron; Kerr, Iain D; Wenstrup, Richard J; Eggington, Julie M

2015-10-01

Genetic variants of uncertain clinical significance (VUSs) are a common outcome of clinical genetic testing. Locus-specific variant databases (LSDBs) have been established for numerous disease-associated genes as a research tool for the interpretation of genetic sequence variants to facilitate variant interpretation via aggregated data. If LSDBs are to be used for clinical practice, consistent and transparent criteria regarding the deposition and interpretation of variants are vital, as variant classifications are often used to make important and irreversible clinical decisions. In this study, we performed a retrospective analysis of 2017 consecutive BRCA1 and BRCA2 genetic variants identified from 24,650 consecutive patient samples referred to our laboratory to establish an unbiased dataset representative of the types of variants seen in the US patient population, submitted by clinicians and researchers for BRCA1 and BRCA2 testing. We compared the clinical classifications of these variants among five publicly accessible BRCA1 and BRCA2 variant databases: BIC, ClinVar, HGMD (paid version), LOVD, and the UMD databases. Our results show substantial disparity of variant classifications among publicly accessible databases. Furthermore, it appears that discrepant classifications are not the result of a single outlier but widespread disagreement among databases. This study also shows that databases sometimes favor a clinical classification when current best practice guidelines (ACMG/AMP/CAP) would suggest an uncertain classification. Although LSDBs have been well established for research applications, our results suggest several challenges preclude their wider use in clinical practice.

The CEBAF Element Database

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

Theodore Larrieu, Christopher Slominski, Michele Joyce

2011-03-01

With the inauguration of the CEBAF Element Database (CED) in Fall 2010, Jefferson Lab computer scientists have taken a step toward the eventual goal of a model-driven accelerator. Once fully populated, the database will be the primary repository of information used for everything from generating lattice decks to booting control computers to building controls screens. A requirement influencing the CED design is that it provide access to not only present, but also future and past configurations of the accelerator. To accomplish this, an introspective database schema was designed that allows new elements, types, and properties to be defined on-the-fly withmore » no changes to table structure. Used in conjunction with Oracle Workspace Manager, it allows users to query data from any time in the database history with the same tools used to query the present configuration. Users can also check-out workspaces to use as staging areas for upcoming machine configurations. All Access to the CED is through a well-documented Application Programming Interface (API) that is translated automatically from original C++ source code into native libraries for scripting languages such as perl, php, and TCL making access to the CED easy and ubiquitous.« less

Health effects of mineral dusts, Volume 28: Proceedings

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

Guthrie, G.D. Jr.; Mossman, B.T.

1993-12-31

The processes that lead to the development of disease (or pathogenesis) by minerals very likely occur at or near the mineral-fluid interface. Thus the field of ``mineral-induced pathogenesis`` is a prime candidate for interdisciplinary research, involving mineral scientists, health scientists, petrologists, pathologists, geochemists, biochemists, and surface scientists, to name a few. This review volume and the short course upon which it was based are intended to provide some of the necessary tools for the researcher interested in this area of interdisciplinary research. The chapters present several of the important problems, concepts, and approaches from both the geological and biological endsmore » of the spectrum. These two extremes are partially integrated throughout the book by cross-referencing between chapters. Chapter 1 also presents a general introduction into the ways in which these two areas overlap. The final chapter of this book discusses some of the regulatory aspects of minerals. A glossary is included at the end of this book, because the complexity of scientific terms in the two fields can thwart even the most enthusiastic of individuals. Individual reports have been processed separately for the database.« less

Finding Common Ground Between Earth Scientists and Evangelical Christians

NASA Astrophysics Data System (ADS)

Grant Ludwig, L.

2015-12-01

In recent decades there has been some tension between earth scientists and evangelical Christians in the U.S., and this tension has spilled over into the political arena and policymaking on important issues such as climate change. From my personal and professional experience engaging with both groups, I find there is much common ground for increasing understanding and communicating the societal relevance of earth science. Fruitful discussions can arise from shared values and principles, and common approaches to understanding the world. For example, scientists and Christians are engaged in the pursuit of truth, and they value moral/ethical decision-making based on established principles. Scientists emphasize the benefits of research "for the common good" while Christians emphasize the value of doing "good works". Both groups maintain a longterm perspective: Christians talk about "the eternal" and geologists discuss "deep time". Both groups understand the importance of placing new observations in context of prior understanding: scientists diligently reference "the literature" while Christians quote "chapter and verse". And members of each group engage with each other in "fellowship" or "meetings" to create a sense of community and reinforce shared values. From my perspective, earth scientists can learn to communicate the importance and relevance of science more effectively by engaging with Christians in areas of common ground, rather than by trying to win arguments or debates.

A New Approach To Secure Federated Information Bases Using Agent Technology.

ERIC Educational Resources Information Center

Weippi, Edgar; Klug, Ludwig; Essmayr, Wolfgang

2003-01-01

Discusses database agents which can be used to establish federated information bases by integrating heterogeneous databases. Highlights include characteristics of federated information bases, including incompatible database management systems, schemata, and frequently changing context; software agent technology; Java agents; system architecture;…

Utilizing semantic networks to database and retrieve generalized stochastic colored Petri nets

NASA Technical Reports Server (NTRS)

Farah, Jeffrey J.; Kelley, Robert B.

1992-01-01

Previous work has introduced the Planning Coordinator (PCOORD), a coordinator functioning within the hierarchy of the Intelligent Machine Mode. Within the structure of the Planning Coordinator resides the Primitive Structure Database (PSDB) functioning to provide the primitive structures utilized by the Planning Coordinator in the establishing of error recovery or on-line path plans. This report further explores the Primitive Structure Database and establishes the potential of utilizing semantic networks as a means of efficiently storing and retrieving the Generalized Stochastic Colored Petri Nets from which the error recovery plans are derived.

The Universal Protein Resource (UniProt): an expanding universe of protein information.

PubMed

Wu, Cathy H; Apweiler, Rolf; Bairoch, Amos; Natale, Darren A; Barker, Winona C; Boeckmann, Brigitte; Ferro, Serenella; Gasteiger, Elisabeth; Huang, Hongzhan; Lopez, Rodrigo; Magrane, Michele; Martin, Maria J; Mazumder, Raja; O'Donovan, Claire; Redaschi, Nicole; Suzek, Baris

2006-01-01

The Universal Protein Resource (UniProt) provides a central resource on protein sequences and functional annotation with three database components, each addressing a key need in protein bioinformatics. The UniProt Knowledgebase (UniProtKB), comprising the manually annotated UniProtKB/Swiss-Prot section and the automatically annotated UniProtKB/TrEMBL section, is the preeminent storehouse of protein annotation. The extensive cross-references, functional and feature annotations and literature-based evidence attribution enable scientists to analyse proteins and query across databases. The UniProt Reference Clusters (UniRef) speed similarity searches via sequence space compression by merging sequences that are 100% (UniRef100), 90% (UniRef90) or 50% (UniRef50) identical. Finally, the UniProt Archive (UniParc) stores all publicly available protein sequences, containing the history of sequence data with links to the source databases. UniProt databases continue to grow in size and in availability of information. Recent and upcoming changes to database contents, formats, controlled vocabularies and services are described. New download availability includes all major releases of UniProtKB, sequence collections by taxonomic division and complete proteomes. A bibliography mapping service has been added, and an ID mapping service will be available soon. UniProt databases can be accessed online at http://www.uniprot.org or downloaded at ftp://ftp.uniprot.org/pub/databases/.

24 CFR 3400.1 - Purpose.

Code of Federal Regulations, 2012 CFR

2012-04-01

... participate in a nationwide mortgage licensing system and registry database of residential mortgage loan... charged with establishing and maintaining a licensing and registry database for loan originators. (b...

Specialist Bibliographic Databases

PubMed Central

2016-01-01

Specialist bibliographic databases offer essential online tools for researchers and authors who work on specific subjects and perform comprehensive and systematic syntheses of evidence. This article presents examples of the established specialist databases, which may be of interest to those engaged in multidisciplinary science communication. Access to most specialist databases is through subscription schemes and membership in professional associations. Several aggregators of information and database vendors, such as EBSCOhost and ProQuest, facilitate advanced searches supported by specialist keyword thesauri. Searches of items through specialist databases are complementary to those through multidisciplinary research platforms, such as PubMed, Web of Science, and Google Scholar. Familiarizing with the functional characteristics of biomedical and nonbiomedical bibliographic search tools is mandatory for researchers, authors, editors, and publishers. The database users are offered updates of the indexed journal lists, abstracts, author profiles, and links to other metadata. Editors and publishers may find particularly useful source selection criteria and apply for coverage of their peer-reviewed journals and grey literature sources. These criteria are aimed at accepting relevant sources with established editorial policies and quality controls. PMID:27134485

Specialist Bibliographic Databases.

PubMed

Gasparyan, Armen Yuri; Yessirkepov, Marlen; Voronov, Alexander A; Trukhachev, Vladimir I; Kostyukova, Elena I; Gerasimov, Alexey N; Kitas, George D

2016-05-01

Specialist bibliographic databases offer essential online tools for researchers and authors who work on specific subjects and perform comprehensive and systematic syntheses of evidence. This article presents examples of the established specialist databases, which may be of interest to those engaged in multidisciplinary science communication. Access to most specialist databases is through subscription schemes and membership in professional associations. Several aggregators of information and database vendors, such as EBSCOhost and ProQuest, facilitate advanced searches supported by specialist keyword thesauri. Searches of items through specialist databases are complementary to those through multidisciplinary research platforms, such as PubMed, Web of Science, and Google Scholar. Familiarizing with the functional characteristics of biomedical and nonbiomedical bibliographic search tools is mandatory for researchers, authors, editors, and publishers. The database users are offered updates of the indexed journal lists, abstracts, author profiles, and links to other metadata. Editors and publishers may find particularly useful source selection criteria and apply for coverage of their peer-reviewed journals and grey literature sources. These criteria are aimed at accepting relevant sources with established editorial policies and quality controls.

Earth System Model Development and Analysis using FRE-Curator and Live Access Servers: On-demand analysis of climate model output with data provenance.

NASA Astrophysics Data System (ADS)

Radhakrishnan, A.; Balaji, V.; Schweitzer, R.; Nikonov, S.; O'Brien, K.; Vahlenkamp, H.; Burger, E. F.

2016-12-01

There are distinct phases in the development cycle of an Earth system model. During the model development phase, scientists make changes to code and parameters and require rapid access to results for evaluation. During the production phase, scientists may make an ensemble of runs with different settings, and produce large quantities of output, that must be further analyzed and quality controlled for scientific papers and submission to international projects such as the Climate Model Intercomparison Project (CMIP). During this phase, provenance is a key concern:being able to track back from outputs to inputs. We will discuss one of the paths taken at GFDL in delivering tools across this lifecycle, offering on-demand analysis of data by integrating the use of GFDL's in-house FRE-Curator, Unidata's THREDDS and NOAA PMEL's Live Access Servers (LAS).Experience over this lifecycle suggests that a major difficulty in developing analysis capabilities is only partially the scientific content, but often devoted to answering the questions "where is the data?" and "how do I get to it?". "FRE-Curator" is the name of a database-centric paradigm used at NOAA GFDL to ingest information about the model runs into an RDBMS (Curator database). The components of FRE-Curator are integrated into Flexible Runtime Environment workflow and can be invoked during climate model simulation. The front end to FRE-Curator, known as the Model Development Database Interface (MDBI) provides an in-house web-based access to GFDL experiments: metadata, analysis output and more. In order to provide on-demand visualization, MDBI uses Live Access Servers which is a highly configurable web server designed to provide flexible access to geo-referenced scientific data, that makes use of OPeNDAP. Model output saved in GFDL's tape archive, the size of the database and experiments, continuous model development initiatives with more dynamic configurations add complexity and challenges in providing an on-demand visualization experience to our GFDL users.

Configuration management program plan for Hanford site systems engineering

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

Hoffman, A.G.

This plan establishes the integrated configuration management program for the evolving technical baseline developed through the systems engineering process. This configuration management program aligns with the criteria identified in the DOE Standard, DOE-STD-1073-93. Included are specific requirements for control of the systems engineering RDD-100 database, and electronic data incorporated in the database that establishes the Hanford site technical baseline.

An Evaluator's Guide to Using DB MASTER: A Microcomputer Based File Management Program. Research on Evaluation Program, Paper and Report Series No. 91.

ERIC Educational Resources Information Center

Gray, Peter J.

Ways a microcomputer can be used to establish and maintain an evaluation database and types of data management features possible on a microcomputer are described in this report, which contains step-by-step procedures and numerous examples for establishing a database, manipulating data, and designing and printing reports. Following a brief…

Development of an open source laboratory information management system for 2-D gel electrophoresis-based proteomics workflow

PubMed Central

Morisawa, Hiraku; Hirota, Mikako; Toda, Tosifusa

2006-01-01

Background In the post-genome era, most research scientists working in the field of proteomics are confronted with difficulties in management of large volumes of data, which they are required to keep in formats suitable for subsequent data mining. Therefore, a well-developed open source laboratory information management system (LIMS) should be available for their proteomics research studies. Results We developed an open source LIMS appropriately customized for 2-D gel electrophoresis-based proteomics workflow. The main features of its design are compactness, flexibility and connectivity to public databases. It supports the handling of data imported from mass spectrometry software and 2-D gel image analysis software. The LIMS is equipped with the same input interface for 2-D gel information as a clickable map on public 2DPAGE databases. The LIMS allows researchers to follow their own experimental procedures by reviewing the illustrations of 2-D gel maps and well layouts on the digestion plates and MS sample plates. Conclusion Our new open source LIMS is now available as a basic model for proteome informatics, and is accessible for further improvement. We hope that many research scientists working in the field of proteomics will evaluate our LIMS and suggest ways in which it can be improved. PMID:17018156

PATRIC: the Comprehensive Bacterial Bioinformatics Resource with a Focus on Human Pathogenic Species ▿ ‡ #

PubMed Central

Gillespie, Joseph J.; Wattam, Alice R.; Cammer, Stephen A.; Gabbard, Joseph L.; Shukla, Maulik P.; Dalay, Oral; Driscoll, Timothy; Hix, Deborah; Mane, Shrinivasrao P.; Mao, Chunhong; Nordberg, Eric K.; Scott, Mark; Schulman, Julie R.; Snyder, Eric E.; Sullivan, Daniel E.; Wang, Chunxia; Warren, Andrew; Williams, Kelly P.; Xue, Tian; Seung Yoo, Hyun; Zhang, Chengdong; Zhang, Yan; Will, Rebecca; Kenyon, Ronald W.; Sobral, Bruno W.

2011-01-01

Funded by the National Institute of Allergy and Infectious Diseases, the Pathosystems Resource Integration Center (PATRIC) is a genomics-centric relational database and bioinformatics resource designed to assist scientists in infectious-disease research. Specifically, PATRIC provides scientists with (i) a comprehensive bacterial genomics database, (ii) a plethora of associated data relevant to genomic analysis, and (iii) an extensive suite of computational tools and platforms for bioinformatics analysis. While the primary aim of PATRIC is to advance the knowledge underlying the biology of human pathogens, all publicly available genome-scale data for bacteria are compiled and continually updated, thereby enabling comparative analyses to reveal the basis for differences between infectious free-living and commensal species. Herein we summarize the major features available at PATRIC, dividing the resources into two major categories: (i) organisms, genomes, and comparative genomics and (ii) recurrent integration of community-derived associated data. Additionally, we present two experimental designs typical of bacterial genomics research and report on the execution of both projects using only PATRIC data and tools. These applications encompass a broad range of the data and analysis tools available, illustrating practical uses of PATRIC for the biologist. Finally, a summary of PATRIC's outreach activities, collaborative endeavors, and future research directions is provided. PMID:21896772

Development and Operations of the Astrophysics Data System

NASA Technical Reports Server (NTRS)

Murray, Stephen S.; Oliversen, Ronald (Technical Monitor)

2002-01-01

The Astrophysics Data System (ADS) was represented at the AAS meeting in San Diego with an oral talk and a demonstration. The demonstration was hugely successful, especially in light of the fact that the meeting was attended by about 1,200 Physics teachers. This was a group that we had no contact with before. They were very interested in the ADS. Having made contact with this group should help to further propagate knowledge about the ADS in the Physics community and bring it to the attention of young scientists. Two new mirror sites were established, one in India and in Russia. The site in India is fully operational, the site in Russia is waiting for the data tapes to be loaded. The preprint database is already functional. The mirror site in India is expected to become a full article mirror site soon. The mirror site in Russia is expected to become a partial article mirror site in the near future. The mirror site in China now has a full article mirror. This is the second full article mirror site after the one in Japan. The mirror site at the CDS in France is working on configuring disks for another full article mirror.

From ontology selection and semantic web to an integrated information system for food-borne diseases and food safety.

PubMed

Yan, Xianghe; Peng, Yun; Meng, Jianghong; Ruzante, Juliana; Fratamico, Pina M; Huang, Lihan; Juneja, Vijay; Needleman, David S

2011-01-01

Several factors have hindered effective use of information and resources related to food safety due to inconsistency among semantically heterogeneous data resources, lack of knowledge on profiling of food-borne pathogens, and knowledge gaps among research communities, government risk assessors/managers, and end-users of the information. This paper discusses technical aspects in the establishment of a comprehensive food safety information system consisting of the following steps: (a) computational collection and compiling publicly available information, including published pathogen genomic, proteomic, and metabolomic data; (b) development of ontology libraries on food-borne pathogens and design automatic algorithms with formal inference and fuzzy and probabilistic reasoning to address the consistency and accuracy of distributed information resources (e.g., PulseNet, FoodNet, OutbreakNet, PubMed, NCBI, EMBL, and other online genetic databases and information); (c) integration of collected pathogen profiling data, Foodrisk.org ( http://www.foodrisk.org ), PMP, Combase, and other relevant information into a user-friendly, searchable, "homogeneous" information system available to scientists in academia, the food industry, and government agencies; and (d) development of a computational model in semantic web for greater adaptability and robustness.

Computer network access to scientific information systems for minority universities

NASA Astrophysics Data System (ADS)

Thomas, Valerie L.; Wakim, Nagi T.

1993-08-01

The evolution of computer networking technology has lead to the establishment of a massive networking infrastructure which interconnects various types of computing resources at many government, academic, and corporate institutions. A large segment of this infrastructure has been developed to facilitate information exchange and resource sharing within the scientific community. The National Aeronautics and Space Administration (NASA) supports both the development and the application of computer networks which provide its community with access to many valuable multi-disciplinary scientific information systems and on-line databases. Recognizing the need to extend the benefits of this advanced networking technology to the under-represented community, the National Space Science Data Center (NSSDC) in the Space Data and Computing Division at the Goddard Space Flight Center has developed the Minority University-Space Interdisciplinary Network (MU-SPIN) Program: a major networking and education initiative for Historically Black Colleges and Universities (HBCUs) and Minority Universities (MUs). In this paper, we will briefly explain the various components of the MU-SPIN Program while highlighting how, by providing access to scientific information systems and on-line data, it promotes a higher level of collaboration among faculty and students and NASA scientists.

Development and Operations of the Astrophysics Data System

NASA Technical Reports Server (NTRS)

Murray, Stephen S.; Oliversen, Ronald (Technical Monitor)

2002-01-01

The ADS was represented at the AAS meeting in San Diego with an oral talk and a demonstration. The demonstration was hugely successful, especially in light of the fact that the meeting was attended by about 1,200 Physics teachers. This was a group that we had no contact with before. They were very interested in the ADS. Having made contact with this group should help to further propagate knowledge about the ADS in the Physics community and bring it to the attention of young scientists. Two new mirror sites were established, one in India and in Russia. The site in India is fully operational, the site in Russia is waiting for the data tapes to be loaded. The preprint database is already functional. The mirror site in India is expected to become a full article mirror site soon. The mirror site in Russia is expected to become a partial article mirror site in the near future. The mirror site in China now has a full article mirror. This is the second full article mirror site after the one in Japan. The mirror site at the CDS in France is working on configuring disks for another full article mirror.

A Large Population Genetic Study of 15 Autosomal Short Tandem Repeat Loci for Establishment of Korean DNA Profile Database

PubMed Central

Yoo, Seong Yeon; Cho, Nam Soo; Park, Myung Jin; Seong, Ki Min; Hwang, Jung Ho; Song, Seok Bean; Han, Myun Soo; Lee, Won Tae; Chung, Ki Wha

2011-01-01

Genotyping of highly polymorphic short tandem repeat (STR) markers is widely used for the genetic identification of individuals in forensic DNA analyses and in paternity disputes. The National DNA Profile Databank recently established by the DNA Identification Act in Korea contains the computerized STR DNA profiles of individuals convicted of crimes. For the establishment of a large autosomal STR loci population database, 1805 samples were obtained at random from Korean individuals and 15 autosomal STR markers were analyzed using the AmpFlSTR Identifiler PCR Amplification kit. For the 15 autosomal STR markers, no deviations from the Hardy-Weinberg equilibrium were observed. The most informative locus in our data set was the D2S1338 with a discrimination power of 0.9699. The combined matching probability was 1.521 × 10-17. This large STR profile dataset including atypical alleles will be important for the establishment of the Korean DNA database and for forensic applications. PMID:21597912

A large population genetic study of 15 autosomal short tandem repeat loci for establishment of Korean DNA profile database.

PubMed

Yoo, Seong Yeon; Cho, Nam Soo; Park, Myung Jin; Seong, Ki Min; Hwang, Jung Ho; Song, Seok Bean; Han, Myun Soo; Lee, Won Tae; Chung, Ki Wha

2011-07-01

Genotyping of highly polymorphic short tandem repeat (STR) markers is widely used for the genetic identification of individuals in forensic DNA analyses and in paternity disputes. The National DNA Profile Databank recently established by the DNA Identification Act in Korea contains the computerized STR DNA profiles of individuals convicted of crimes. For the establishment of a large autosomal STR loci population database, 1805 samples were obtained at random from Korean individuals and 15 autosomal STR markers were analyzed using the AmpFlSTR Identifiler PCR Amplification kit. For the 15 autosomal STR markers, no deviations from the Hardy-Weinberg equilibrium were observed. The most informative locus in our data set was the D2S1338 with a discrimination power of 0.9699. The combined matching probability was 1.521 × 10(-17). This large STR profile dataset including atypical alleles will be important for the establishment of the Korean DNA database and for forensic applications.

Collaborative Data Publication Utilizing the Open Data Repository's (ODR) Data Publisher

NASA Technical Reports Server (NTRS)

Stone, N.; Lafuente, B.; Bristow, T.; Keller, R. M.; Downs, R. T.; Blake, D.; Fonda, M.; Dateo, C.; Pires, A.

2017-01-01

Introduction: For small communities in diverse fields such as astrobiology, publishing and sharing data can be a difficult challenge. While large, homogenous fields often have repositories and existing data standards, small groups of independent researchers have few options for publishing standards and data that can be utilized within their community. In conjunction with teams at NASA Ames and the University of Arizona, the Open Data Repository's (ODR) Data Publisher has been conducting ongoing pilots to assess the needs of diverse research groups and to develop software to allow them to publish and share their data collaboratively. Objectives: The ODR's Data Publisher aims to provide an easy-to-use and implement software tool that will allow researchers to create and publish database templates and related data. The end product will facilitate both human-readable interfaces (web-based with embedded images, files, and charts) and machine-readable interfaces utilizing semantic standards. Characteristics: The Data Publisher software runs on the standard LAMP (Linux, Apache, MySQL, PHP) stack to provide the widest server base available. The software is based on Symfony (www.symfony.com) which provides a robust framework for creating extensible, object-oriented software in PHP. The software interface consists of a template designer where individual or master database templates can be created. A master database template can be shared by many researchers to provide a common metadata standard that will set a compatibility standard for all derivative databases. Individual researchers can then extend their instance of the template with custom fields, file storage, or visualizations that may be unique to their studies. This allows groups to create compatible databases for data discovery and sharing purposes while still providing the flexibility needed to meet the needs of scientists in rapidly evolving areas of research. Research: As part of this effort, a number of ongoing pilot and test projects are currently in progress. The Astrobiology Habitable Environments Database Working Group is developing a shared database standard using the ODR's Data Publisher and has a number of example databases where astrobiology data are shared. Soon these databases will be integrated via the template-based standard. Work with this group helps determine what data researchers in these diverse fields need to share and archive. Additionally, this pilot helps determine what standards are viable for sharing these types of data from internally developed standards to existing open standards such as the Dublin Core (http://dublincore.org) and Darwin Core (http://rs.twdg.org) metadata standards. Further studies are ongoing with the University of Arizona Department of Geosciences where a number of mineralogy databases are being constructed within the ODR Data Publisher system. Conclusions: Through the ongoing pilots and discussions with individual researchers and small research teams, a definition of the tools desired by these groups is coming into focus. As the software development moves forward, the goal is to meet the publication and collaboration needs of these scientists in an unobtrusive and functional way.

How the Term "Shock Waves" Came Into Being

NASA Astrophysics Data System (ADS)

Fomin, N. A.

2016-07-01

The present paper considers the history of works on shock waves beginning from S. D. Poisson's publication in 1808. It expounds on the establishment of the Polytechnic School in Paris and its fellows and teachers — Gaspard Monge, Lazare Carnot, Joseph Louis Gay-Lussac, Simeon Denis Poisson, Henri Navier, Augustin Louis Cauchy, Joseph Liouville, Ademar de Saint-Venant, Henri Regnault, Pierre Dulong, Emile Jouguet, Pierre Duhem, and others. It also describes the participation in the development of the shock wave theory of young scientists from the universities of Cambridge, among which were George Airy, James Challis, Samuel Earnshaw, George Stokes, Lord Rayleigh, Lord Kelvin, and James Maxwell, as well as of scientists from the Göttingen University, Germany — Bernhard Riemann and Ernst Heinrich Weber. The pioneer works on shock waves of the Scottish engineer William Renkin, the French artillerist Pierre-Henri Hugoniot, German scientists August Toepler and Ernst Mach, and a Hungarian scientist Gyözö Zemplén are also considered.

The collation of forensic DNA case data into a multi-dimensional intelligence database.

PubMed

Walsh, S J; Moss, D S; Kliem, C; Vintiner, G M

2002-01-01

The primary aim of any DNA Database is to link individuals to unsolved offenses and unsolved offenses to each other via DNA profiling. This aim has been successfully realised during the operation of the New Zealand (NZ) DNA Databank over the past five years. The DNA Intelligence Project (DIP), a collaborative project involving NZ forensic and law enforcement agencies, interrogated the forensic case data held on the NZ DNA databank and collated it into a functional intelligence database. This database has been used to identify significant trends which direct Police and forensic personnel towards the most appropriate use of DNA technology. Intelligence is being provided in areas such as the level of usage of DNA techniques in criminal investigation, the relative success of crime scene samples and the geographical distribution of crimes. The DIP has broadened the dimensions of the information offered through the NZ DNA Databank and has furthered the understanding and investigative capability of both Police and forensic scientists. The outcomes of this research fit soundly with the current policies of 'intelligence led policing', which are being adopted by Police jurisdictions locally and overseas.

An XML-based Generic Tool for Information Retrieval in Solar Databases

NASA Astrophysics Data System (ADS)

Scholl, Isabelle F.; Legay, Eric; Linsolas, Romain

This paper presents the current architecture of the `Solar Web Project' now in its development phase. This tool will provide scientists interested in solar data with a single web-based interface for browsing distributed and heterogeneous catalogs of solar observations. The main goal is to have a generic application that can be easily extended to new sets of data or to new missions with a low level of maintenance. It is developed with Java and XML is used as a powerful configuration language. The server, independent of any database scheme, can communicate with a client (the user interface) and several local or remote archive access systems (such as existing web pages, ftp sites or SQL databases). Archive access systems are externally described in XML files. The user interface is also dynamically generated from an XML file containing the window building rules and a simplified database description. This project is developed at MEDOC (Multi-Experiment Data and Operations Centre), located at the Institut d'Astrophysique Spatiale (Orsay, France). Successful tests have been conducted with other solar archive access systems.

The Fabric for Frontier Experiments Project at Fermilab

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

Kirby, Michael

2014-01-01

The FabrIc for Frontier Experiments (FIFE) project is a new, far-reaching initiative within the Fermilab Scientific Computing Division to drive the future of computing services for experiments at FNAL and elsewhere. It is a collaborative effort between computing professionals and experiment scientists to produce an end-to-end, fully integrated set of services for computing on the grid and clouds, managing data, accessing databases, and collaborating within experiments. FIFE includes 1) easy to use job submission services for processing physics tasks on the Open Science Grid and elsewhere, 2) an extensive data management system for managing local and remote caches, cataloging, querying,more » moving, and tracking the use of data, 3) custom and generic database applications for calibrations, beam information, and other purposes, 4) collaboration tools including an electronic log book, speakers bureau database, and experiment membership database. All of these aspects will be discussed in detail. FIFE sets the direction of computing at Fermilab experiments now and in the future, and therefore is a major driver in the design of computing services worldwide.« less

Text mining for metabolic pathways, signaling cascades, and protein networks.

PubMed

Hoffmann, Robert; Krallinger, Martin; Andres, Eduardo; Tamames, Javier; Blaschke, Christian; Valencia, Alfonso

2005-05-10

The complexity of the information stored in databases and publications on metabolic and signaling pathways, the high throughput of experimental data, and the growing number of publications make it imperative to provide systems to help the researcher navigate through these interrelated information resources. Text-mining methods have started to play a key role in the creation and maintenance of links between the information stored in biological databases and its original sources in the literature. These links will be extremely useful for database updating and curation, especially if a number of technical problems can be solved satisfactorily, including the identification of protein and gene names (entities in general) and the characterization of their types of interactions. The first generation of openly accessible text-mining systems, such as iHOP (Information Hyperlinked over Proteins), provides additional functions to facilitate the reconstruction of protein interaction networks, combine database and text information, and support the scientist in the formulation of novel hypotheses. The next challenge is the generation of comprehensive information regarding the general function of signaling pathways and protein interaction networks.

Developing a strategy for computational lab skills training through Software and Data Carpentry: Experiences from the ELIXIR Pilot action

PubMed Central

Pawlik, Aleksandra; van Gelder, Celia W.G.; Nenadic, Aleksandra; Palagi, Patricia M.; Korpelainen, Eija; Lijnzaad, Philip; Marek, Diana; Sansone, Susanna-Assunta; Hancock, John; Goble, Carole

2017-01-01

Quality training in computational skills for life scientists is essential to allow them to deliver robust, reproducible and cutting-edge research. A pan-European bioinformatics programme, ELIXIR, has adopted a well-established and progressive programme of computational lab and data skills training from Software and Data Carpentry, aimed at increasing the number of skilled life scientists and building a sustainable training community in this field. This article describes the Pilot action, which introduced the Carpentry training model to the ELIXIR community. PMID:28781745

Developing a strategy for computational lab skills training through Software and Data Carpentry: Experiences from the ELIXIR Pilot action.

PubMed

Pawlik, Aleksandra; van Gelder, Celia W G; Nenadic, Aleksandra; Palagi, Patricia M; Korpelainen, Eija; Lijnzaad, Philip; Marek, Diana; Sansone, Susanna-Assunta; Hancock, John; Goble, Carole

2017-01-01

Quality training in computational skills for life scientists is essential to allow them to deliver robust, reproducible and cutting-edge research. A pan-European bioinformatics programme, ELIXIR, has adopted a well-established and progressive programme of computational lab and data skills training from Software and Data Carpentry, aimed at increasing the number of skilled life scientists and building a sustainable training community in this field. This article describes the Pilot action, which introduced the Carpentry training model to the ELIXIR community.

The ranking of scientists based on scientific publications assessment.

PubMed

Zerem, Enver

2017-11-01

It is generally accepted that the scientific impact factor (Web of Science) and the total number of citations of the articles published in a journal, are the most relevant parameters of the journal's significance. However, the significance of scientists is much more complicated to establish and the value of their scientific production cannot be directly reflected by the importance of the journals in which their articles are published. Evaluating the significance of scientists' accomplishments involves more complicated metrics than just their publication records. Based on a long term of academic experience, the author proposes objective criteria to estimate the scientific merit of an individual's publication record. This metric can serve as a pragmatic tool and the nidus for discussion within the readership of this journal. Copyright © 2017 Elsevier Inc. All rights reserved.

Joseph Rotblat: Moral Dilemmas and the Manhattan Project

NASA Astrophysics Data System (ADS)

Veys, Lucy

2013-12-01

John Fitzgerald Kennedy famously said, "One man can make a difference and every man should try."1 Joseph Rotblat (1908-2005) was the quintessence of Kennedy's conviction. He was the only scientist who left Los Alamos after it transpired that the atomic bomb being developed there was intended for use against adversaries other than Nazi Germany. I explore Rotblat's early research in Warsaw and Liverpool, which established his reputation as a highly capable experimental physicist, and which led him to join the Manhattan Project at Los Alamos in 1944. I examine his motivation for resigning from the project in 1945, and the unwillingness of his fellow scientists to follow suit, which draws attention to the continuing discourse on the responsibility of scientists for the consequences of their research.

A survey of commercial object-oriented database management systems

NASA Technical Reports Server (NTRS)

Atkins, John

1992-01-01

The object-oriented data model is the culmination of over thirty years of database research. Initially, database research focused on the need to provide information in a consistent and efficient manner to the business community. Early data models such as the hierarchical model and the network model met the goal of consistent and efficient access to data and were substantial improvements over simple file mechanisms for storing and accessing data. However, these models required highly skilled programmers to provide access to the data. Consequently, in the early 70's E.F. Codd, an IBM research computer scientists, proposed a new data model based on the simple mathematical notion of the relation. This model is known as the Relational Model. In the relational model, data is represented in flat tables (or relations) which have no physical or internal links between them. The simplicity of this model fostered the development of powerful but relatively simple query languages that now made data directly accessible to the general database user. Except for large, multi-user database systems, a database professional was in general no longer necessary. Database professionals found that traditional data in the form of character data, dates, and numeric data were easily represented and managed via the relational model. Commercial relational database management systems proliferated and performance of relational databases improved dramatically. However, there was a growing community of potential database users whose needs were not met by the relational model. These users needed to store data with data types not available in the relational model and who required a far richer modelling environment than that provided by the relational model. Indeed, the complexity of the objects to be represented in the model mandated a new approach to database technology. The Object-Oriented Model was the result.

From Local to EXtreme Environments (FLEXE) Student-Scientist Online Forums: hypothesis-based research examining ways to involve scientists in effective science education

NASA Astrophysics Data System (ADS)

Goehring, L.; Carlsen, W.; Fisher, C. R.; Kerlin, S.; Trautmann, N.; Petersen, W.

2011-12-01

Science education reform since the mid-1990's has called for a "new way of teaching and learning about science that reflects how science itself is done, emphasizing inquiry as a way of achieving knowledge and understanding about the world" (NRC, 1996). Scientists and engineers, experts in inquiry thinking, have been called to help model these practices for students and demonstrate scientific habits of mind. The question, however, is "how best to involve these experts?" given the very real challenges of limited availability of scientists, varying experience with effective pedagogy, widespread geographic distribution of schools, and the sheer number of students involved. Technology offers partial solutions to enable Student-Scientist Interactions (SSI). The FLEXE Project has developed online FLEXE Forums to support efficient, effective SSIs, making use of web-based and database technology to facilitate communication between students and scientists. More importantly, the FLEXE project has approached this question of "how best to do this?" scientifically, combining program evaluation with hypothesis-based research explicitly testing the effects of such SSIs on student learning and attitudes towards science. FLEXE Forums are designed to showcase scientific practices and habits of mind through facilitated interaction between students and scientists. Through these Forums, students "meet" working scientists and learn about their research and the environments in which they work. Scientists provide students with intriguing "real-life" datasets and challenge students to analyze and interpret the data through guiding questions. Students submit their analyses to the Forum, and scientists provide feedback and connect the instructional activity with real-life practice, showcasing their activities in the field. In the FLEXE project, Forums are embedded within inquiry-based instructional units focused on essential learning concepts, and feature the deep-sea environment in contrast to students' local environments to deepen students' understanding of earth systems processes. This presentation will provide an overview of the FLEXE project, a partnership between the Ridge2000 research scientists, science learning researchers, and educators, and will report findings from pilot studies implemented in collaboration with the GLOBE program, a worldwide network of scientists, science educators, and their students. FLEXE Forums have been tested with approximately 1400 students in the US, Germany, Australia and Thailand in 2009, and 1100 students in the US, Thailand, England and Costa Rica in 2010. Description of research methods (e.g., educational hypotheses, assessment of student learning and attitudes through analysis of student writing, and "quick question" surveys) and results will be shared, along with current tests examining the transferability of the approach to other scientists/science educator teams.

Challenges and opportunities in building health research capacity in Tanzania: a case of the National Institute for Medical Research.

PubMed

Magesa, Stephen M; Mwape, Bonard; Mboera, Leonard E G

2011-12-01

Capacity building is considered a priority for health research institutions in developing countries to achieve the Millennium Development Goals by 2015. However, in many countries including Tanzania, much emphasis has been directed towards human resources for health with the total exclusion of human resources for health research. The objective of this study was to systematically investigate the capacity building process for the Tanzanian National Institute for Medical Research (NIMR) over a 30-year period and identify the challenges and opportunities in creating a critical mass of multi-disciplinary research scientists that is required for achieving the intended health benefits. A desk review of personnel database was conducted for information covering 1980-2009 on academic qualifications, training, research experience and research output. The current staff curriculum vitae (CV) were reviewed to gather information on researchers' employment record, training, training support, area of expertise and scientific output. Interviews were conducted with a cross section of researchers on capacity development aspects using a self-administered questionnaire. In-depth interviews were also conducted with the current and former NIMR Management to seek information on capacity development challenges. A review was also done on staff personal files, annual reports, strategic plans and other occasional documents. A total of 163 CV were assessed; of these, 76.7% (125) were for Research Scientists (RS), 20.9% (34) Laboratory Technologists (LT) and 2.4% (4) for System Analysts. The Institute had 13 research scientists upon its establishment. Since 1980, NIMR has recruited a total of 185 Research Scientists. By 2009, NIMR had a total scientific workforce of 170 staff (RS= 82.4%; LT= 17.6%). Of the 140 RSs, 37 (26.4%), were first degree; 77 (55.5%) second degree while 26 (18.6%) were PhD degree holders. Of the total of 78 researchers interviewed, 55 (70.5%) indicated to have accessed postgraduate training through their personal efforts and 23 through institutional arrangement. Sixty (77%) respondents were satisfied with their tenure at NIMR. Seventy (89%) indicated that they had not at any point considered leaving NIMR. Most (79%) research scientists were recruited while holding a first degree, a few (17%) with second degree while only one (0.7%) holding a PhD degree. NIMR has experienced a research scientist attrition rate of 17.5%. Staff retention factors included availability of training opportunities; passion for conducting research; and good career prospects. Despite having a training programme, the institute has never at any moment been able to hold its own training resources. Being a public research institution, NIMR receives its core funding from the government of the United Republic of Tanzania. The bulk of the funding appears to be spent on personnel emoluments that take up to 85% (mean = 66%) of the allocated budget. In conclusion, the current NIMR's research capacity building is dependent mainly on foreign funding and personal initiatives. There is an urgent need to increase local funding for capacity building and conduct of research. A programme should be put in place to ensure sustainability of the capacity building process.

Operationalization of Prediction, Hindcast, and Evaluation Systems using the Freie Univ Evaluation System Framework (Freva) incl. a Showcase in Decadal Climate Prediction

NASA Astrophysics Data System (ADS)

Kadow, Christopher; Illing, Sebastian; Schartner, Thomas; Ulbrich, Uwe; Cubasch, Ulrich

2017-04-01

Operationalization processes are important for Weather and Climate Services. Complex data and work flows need to be combined fast to fulfill the needs of service centers. Standards in data and software formats help in automatic solutions. In this study we show a software solution in between hindcasts, forecasts, and validation to be operationalized. Freva (see below) structures data and evaluation procedures and can easily be monitored. Especially in the development process of operationalized services, Freva supports scientists and project partners. The showcase of the decadal climate prediction project MiKlip (fona-miklip.de) shows such a complex development process. Different predictions, scientists input, tasks, and time evolving adjustments need to be combined to host precise climate informations in a web environment without losing track of its evolution. The Freie Univ Evaluation System Framework (Freva - freva.met.fu-berlin.de) is a software infrastructure for standardized data and tool solutions in Earth system science. Freva runs on high performance computers to handle customizable evaluation systems of research projects, institutes or universities. It combines different software technologies into one common hybrid infrastructure, including all features present in the shell and web environment. The database interface satisfies the international standards provided by the Earth System Grid Federation (ESGF). Freva indexes different data projects into one common search environment by storing the meta data information of the self-describing model, reanalysis and observational data sets in a database. This implemented meta data system with its advanced but easy-to-handle search tool supports users, developers and their plugins to retrieve the required information. A generic application programming interface (API) allows scientific developers to connect their analysis tools with the evaluation system independently of the programming language used. Users of the evaluation techniques benefit from the common interface of the evaluation system without any need to understand the different scripting languages. Facilitation of the provision and usage of tools and climate data automatically increases the number of scientists working with the data sets and identifying discrepancies. The integrated webshell (shellinabox) adds a degree of freedom in the choice of the working environment and can be used as a gateto the research projects HPC. Plugins are able to integrate their e.g. post-processed results into the database ofthe user. This allows e.g. post-processing plugins to feed statistical analysis plugins, which fosters an active exchange between plugin developers of a research project. Additionally, the history and configuration sub-system stores every analysis performed with the evaluation system in a database. Configurations and results of the tools can be shared among scientists via shell or web system. Therefore, plugged-in tools benefit from transparency and reproducibility. Furthermore, if configurations match while starting an evaluation plugin, the system suggests to use results already produced by other users - saving CPU/h, I/O, disk space and time. The efficient interaction between different technologies improves the Earth system modeling science framed by Freva.

CottonDB: A resource for cotton genome research

USDA-ARS?s Scientific Manuscript database

CottonDB (http://cottondb.org/) is a database and web resource for cotton genomic and genetic research. Created in 1995, CottonDB was among the first plant genome databases established by the USDA-ARS. Accessed through a website interface, the database aims to be a convenient, inclusive medium of ...

Improving climate change knowledge in the Northern Rocky Mountains, USA.

NASA Astrophysics Data System (ADS)

Fagre, D. B.

2007-12-01

There are many challenges to involving authentic scientists in classroom and media communications and one is the willingness of scientists to participate. The reticence of scientists to be involved has various roots but one solution is to partner with individuals and institutions experienced in outreach. At Glacier National Park, USGS scientists have worked closely with the Crown of the Continent Research and Learning Center, part of a U.S. National Park Service initiative to improve science-based decisionmaking. The controversial topic of global warming has been embraced as a science theme and research results have been crafted into compact messages for various audiences. The interpretive staff developed a core curriculum on climate change and receive annual training directly from scientists on the most recent research. The interpretive staff interact directly while leading hikes, giving campfire talks, and at visitor centers with many of the 2.2 million visitors each year who are generally more receptive while on vacation than during busy daily lives. Wayside exhibits along the Going-to- the-Sun Road explain climate change and melting glaciers, free brochures describe other aspects of climate change, electronic kiosks have short movies, and a newsletter handout at the entrance station has a science feature in it. To aid this effort, scientists have worked harder at developing compelling graphics, creating animations, serving more media-savvy materials on websites, and providing CDs with scientific data and backup materials. A website developed for serving historic and current photographs of glaciers has been so popular with the media that it has received as many as 8,000 hits in a day. Active participation by scientists in network newscasts and documentaries may involve up to 2 days of hiking TV crews into the backcountry and much effort in reviewing scripts and confirming information. This is essential to keeping credible information going to the public despite the considerable time investments by scientists. Articles in the print media are facilitated by maintaining a photograph/graphic database of research activities but working directly with reporters is still the critical link. Finally, new approaches have been explored by collaborating with artists to take science messages to different audiences.

Developing School-Scientist Partnerships: Lessons for Scientists from Forests-of-Life

NASA Astrophysics Data System (ADS)

Falloon, Garry; Trewern, Ann

2013-02-01

The concept of partnerships between schools and practicing scientists came to prominence in the United States in the mid 1980s. The call by government for greater private sector involvement in education to raise standards in science achievement saw a variety of programmes developed, ranging from short-term sponsorships through to longer-term, project-based interactions. Recently, school-scientist partnerships (SSPs) have been rekindled as a means of assisting schools to motivate and inspire students in science, improve levels of teachers' science knowledge, and increase awareness of the type and variety of career opportunities available in the sciences (Rennie and Howitt, 2009). This article summarises research that used an interpretive case study method to examine the performance of a two-year SSP pilot between a government-owned science research institute, and 200 students from two Intermediate (years 7 and 8) schools in New Zealand. It explored the experiences of scientists involved in the partnerships, and revealed difficulties in bridging the void that existed between the outcomes-driven, commercially-focused world of research scientists, and the more process-oriented, tightly structured, and conservative world of teachers and schools. Findings highlight the pragmatic realities of establishing partnerships, from the perspective of scientists. These include acute awareness of the nature of school systems, conventions and environments; the science, technological and pedagogical knowledge of teachers; teacher workload issues and pressures, curriculum priorities and access to science resources. The article identifies areas where time and effort should be invested to ensure successful partnership outcomes.

The Role of Data Archives in Synoptic Solar Physics

NASA Astrophysics Data System (ADS)

Reardon, Kevin

The detailed study of solar cycle variations requires analysis of recorded datasets spanning many years of observations, that is, a data archive. The use of digital data, combined with powerful database server software, gives such archives new capabilities to provide, quickly and flexibly, selected pieces of information to scientists. Use of standardized protocols will allow multiple databases, independently maintained, to be seamlessly joined, allowing complex searches spanning multiple archives. These data archives also benefit from being developed in parallel with the telescope itself, which helps to assure data integrity and to provide close integration between the telescope and archive. Development of archives that can guarantee long-term data availability and strong compatibility with other projects makes solar-cycle studies easier to plan and realize.

[The Nobel Prize database as an indicator of the internationalization of Brazilian science from 1901 to 1966].

PubMed

Pittella, José Eymard Homem

2018-01-01

Working with the Nobel Prize database, covering 1901-1966, the article examines the analytical potential of the participation of Brazilians both as nominees for the world's most prestigious award in science, the Nobel Prize, and also as invited nominators. Of the 18 Brazilians nominated for the Nobel, nine were in the category Peace, four in Literature, four in Physiology or Medicine, and one in Physics. The article comments on the nominations of Brazilian scientists in the categories of Physics and Physiology or Medicine, as well as on nominations by Brazilian nominators in these same two categories. It also discusses the process of science evaluation, based on the information attained through analysis of these data on the Nobel award.

Moments in the Life of a Scientist

NASA Astrophysics Data System (ADS)

Rossi, Bruno

1990-08-01

Bruno Rossi has long been an influential figure in diverse areas of physics and in this volume he presents a fascinating account of his life and work as an experimental physicist. He discusses his scientific contributions, from experiments that played a major role in establishing the nature and properties of cosmic rays to those establishing the existence of a solar wind and others that laid the foundations of X-ray astronomy. Rossi provides close insight into his actual experiences as a scientist and the motivations that gave direction to his research, and he recounts the beginning of very significant stages in high energy physics and space research. He writes evocatively of the many places where he worked--of Florence, Arcetri, Padua, and Venice, of the mountains of Colorado and the deserts of New Mexico. His narrative also provides insight into the life of a Jewish family in fascist Italy. The text is accompanied by photographs taken throughout Rossi's career.

Concept Similarity in Publications Precedes Cross-disciplinary Collaboration

PubMed Central

Post, Andrew R.; Harrison, James H.

2008-01-01

Innovative science frequently occurs as a result of cross-disciplinary collaboration, the importance of which is reflected by recent NIH funding initiatives that promote communication and collaboration. If shared research interests between collaborators are important for the formation of collaborations, methods for identifying these shared interests across scientific domains could potentially reveal new and useful collaboration opportunities. MEDLINE represents a comprehensive database of collaborations and research interests, as reflected by article co-authors and concept content. We analyzed six years of citations using information retrieval-based methods to compute articles’ conceptual similarity, and found that articles by basic and clinical scientists who later collaborated had significantly higher average similarity than articles by similar scientists who did not collaborate. Refinement of these methods and characterization of found conceptual overlaps could allow automated discovery of collaboration opportunities that are currently missed. PMID:18999254

Concept similarity in publications precedes cross-disciplinary collaboration.

PubMed

Post, Andrew R; Harrison, James H

2008-11-06

Innovative science frequently occurs as a result of cross-disciplinary collaboration, the importance of which is reflected by recent NIH funding initiatives that promote communication and collaboration. If shared research interests between collaborators are important for the formation of collaborations,methods for identifying these shared interests across scientific domains could potentially reveal new and useful collaboration opportunities. MEDLINE represents a comprehensive database of collaborations and research interests, as reflected by article co-authors and concept content. We analyzed six years of citations using information retrieval based methods to compute articles conceptual similarity, and found that articles by basic and clinical scientists who later collaborated had significantly higher average similarity than articles by similar scientists who did not collaborate.Refinement of these methods and characterization of found conceptual overlaps could allow automated discovery of collaboration opportunities that are currently missed.

High-performance metadata indexing and search in petascale data storage systems

NASA Astrophysics Data System (ADS)

Leung, A. W.; Shao, M.; Bisson, T.; Pasupathy, S.; Miller, E. L.

2008-07-01

Large-scale storage systems used for scientific applications can store petabytes of data and billions of files, making the organization and management of data in these systems a difficult, time-consuming task. The ability to search file metadata in a storage system can address this problem by allowing scientists to quickly navigate experiment data and code while allowing storage administrators to gather the information they need to properly manage the system. In this paper, we present Spyglass, a file metadata search system that achieves scalability by exploiting storage system properties, providing the scalability that existing file metadata search tools lack. In doing so, Spyglass can achieve search performance up to several thousand times faster than existing database solutions. We show that Spyglass enables important functionality that can aid data management for scientists and storage administrators.

Assessing the search for information on Three Rs methods, and their subsequent implementation: a national survey among scientists in the Netherlands.

PubMed

van Luijk, Judith; Cuijpers, Yvonne; van der Vaart, Lilian; Leenaars, Marlies; Ritskes-Hoitinga, Merel

2011-10-01

A local survey conducted among scientists into the current practice of searching for information on Three Rs (i.e. Replacement, Reduction and Refinement) methods has highlighted the gap between the statutory requirement to apply Three Rs methods and the lack of criteria to search for them. To verify these findings on a national level, we conducted a survey among scientists throughout The Netherlands. Due to the low response rate, the results give an impression of opinions, rather than being representative of The Netherlands as a whole. The findings of both surveys complement each other, and indicate that there is room for improvement. Scientists perceive searching the literature for information on Three Rs methods to be a difficult task, and specific Three Rs search skills and knowledge of Three Rs databases are limited. Rather than using a literature search, many researchers obtain information on these methods through personal communication, which means that published information on possible Three Rs methods often remains unfound and unused. A solution might be to move beyond the direct search for information on Three Rs methods and choose another approach. One approach that seems rather appropriate is that of systematic review. This provides insight into the necessity for any new animal studies, as well as optimal implementation of available data and the prevention of unnecessary animal use in the future. 2011 FRAME.

Turkish Contribution to Journal of Neurosurgery and Acta Neurochirurgica.

PubMed

Altinors, Nur; Comert, Serhat; Sonmez, Erkin; Altinel, Faruk

2017-01-01

To evaluate the contribution of Turkish scientists to four journals published by Journal of Neurosurgery (JNS) Publishing Group and to Acta Neurochirurgica (AN) and to its Supplement (ANS). We reviewed every issue of those journals to December 2015 for the total number of articles, articles produced from studies performed entirely in Turkey, and for publications overseas co-authored by the Turkish scientists using the websites of these journals. Citations were searched using "Web of Science" and "Google Scholar" databases. The total number of articles published was 19822 for JNS, 3227 for JNS Spine, 2526 for JNS Pediatrics and 2997 for Neurosurgical Focus. Turkish contribution was 556 articles. 337 (60.61%) articles were the products of studies performed entirely in Turkey, while 219 (39.38%) articles came from overseas, co-authored by Turkish scientists. Overall contribution was 1.94%. A total of 6469 articles were published in AN. 340 papers were the products of studies performed entirely in Turkey. Turkish scientists working overseas co-authored 37 articles. Total contribution was 377 articles (5.82%). 4134 papers had been published in ANS. Contribution was 69 articles (1.66%). Turkish contribution to these journals has started late. The gap has been compensated with publications in the last two decades. Manuscripts of higher scientific level with greater number of citations are needed to increase Turkish contribution to such journals.

Tobacco industry sponsorship of a book and conflict of interest.

PubMed

Hong, Mi-Kyung; Bero, Lisa A

2006-08-01

The tobacco industry has hidden its involvement in the design, conduct and publication of scientific research articles and has used the articles to argue against tobacco regulation. The objective of this study is to examine tobacco industry involvement in the development of scientific books. Qualitative analysis of previously secret internal tobacco industry documents retrieved from the Legacy Tobacco Documents Library (http://legacy.library.ucsf.edu). Information from the documents was supplemented with material from Internet searches, the National Center for Biotechnology Information Pubmed database and interviews with individuals involved in book publication. Between 1997 and 1999 the tobacco industry sponsored a monograph, entitled 'Analytical Determination of Nicotine and Related Compounds and their Metabolites', that examined the measurement and metabolism of nicotine. The tobacco industry recruited Elsevier Science to publish the monograph. Tobacco industry executives, lawyers and scientists reviewed the chapters. One use of the monograph was to stimulate collaborative efforts between academic and tobacco industry scientists. Another was to provide the book to a government regulatory agency reviewing the teratogenic effects of nicotine. Our findings show the breadth of tobacco industry engagement in scientific knowledge production and dissemination, and its motives for sponsoring scientific literature. The industry's effort to gain credibility through collaboration with academic scientists raises questions regarding the ethics of accepting tobacco industry funding for publication. Scientists who collaborate on publications sponsored by the tobacco industry must consider the full implications of these joint efforts.

The monitoring system for vibratory disturbance detection in microgravity environment aboard the international space station

NASA Technical Reports Server (NTRS)

Laster, Rachel M.

2004-01-01

Scientists in the Office of Life and Microgravity Sciences and Applications within the Microgravity Research Division oversee studies in important physical, chemical, and biological processes in microgravity environment. Research is conducted in microgravity environment because of the beneficial results that come about for experiments. When research is done in normal gravity, scientists are limited to results that are affected by the gravity of Earth. Microgravity provides an environment where solid, liquid, and gas can be observed in a natural state of free fall and where many different variables are eliminated. One challenge that NASA faces is that space flight opportunities need to be used effectively and efficiently in order to ensure that some of the most scientifically promising research is conducted. Different vibratory sources are continually active aboard the International Space Station (ISS). Some of the vibratory sources include crew exercise, experiment setup, machinery startup (life support fans, pumps, freezer/compressor, centrifuge), thruster firings, and some unknown events. The Space Acceleration Measurement System (SAMs), which acts as the hardware and carefully positioned aboard the ISS, along with the Microgravity Environment Monitoring System MEMS), which acts as the software and is located here at NASA Glenn, are used to detect these vibratory sources aboard the ISS and recognize them as disturbances. The various vibratory disturbances can sometimes be harmful to the scientists different research projects. Some vibratory disturbances are recognized by the MEMS's database and some are not. Mainly, the unknown events that occur aboard the International Space Station are the ones of major concern. To better aid in the research experiments, the unknown events are identified and verified as unknown events. Features, such as frequency, acceleration level, time and date of recognition of the new patterns are stored in an Excel database. My task is to carefully synthesize frequency and acceleration patterns of unknown events within the Excel database into a new file to determine whether or not certain information that is received i s considered a real vibratory source. Once considered as a vibratory source, further analysis is carried out. The resulting information is used to retrain the MEMS to recognize them as known patterns. These different vibratory disturbances are being constantly monitored to observe if, in any way, the disturbances have an effect on the microgravity environment that research experiments are exposed to. If the disturbance has little or no effect on the experiments, then research is continued. However, if the disturbance is harmful to the experiment, scientists act accordingly by either minimizing the source or terminating the research and neither NASA's time nor money is wasted.

IAU Meteor Data Center-the shower database: A status report

NASA Astrophysics Data System (ADS)

Jopek, Tadeusz Jan; Kaňuchová, Zuzana

2017-09-01

Currently, the meteor shower part of Meteor Data Center database includes: 112 established showers, 563 in the working list, among them 36 have the pro tempore status. The list of shower complexes contains 25 groups, 3 have established status and 1 has the pro tempore status. In the past three years, new meteor showers submitted to the MDC database were detected amongst the meteors observed by CAMS stations (Cameras for Allsky Meteor Surveillance), those included in the EDMOND (European viDeo MeteOr Network Database), those collected by the Japanese SonotaCo Network, recorded in the IMO (International Meteor Organization) database, observed by the Croatian Meteor Network and on the Southern Hemisphere by the SAAMER radar. At the XXIX General Assembly of the IAU in Honolulu, Hawaii in 2015, the names of 18 showers were officially accepted and moved to the list of established ones. Also, one shower already officially named (3/SIA the Southern iota Aquariids) was moved back to the working list of meteor showers. At the XXIX GA IAU the basic shower nomenclature rule was modified, the new formulation predicates ;The general rule is that a meteor shower (and a meteoroid stream) should be named after the constellation that contains the nearest star to the radiant point, using the possessive Latin form;. Over the last three years the MDC database was supplemented with the earlier published original data on meteor showers, which permitted verification of the correctness of the MDC data and extension of bibliographic information. Slowly but surely new database software options are implemented, and software bugs are corrected.

High-performance integrated virtual environment (HIVE): a robust infrastructure for next-generation sequence data analysis

PubMed Central

Simonyan, Vahan; Chumakov, Konstantin; Dingerdissen, Hayley; Faison, William; Goldweber, Scott; Golikov, Anton; Gulzar, Naila; Karagiannis, Konstantinos; Vinh Nguyen Lam, Phuc; Maudru, Thomas; Muravitskaja, Olesja; Osipova, Ekaterina; Pan, Yang; Pschenichnov, Alexey; Rostovtsev, Alexandre; Santana-Quintero, Luis; Smith, Krista; Thompson, Elaine E.; Tkachenko, Valery; Torcivia-Rodriguez, John; Wan, Quan; Wang, Jing; Wu, Tsung-Jung; Wilson, Carolyn; Mazumder, Raja

2016-01-01

The High-performance Integrated Virtual Environment (HIVE) is a distributed storage and compute environment designed primarily to handle next-generation sequencing (NGS) data. This multicomponent cloud infrastructure provides secure web access for authorized users to deposit, retrieve, annotate and compute on NGS data, and to analyse the outcomes using web interface visual environments appropriately built in collaboration with research and regulatory scientists and other end users. Unlike many massively parallel computing environments, HIVE uses a cloud control server which virtualizes services, not processes. It is both very robust and flexible due to the abstraction layer introduced between computational requests and operating system processes. The novel paradigm of moving computations to the data, instead of moving data to computational nodes, has proven to be significantly less taxing for both hardware and network infrastructure. The honeycomb data model developed for HIVE integrates metadata into an object-oriented model. Its distinction from other object-oriented databases is in the additional implementation of a unified application program interface to search, view and manipulate data of all types. This model simplifies the introduction of new data types, thereby minimizing the need for database restructuring and streamlining the development of new integrated information systems. The honeycomb model employs a highly secure hierarchical access control and permission system, allowing determination of data access privileges in a finely granular manner without flooding the security subsystem with a multiplicity of rules. HIVE infrastructure will allow engineers and scientists to perform NGS analysis in a manner that is both efficient and secure. HIVE is actively supported in public and private domains, and project collaborations are welcomed. Database URL: https://hive.biochemistry.gwu.edu PMID:26989153

High-performance integrated virtual environment (HIVE): a robust infrastructure for next-generation sequence data analysis.

PubMed

Simonyan, Vahan; Chumakov, Konstantin; Dingerdissen, Hayley; Faison, William; Goldweber, Scott; Golikov, Anton; Gulzar, Naila; Karagiannis, Konstantinos; Vinh Nguyen Lam, Phuc; Maudru, Thomas; Muravitskaja, Olesja; Osipova, Ekaterina; Pan, Yang; Pschenichnov, Alexey; Rostovtsev, Alexandre; Santana-Quintero, Luis; Smith, Krista; Thompson, Elaine E; Tkachenko, Valery; Torcivia-Rodriguez, John; Voskanian, Alin; Wan, Quan; Wang, Jing; Wu, Tsung-Jung; Wilson, Carolyn; Mazumder, Raja

2016-01-01

The High-performance Integrated Virtual Environment (HIVE) is a distributed storage and compute environment designed primarily to handle next-generation sequencing (NGS) data. This multicomponent cloud infrastructure provides secure web access for authorized users to deposit, retrieve, annotate and compute on NGS data, and to analyse the outcomes using web interface visual environments appropriately built in collaboration with research and regulatory scientists and other end users. Unlike many massively parallel computing environments, HIVE uses a cloud control server which virtualizes services, not processes. It is both very robust and flexible due to the abstraction layer introduced between computational requests and operating system processes. The novel paradigm of moving computations to the data, instead of moving data to computational nodes, has proven to be significantly less taxing for both hardware and network infrastructure.The honeycomb data model developed for HIVE integrates metadata into an object-oriented model. Its distinction from other object-oriented databases is in the additional implementation of a unified application program interface to search, view and manipulate data of all types. This model simplifies the introduction of new data types, thereby minimizing the need for database restructuring and streamlining the development of new integrated information systems. The honeycomb model employs a highly secure hierarchical access control and permission system, allowing determination of data access privileges in a finely granular manner without flooding the security subsystem with a multiplicity of rules. HIVE infrastructure will allow engineers and scientists to perform NGS analysis in a manner that is both efficient and secure. HIVE is actively supported in public and private domains, and project collaborations are welcomed. Database URL: https://hive.biochemistry.gwu.edu. © The Author(s) 2016. Published by Oxford University Press.

Public Participation in Earth Science from the ISS

NASA Technical Reports Server (NTRS)

Willis, Kimberly J.; Runco, Susan K.; Stefanov, William L.

2010-01-01

The Gateway to Astronaut Photography of Earth (GAPE) is an online database (http://eol.jsc.nasa.gov) of terrestrial astronaut photography that enables the public to experience the astronaut s view from orbit. This database of imagery includes all NASA human-directed missions from the Mercury program of the early 1960 s to the current International Space Station (ISS). To date, the total number of images taken by astronauts is 1,025,333. Of the total, 621,316 images have been "cataloged" (image geographic center points determined and descriptive metadata added). The remaining imagery provides an opportunity for the citizen-scientist to become directly involved with NASA through cataloging of astronaut photography, while simultaneously experiencing the wonder and majesty of our home planet as seen by astronauts on board the ISS every day. We are currently developing a public cataloging interface for the GAPE website. When complete, the citizen-scientist will be able to access a selected subset of astronaut imagery. Each candidate will be required to pass a training tutorial in order to receive certification as a cataloger. The cataloger can then choose from a selection of images with basic metadata that is sorted by difficulty levels. Some guidance will be provided (template/pull down menus) for generation of geographic metadata required from the cataloger for each photograph. Each cataloger will also be able to view other contributions and further edit that metadata if they so choose. After the public inputs their metadata the images will be posted to an internal screening site. Images with similar geographic metadata and centerpoint coordinates from multiple catalogers will be reviewed by NASA JSC Crew Earth Observations (CEO) staff. Once reviewed and verified, the metadata will be entered into the GAPE database with the contributors identified by their chosen usernames as having cataloged the frame.

Global Science Share: Connecting young scientists from developing countries with science writing mentors to strengthen and widen the international science community

NASA Astrophysics Data System (ADS)

Hasenkopf, C. A.

2012-12-01

Collaborative science in which scientists are able to form research questions based on the current body of scientific knowledge and get feedback from colleagues on their ideas and work is essential for pushing science forward. However, not all scientists are able to fully participate in the international science community. Scientists from developing countries can face barriers to communicating with the international community due to, among other issues: fewer scientists in their home country, difficulty in getting language-specific science writing training, fewer established pre-existing international collaborations and networks, and sometimes geographic isolation. These barriers not only result in keeping individual scientists from contributing their ideas, but they also slow down the progress of the scientific enterprise for everyone. Global Science Share (http://globalscienceshare.org/) is a new project, entering its pilot phase in Fall 2012, which will work to reduce this disparity by connecting young scientists and engineers from developing countries seeking to improve their technical writing with other scientists and engineers around the world via online collaborations. Scientist-volunteers act as mentors and are paired up with mentees according to their academic field and writing needs. The mentors give feedback and constructive technical and editorial criticisms on mentees' submitted pieces of writing through a four-step email discussion. Mentees gain technical writing skills, as well as make international connections with other scientists and engineers in fields related to their own. Mentors also benefit by gaining new international scientific colleagues and honing their own writing skills through their critiques. The Global Science Share project will begin its pilot phase by first inviting Mongolian science students to apply as mentees this fall. This abstract will introduce the Global Science Share program, present a progress report from its first semester, and inform members of the geoscience community about this unique outreach opportunity to help strengthen and widen the international science community that can be done in the comfort of one's office or home.

The Mekong Fish Network: expanding the capacity of the people and institutions of the Mekong River Basin to share information and conduct standardized fisheries monitoring

USGS Publications Warehouse

Patricio, Harmony C.; Ainsley, Shaara M.; Andersen, Matthew E.; Beeman, John W.; Hewitt, David A.

2012-01-01

The Mekong River is one of the most biologically diverse rivers in the world, and it supports the most productive freshwater fisheries in the world. Millions of people in the Lower Mekong River Basin (LMB) countries of the Union of Myanmar (Burma), Lao People’s Democratic Republic, the Kingdom of Thailand, the Kingdom of Cambodia, and the Socialist Republic of Vietnam rely on the fisheries of the basin to provide a source of protein. The Mekong Fish Network Workshop was convened in Phnom Penh, Cambodia, in February 2012 to discuss the potential for coordinating fisheries monitoring among nations and the utility of establishing standard methods for short- and long-term monitoring and data sharing throughout the LMB. The concept for this network developed out of a frequently cited need for fisheries researchers in the LMB to share their knowledge with other scientists and decisionmakers. A fish monitoring network could be a valuable forum for researchers to exchange ideas, store data, or access general information regarding fisheries studies in the LMB region. At the workshop, representatives from governments, nongovernmental organizations, and universities, as well as participating foreign technical experts, cited a great need for more international cooperation and technical support among them. Given the limited staff and resources of many institutions in the LMB, the success of the proposed network would depend on whether it could offer tools that would provide benefits to network participants. A potential tool discussed at the workshop was a user-friendly, Web-accessible portal and database that could help streamline data entry and storage at the institutional level, as well as facilitate communication and data sharing among institutions. The workshop provided a consensus to establish pilot standardized data collection and database efforts that will be further reviewed by the workshop participants. Overall, workshop participants agreed that this is the type of support that is greatly needed to answer their most pressing questions and to enable local researchers and resource managers to monitor and sustain the valuable and diverse aquatic life of the Mekong River.

Science Education and the Emergence of the Specialized Scientist in Nineteenth Century Greece

NASA Astrophysics Data System (ADS)

Tampakis, Konstantinos

2013-04-01

In this paper, I describe the strong and reciprocal relations between the emergence of the specialized expert in the natural sciences and the establishment of science education, in early Modern Greece. Accordingly, I show how science and public education interacted within the Greek state from its inception in the early 1830, to the first decade of the twentieth century, when the University of Athens established an autonomous Mathematics and Physics School. Several factors are taken into account, such as the negotiations of Western educational theories and practices within a local context, the discourses of the science savants of the University of Athens, the role of the influential Greek pedagogues of the era, the state as an agent which imposed restrictions or facilitated certain developments and finally the intellectual and cultural aspirations of the nation itself. Science education is shown to be of fundamental importance for Greek scientists. The inclusion of science within the school system preceded and promoted the appearance of a scientific community and the institution of science courses was instrumental for the emergence of the first trained Greek scientists. Thus, the conventional narrative that would have science appearing in the classrooms as an aftermath of the emergence of a scientific community is problematized.

Data Science Careers: A Sampling of Successful Strategies, Pitfalls, and Persistent Challenges

NASA Astrophysics Data System (ADS)

Stocks, K. I.; Duerr, R.; Wyborn, L. A.; Yarmey, L.

2015-12-01

Data Scientists do not have a single career trajectory or preparatory pathway. Successful data scientists have come from domain sciences, computer science, library science, and other diverse fields. They have worked up from entry-level staff positions, have started as academics with doctoral degrees, and have established themselves as management professionals. They have positions in government, industry, academia, and NGO's, and their responsibilities range from highly specialized, to generalists, to high-level leadership. This presents a potentially confusing landscape for students interested in the field: how to decide among the varied options to have the best chance at fulfilling employment? What are the mistakes to avoid? Many established data scientist, both old-timers and early career professionals, expressed interest in presenting in this session but were unable to justify using their one AGU abstract for something other than their funded projects. As the session chairs we interviewed them, plus our extended network of colleagues, to ask for their best advice on what was most critical to their success in their current position, what pitfalls to avoid, what ongoing challenges they see, and what advice they would give themselves, if they could do it all over again starting now. Here we consolidate those interviews with our own perspectives to present some of the common themes and standout advice.

New mutations and an updated database for the patched-1 (PTCH1) gene.

PubMed

Reinders, Marie G; van Hout, Antonius F; Cosgun, Betûl; Paulussen, Aimée D; Leter, Edward M; Steijlen, Peter M; Mosterd, Klara; van Geel, Michel; Gille, Johan J

2018-05-01

Basal cell nevus syndrome (BCNS) is an autosomal dominant disorder characterized by multiple basal cell carcinomas (BCCs), maxillary keratocysts, and cerebral calcifications. BCNS most commonly is caused by a germline mutation in the patched-1 (PTCH1) gene. PTCH1 mutations are also described in patients with holoprosencephaly. We have established a locus-specific database for the PTCH1 gene using the Leiden Open Variation Database (LOVD). We included 117 new PTCH1 variations, in addition to 331 previously published unique PTCH1 mutations. These new mutations were found in 141 patients who had a positive PTCH1 mutation analysis in either the VU University Medical Centre (VUMC) or Maastricht University Medical Centre (MUMC) between 1995 and 2015. The database contains 331 previously published unique PTCH1 mutations and 117 new PTCH1 variations. We have established a locus-specific database for the PTCH1 gene using the Leiden Open Variation Database (LOVD). The database provides an open collection for both clinicians and researchers and is accessible online at http://www.lovd.nl/PTCH1. © 2018 The Authors. Molecular Genetics & Genomic Medicine published by Wiley Periodicals, Inc.

Establishing a Community of Practice between an Elementary Educator and a Scientist as a Means of Professional Development

NASA Astrophysics Data System (ADS)

Dashoush, Nermeen

This dissertation reports on an ethnographic study to examine and detail emerging practices in a community of practice comprised of an elementary teacher and a scientist (microbiologist). The study was conducted in order to design a model for professional development. It also aimed to contribute to the limited research involving elementary educators and their work with scientists. Furthermore, extra attention was given to understanding how both the elementary teacher and the scientist benefitted from their participation in the community of practice created from working together in teaching and learning science as a form of professional development. This was in accordance with a community of practice framework, which details that a healthy community is one without a perception of hierarchy among members (Wenger, 1998). The elementary teacher and scientist as participants collaborated in the creation of a science unit for an afterschool program. A wide variety of data was collected, including: interviews, transcribed meetings, and online journals from both participants. The data was coded for reoccurring themes surrounding practices and shifts in perception about science teaching and learning that emerged from this community of practice as professional development. The findings have implications for practices that could be used as a foundational structure in future collaborations involving elementary teachers and scientists for elementary science professional development.

Asilomar Decision: Unprecedented Guidelines for Gene-Transplant Research

ERIC Educational Resources Information Center

Science News, 1975

1975-01-01

The hazards posed by new techniques of genetic manipulation have prompted scientists to regulate and in some cases restrict their own basic investigations. Describes some possible applications of the new techniques and outlines the established research guidelines. (GS)

Uniform Peanut Performance Tests 2012

USDA-ARS?s Scientific Manuscript database

The Uniform Peanut Performance Tests (UPPT) were established in 1973 through an informal arrangement among cooperating scientists involving seven major peanut-producing states. In 1995, plant material transfer agreements were also accepted among all cooperators in the UPPT. The year 2012 completed...

Web Database Development: Implications for Academic Publishing.

ERIC Educational Resources Information Center

Fernekes, Bob

This paper discusses the preliminary planning, design, and development of a pilot project to create an Internet accessible database and search tool for locating and distributing company data and scholarly work. Team members established four project objectives: (1) to develop a Web accessible database and decision tool that creates Web pages on the…

Windows on the brain: the emerging role of atlases and databases in neuroscience

NASA Technical Reports Server (NTRS)

Van Essen, David C.; VanEssen, D. C. (Principal Investigator)

2002-01-01

Brain atlases and associated databases have great potential as gateways for navigating, accessing, and visualizing a wide range of neuroscientific data. Recent progress towards realizing this potential includes the establishment of probabilistic atlases, surface-based atlases and associated databases, combined with improvements in visualization capabilities and internet access.

Constructing Benchmark Databases and Protocols for Medical Image Analysis: Diabetic Retinopathy

PubMed Central

Kauppi, Tomi; Kämäräinen, Joni-Kristian; Kalesnykiene, Valentina; Sorri, Iiris; Uusitalo, Hannu; Kälviäinen, Heikki

2013-01-01

We address the performance evaluation practices for developing medical image analysis methods, in particular, how to establish and share databases of medical images with verified ground truth and solid evaluation protocols. Such databases support the development of better algorithms, execution of profound method comparisons, and, consequently, technology transfer from research laboratories to clinical practice. For this purpose, we propose a framework consisting of reusable methods and tools for the laborious task of constructing a benchmark database. We provide a software tool for medical image annotation helping to collect class label, spatial span, and expert's confidence on lesions and a method to appropriately combine the manual segmentations from multiple experts. The tool and all necessary functionality for method evaluation are provided as public software packages. As a case study, we utilized the framework and tools to establish the DiaRetDB1 V2.1 database for benchmarking diabetic retinopathy detection algorithms. The database contains a set of retinal images, ground truth based on information from multiple experts, and a baseline algorithm for the detection of retinopathy lesions. PMID:23956787

[Establishment of the database of the 3D facial models for the plastic surgery based on network].

PubMed

Liu, Zhe; Zhang, Hai-Lin; Zhang, Zheng-Guo; Qiao, Qun

2008-07-01

To collect the three-dimensional (3D) facial data of 30 facial deformity patients by the 3D scanner and establish a professional database based on Internet. It can be helpful for the clinical intervention. The primitive point data of face topography were collected by the 3D scanner. Then the 3D point cloud was edited by reverse engineering software to reconstruct the 3D model of the face. The database system was divided into three parts, including basic information, disease information and surgery information. The programming language of the web system is Java. The linkages between every table of the database are credibility. The query operation and the data mining are convenient. The users can visit the database via the Internet and use the image analysis system to observe the 3D facial models interactively. In this paper we presented a database and a web system adapt to the plastic surgery of human face. It can be used both in clinic and in basic research.

Rethinking Uncertainty: What Does the Public Need to Know?

NASA Astrophysics Data System (ADS)

Oreskes, N.

2012-12-01

The late Steven Schneider is often quoted as addressing the double-bind of science communication: that to be a good scientist one has to be cautious and acknowledge uncertainty, but to reach the media and the public one has to be bold, incautious, and even a bit dramatic. Here, I focus on a related but different double-bind: the double bind of responding to doubt. In our recent book, Merchants of Doubt, Erik M. Conway and I showed how doubt-mongers exploited scientific uncertainty as a political strategy to confuse the public and delay action on a range of environmental issues from the harms of tobacco to the reality of anthropogenic climate change. This strategy is effective because it appeals to lay people, journalists,' and even fellow scientists' sense of fair play—that it is right to hear "both sides" of an issue. Scientists are then caught in a double-bind: refusing to respond seems smug and elitist, but responding scientifically seems to confirm that there is in fact a scientific debate. Doubt-mongering is also hard to counter because our knowledge is, in fact, uncertain, so when we communicate in conventional scientific ways, acknowledging the uncertainties and limits in our understanding, we may end up reinforcing the uncertainty framework. The difficulty is exacerbated by the natural tendency of scientists to focus on novel and original results, rather than matters that are well established, lest we be accused of lacking originality or of taking credit for other's work. The net result is the impression among lay people that our knowledge is very likely to change and therefore a weak basis for making public policy decision. History of science, however, suggests a different picture: we know that a good deal of scientific knowledge has proved temporally robust and has provided a firm basis for effective public policy. Action on earlier environmental issues such as DDT and acid rain, guided by scientific knowledge, has worked to limit environmental damage and harms to public health. This suggests that when we communicate beyond our specialist communities, we would do well to stress the successful track record of environmental science. It also suggests that we should resist the temptation to talk about our latest research results—however exciting those may be—and focus instead on the large body of stable scientific knowledge, emphasizing that much of this knowledge is not all at new. As scientists, it is our impulse to focus on the novel and original—which almost by definition is rather uncertain—rather than the old and well established. Yet it is the well-established knowledge that is most important for the public to understand, for it is the well-established knowledge that provides us with our best basis for effective remedies.

Western Mineral and Environmental Resources Science Center--providing comprehensive earth science for complex societal issues

USGS Publications Warehouse

Frank, David G.; Wallace, Alan R.; Schneider, Jill L.

2010-01-01

Minerals in the environment and products manufactured from mineral materials are all around us and we use and come into contact with them every day. They impact our way of life and the health of all that lives. Minerals are critical to the Nation's economy and knowing where future mineral resources will come from is important for sustaining the Nation's economy and national security. The U.S. Geological Survey (USGS) Mineral Resources Program (MRP) provides scientific information for objective resource assessments and unbiased research results on mineral resource potential, production and consumption statistics, as well as environmental consequences of mining. The MRP conducts this research to provide information needed for land planners and decisionmakers about where mineral commodities are known and suspected in the earth's crust and about the environmental consequences of extracting those commodities. As part of the MRP scientists of the Western Mineral and Environmental Resources Science Center (WMERSC or 'Center' herein) coordinate the development of national, geologic, geochemical, geophysical, and mineral-resource databases and the migration of existing databases to standard models and formats that are available to both internal and external users. The unique expertise developed by Center scientists over many decades in response to mineral-resource-related issues is now in great demand to support applications such as public health research and remediation of environmental hazards that result from mining and mining-related activities. Western Mineral and Environmental Resources Science Center Results of WMERSC research provide timely and unbiased analyses of minerals and inorganic materials to (1) improve stewardship of public lands and resources; (2) support national and international economic and security policies; (3) sustain prosperity and improve our quality of life; and (4) protect and improve public health, safety, and environmental quality. The MRP supports approximately 40 USGS research specialists who utilize cooperative agreements with universities, industry, and other governmental agencies to support their collaborative research and information exchange. Scientists of the WMERSC study how and where non-fuel mineral resources form and are concentrated in the earth's crust, where mineral resources might be found in the future, and how mineral materials interact with the environment to affect human and ecosystem health. Natural systems (ecosystems) are complex - our understanding of how ecosystems operate requires collecting and synthesizing large amounts of geologic, geochemical, biologic, hydrologic, and meteorological information. Scientists in the Center strive to understand the interplay of various processes and how they affect the structure, composition, and health of ecosystems. Such understanding, which is then summarized in publicly available reports, is used to address and solve a wide variety of issues that are important to society and the economy. WMERSC scientists have extensive national and international experience in these scientific specialties and capabilities - they have collaborated with many Federal, State, and local agencies; with various private sector organizations; as well as with foreign countries and organizations. Nearly every scientific and societal challenge requires a different combination of scientific skills and capabilities. With their breadth of scientific specialties and capabilities, the scientists of the WMERSC can provide scientifically sound approaches to a wide range of societal challenges and issues. The following sections describe examples of important issues that have been addressed by scientists in the Center, the methods employed, and the relevant conclusions. New directions are inevitable as societal needs change over time. Scientists of the WMERSC have a diverse set of skills and capabilities and are proficient in the collection and integration of

Semantic-JSON: a lightweight web service interface for Semantic Web contents integrating multiple life science databases

PubMed Central

Kobayashi, Norio; Ishii, Manabu; Takahashi, Satoshi; Mochizuki, Yoshiki; Matsushima, Akihiro; Toyoda, Tetsuro

2011-01-01

Global cloud frameworks for bioinformatics research databases become huge and heterogeneous; solutions face various diametric challenges comprising cross-integration, retrieval, security and openness. To address this, as of March 2011 organizations including RIKEN published 192 mammalian, plant and protein life sciences databases having 8.2 million data records, integrated as Linked Open or Private Data (LOD/LPD) using SciNetS.org, the Scientists' Networking System. The huge quantity of linked data this database integration framework covers is based on the Semantic Web, where researchers collaborate by managing metadata across public and private databases in a secured data space. This outstripped the data query capacity of existing interface tools like SPARQL. Actual research also requires specialized tools for data analysis using raw original data. To solve these challenges, in December 2009 we developed the lightweight Semantic-JSON interface to access each fragment of linked and raw life sciences data securely under the control of programming languages popularly used by bioinformaticians such as Perl and Ruby. Researchers successfully used the interface across 28 million semantic relationships for biological applications including genome design, sequence processing, inference over phenotype databases, full-text search indexing and human-readable contents like ontology and LOD tree viewers. Semantic-JSON services of SciNetS.org are provided at http://semanticjson.org. PMID:21632604

Recommendations of the DNA Commission of the International Society for Forensic Genetics (ISFG) on quality control of autosomal Short Tandem Repeat allele frequency databasing (STRidER).

PubMed

Bodner, Martin; Bastisch, Ingo; Butler, John M; Fimmers, Rolf; Gill, Peter; Gusmão, Leonor; Morling, Niels; Phillips, Christopher; Prinz, Mechthild; Schneider, Peter M; Parson, Walther

2016-09-01

The statistical evaluation of autosomal Short Tandem Repeat (STR) genotypes is based on allele frequencies. These are empirically determined from sets of randomly selected human samples, compiled into STR databases that have been established in the course of population genetic studies. There is currently no agreed procedure of performing quality control of STR allele frequency databases, and the reliability and accuracy of the data are largely based on the responsibility of the individual contributing research groups. It has been demonstrated with databases of haploid markers (EMPOP for mitochondrial mtDNA, and YHRD for Y-chromosomal loci) that centralized quality control and data curation is essential to minimize error. The concepts employed for quality control involve software-aided likelihood-of-genotype, phylogenetic, and population genetic checks that allow the researchers to compare novel data to established datasets and, thus, maintain the high quality required in forensic genetics. Here, we present STRidER (http://strider.online), a publicly available, centrally curated online allele frequency database and quality control platform for autosomal STRs. STRidER expands on the previously established ENFSI DNA WG STRbASE and applies standard concepts established for haploid and autosomal markers as well as novel tools to reduce error and increase the quality of autosomal STR data. The platform constitutes a significant improvement and innovation for the scientific community, offering autosomal STR data quality control and reliable STR genotype estimates. Copyright © 2016 Elsevier Ireland Ltd. All rights reserved.

Increasing retention of early career female atmospheric scientists

NASA Astrophysics Data System (ADS)

Edwards, L. M.; Hallar, A. G.; Avallone, L. M.; Thiry, H.

2010-12-01

Atmospheric Science Collaborations and Enriching NeTworks (ASCENT) is a workshop series designed to bring together early career female scientists in the field of atmospheric science and related disciplines. ASCENT uses a multi-faceted approach to provide junior scientists with tools that will help them meet the challenges in their research and teaching career paths and will promote their retention in the field. During the workshop, senior women scientists discuss their career and life paths. They also lead seminars on tools, resources and methods that can help early career scientists to be successful and prepared to fill vacancies created by the “baby boomer” retirees. Networking is a significant aspect of ASCENT, and many opportunities for both formal and informal interactions among the participants (of both personal and professional nature) are blended in the schedule. The workshops are held in Steamboat Springs, Colorado, home of a high-altitude atmospheric science laboratory, Storm Peak Laboratory, which also allows for nearby casual outings and a pleasant environment for participants. Near the conclusion of each workshop, junior and senior scientists are matched in mentee-mentor ratios of two junior scientists per senior scientist. Post-workshop reunion events are held at national scientific meetings to maintain connectivity among each year’s participants, and for collaborating among participants of all workshops held to date. Evaluations of the two workshop cohorts thus far conclude that the workshops have been successful in achieving the goals of establishing and expanding personal and research-related networks, and that seminars have been useful in creating confidence and sharing resources for such things as preparing promotion and tenure packages, interviewing and negotiating job offers, and writing successful grant proposals.

Professional Ethics for Climate Scientists

NASA Astrophysics Data System (ADS)

Peacock, K.; Mann, M. E.

2014-12-01

Several authors have warned that climate scientists sometimes exhibit a tendency to "err on the side of least drama" in reporting the risks associated with fossil fuel emissions. Scientists are often reluctant to comment on the implications of their work for public policy, despite the fact that because of their expertise they may be among those best placed to make recommendations about such matters as mitigation and preparedness. Scientists often have little or no training in ethics or philosophy, and consequently they may feel that they lack clear guidelines for balancing the imperative to avoid error against the need to speak out when it may be ethically required to do so. This dilemma becomes acute in cases such as abrupt ice sheet collapse where it is easier to identify a risk than to assess its probability. We will argue that long-established codes of ethics in the learned professions such as medicine and engineering offer a model that can guide research scientists in cases like this, and we suggest that ethical training could be regularly incorporated into graduate curricula in fields such as climate science and geology. We recognize that there are disanalogies between professional and scientific ethics, the most important of which is that codes of ethics are typically written into the laws that govern licensed professions such as engineering. Presently, no one can legally compel a research scientist to be ethical, although legal precedent may evolve such that scientists are increasingly expected to communicate their knowledge of risks. We will show that the principles of professional ethics can be readily adapted to define an ethical code that could be voluntarily adopted by scientists who seek clearer guidelines in an era of rapid climate change.

Report on the Project for Establishment of the Standardized Korean Laboratory Terminology Database, 2015.

PubMed

Jung, Bo Kyeung; Kim, Jeeyong; Cho, Chi Hyun; Kim, Ju Yeon; Nam, Myung Hyun; Shin, Bong Kyung; Rho, Eun Youn; Kim, Sollip; Sung, Heungsup; Kim, Shinyoung; Ki, Chang Seok; Park, Min Jung; Lee, Kap No; Yoon, Soo Young

2017-04-01

The National Health Information Standards Committee was established in 2004 in Korea. The practical subcommittee for laboratory test terminology was placed in charge of standardizing laboratory medicine terminology in Korean. We aimed to establish a standardized Korean laboratory terminology database, Korea-Logical Observation Identifier Names and Codes (K-LOINC) based on former products sponsored by this committee. The primary product was revised based on the opinions of specialists. Next, we mapped the electronic data interchange (EDI) codes that were revised in 2014, to the corresponding K-LOINC. We established a database of synonyms, including the laboratory codes of three reference laboratories and four tertiary hospitals in Korea. Furthermore, we supplemented the clinical microbiology section of K-LOINC using an alternative mapping strategy. We investigated other systems that utilize laboratory codes in order to investigate the compatibility of K-LOINC with statistical standards for a number of tests. A total of 48,990 laboratory codes were adopted (21,539 new and 16,330 revised). All of the LOINC synonyms were translated into Korean, and 39,347 Korean synonyms were added. Moreover, 21,773 synonyms were added from reference laboratories and tertiary hospitals. Alternative strategies were established for mapping within the microbiology domain. When we applied these to a smaller hospital, the mapping rate was successfully increased. Finally, we confirmed K-LOINC compatibility with other statistical standards, including a newly proposed EDI code system. This project successfully established an up-to-date standardized Korean laboratory terminology database, as well as an updated EDI mapping to facilitate the introduction of standard terminology into institutions. © 2017 The Korean Academy of Medical Sciences.

[Bio-Resources and Database for Preemptive Medicine.

PubMed

Saito, Kuniaki

2016-05-01

Establishing a primary defense for the improvement of individual quality of life by epidemiology and various clinical studies applying bio-resources/database analysis is very important. Furthermore, recent studies on understanding the epigenetic regulatory mechanisms of developmental origins of health and diseases are attracting increasing interest. Therefore, the storing of not only bio-fluid (i.e., blood, urine) but also certain tissues (i.e., placenta, cord) is very important for research. The Resource Center for Health Science (RECHS) and Bio-databases Institute of Reproductive and Developmental Medicine (BIRD) have estab- lished Bio-bank and initiated a project based on the development and utilization of bio-resources/database, comprising personal health records (PHR), such as health/medical records including individual records of daily diet and exercise, physically consolidated with bio-resources, taken from the same individuals. These Bio-Resources/Database projects are very important for the establishment of preemptive medicine and un- derstanding the mechanisms of the developmental origins of health and diseases.

High-throughput STR analysis for DNA database using direct PCR.

PubMed

Sim, Jeong Eun; Park, Su Jeong; Lee, Han Chul; Kim, Se-Yong; Kim, Jong Yeol; Lee, Seung Hwan

2013-07-01

Since the Korean criminal DNA database was launched in 2010, we have focused on establishing an automated DNA database profiling system that analyzes short tandem repeat loci in a high-throughput and cost-effective manner. We established a DNA database profiling system without DNA purification using a direct PCR buffer system. The quality of direct PCR procedures was compared with that of conventional PCR system under their respective optimized conditions. The results revealed not only perfect concordance but also an excellent PCR success rate, good electropherogram quality, and an optimal intra/inter-loci peak height ratio. In particular, the proportion of DNA extraction required due to direct PCR failure could be minimized to <3%. In conclusion, the newly developed direct PCR system can be adopted for automated DNA database profiling systems to replace or supplement conventional PCR system in a time- and cost-saving manner. © 2013 American Academy of Forensic Sciences Published 2013. This article is a U.S. Government work and is in the public domain in the U.S.A.

The Plant Ontology: A Tool for Plant Genomics.

PubMed

Cooper, Laurel; Jaiswal, Pankaj

2016-01-01

The use of controlled, structured vocabularies (ontologies) has become a critical tool for scientists in the post-genomic era of massive datasets. Adoption and integration of common vocabularies and annotation practices enables cross-species comparative analyses and increases data sharing and reusability. The Plant Ontology (PO; http://www.plantontology.org/ ) describes plant anatomy, morphology, and the stages of plant development, and offers a database of plant genomics annotations associated to the PO terms. The scope of the PO has grown from its original design covering only rice, maize, and Arabidopsis, and now includes terms to describe all green plants from angiosperms to green algae.This chapter introduces how the PO and other related ontologies are constructed and organized, including languages and software used for ontology development, and provides an overview of the key features. Detailed instructions illustrate how to search and browse the PO database and access the associated annotation data. Users are encouraged to provide input on the ontology through the online term request form and contribute datasets for integration in the PO database.

Ground Support Software for Spaceborne Instrumentation

NASA Technical Reports Server (NTRS)

Anicich, Vincent; Thorpe, rob; Fletcher, Greg; Waite, Hunter; Xu, Hykua; Walter, Erin; Frick, Kristie; Farris, Greg; Gell, Dave; Furman, Jufy;