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Topic: Biological database

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	USGS/BRD/PIERC Haleakala Field Station (Site not responding. Last check: 2007-10-26)
		Impacts of biological invasions on the management and recovery of rare plants in Haleakala National Park, Maui, Hawaiian Islands, p.
		In Biological Diversity and Ecosystem Function on Islands, P. Vitousek, L. Loope, and H. Adsersen (eds.).
		In A Report on the Status and Trends of the Biological Resources of the United States, U.S. Department of the Interior, Washington, D.C. Starr, F., K. Martz, and L. Loope.
	www.hear.org /usgs-brd-pierc-hfs (2139 words)

	Biological data - Wikipedia, the free encyclopedia
		Biological data is data or measurements collected from biological sources, which is stored or exchanged in a digital form.
		Biological data is commonly stored in files or databases.
		Examples of biological data are DNA base-pair sequences, and population data used in ecology.
	en.wikipedia.org /wiki/Biological_data (74 words)

	Molecular biology database/biological database/bioinformatics database - an overview
		A biological database is a large, organized body of persistent data, usually associated with computerized software designed to update, query, and retrieve components of the data stored within the system.
		Making such databases accessible via open standards like the Web is very important since consumers of bioinformatics data use a range of computer platforms: from the more powerful and forbidding UNIX boxes favoured by the developers and curators to the far friendlier Macs often found populating the labs of computer-wary biologists.
		Databases of existing sequencing data can be used to identify homologues of new molecules that have been amplified and sequenced in the lab.
	www.geocities.com /bioinformaticsweb/data.html (2546 words)

	Biological database - Wikipedia, the free encyclopedia
		These biological databases usually contain genomics and proteomics data, but databases are also used in taxonomy.
		Biological databases have become an important tool in assisting scientists to understand and explain a host of biological phenomena from the structure of biomolecules and their interaction, to the whole metabolism of organisms and to understanding the evolution of species.
		STRING: STRING is a database of known and predicted protein-protein interactions.
	en.wikipedia.org /wiki/Biological_database (564 words)

	Database/Body: Bioinformatics, Biopolitics, and Totally Connected Media Systems
		In relation to the biological technosciences, this means focusing on the current intersections between the biomedical body and the computer database, and their resultant tensions and aporias.
		The database is not only the foundation from which totally connected media systems emerge, it is also the very interstices and linkages which constitute the possibility of connected media.
		The emphasis on the biological population is also an emphasis on the multiple, intimate points of contact between a regulatory technology and a heterogeneous body of subjects.
	switch.sjsu.edu /web/v5n3/E-1.html (3354 words)

	New Bioinformatics Book: Database Modeling in Biology -- Practices and Challenges (Site not responding. Last check: 2007-10-26)
		Database management systems are designed to support large volumes of data storage, data processing, data querying, and most recently, data mining and knowledge discovery activities.
		Biological data are often characterized as having large volumes, complex structures, high dimensionality, evolving biological concepts, and insufficient data modeling practices.
		Database modeling in the biological domain has received increasing attention both as a research topic and as a practice in biological computings.
	bio.informatics.iupui.edu /book05 (661 words)

	New Book: (Site not responding. Last check: 2007-10-26)
		Then biologists can use the biological databases to handle and retrieve these data and further support a team of biologists to analyze and mine their data throughout a biological discovery process.
		So database moeling for biological data management is a field which must be investigated by academic researchers together with developers and users both from database and biology areas.
		Collecting and presenting recent advances on biological database technologies, the proposed book will serve as a useful guide for researchers, practitioners, and graduate students in theory research, design implementation, and application development of biological databases and information in addition to contributing to stimulate the interest in the field.
	www.cs.wisc.edu /dbworld/messages/2005-04/1112862138.html (488 words)

	BioMed Central \| Full text \| Critical evaluation of the JDO API for the persistence and portability requirements of ...
		Most biological databases are of a size that could fit entirely in the central memory of modern computers.
		The technology is useful for a variety of biological databases, where the mapping between the biological data and the relational data model is simple.
		The SigPath object-oriented database schema was adapted from the EcoCyc ontology [9].
	www.biomedcentral.com /1471-2105/6/5 (6764 words)

	Improving Access Standardized Biological Terminology
		Formulating a plan to improve access to standardized terminology for biological database producers and users was the goal of a workshop held May 14-16 in Nancy, France, by the CODATA Commission on Standardized Terminology for Access to Biological Data.
		During the workshop, it became apparent that authors, editors, publishers, and database producers all face a similar situation-- the lack of clear guidelines on nomenclature and taxonomy of organisms, and the terminology to describe their characteristics.
		Their ability to provide wide access to standardized terminology in formats and electronic media desired by database producers is limited by the fact that almost all of their work is performed on a "volunteer basis" and is primarily designed for intradisciplinary use.
	www.nal.usda.gov /pgdic/Probe/v1n1_2/improv.html (1007 words)

	Full Text - Database integration with the Web for biologists to share data and information
		The flat file database, which was very common in early database history, is an example of this type of database (Elmasri and Navathe, 1994).
		Regardless of size of a database, all data (either in tables, objects, or hybrid formats as we will discuss later) in a database are associated together by certain relationships or associations depending on database type.
		This is especially true for biological data due to its complexity, hierarchy, heterogeneity, and dynamics (Moore, 2002).
	www.ejbiotechnology.info /content/vol5/issue2/full/8/index.html (4200 words)

	The Pennsylvania Biological Survey (PABS)
		The purpose of the Pennsylvania Biological Survey shall be to increase the knowledge of, and foster the perpetuation of the natural biological diversity native to the Commonwealth of Pennsylvania.
		The President shall be the chief executive officer of the Pennsylvania Biological Survey, shall chair the Steering Committee, shall have the power to appoint and remove committee chairs, and shall serve as the spokesman of the Survey, unless this latter responsibility is specifically delegated.
		Upon dissolution of the Pennsylvania Biological Survey, the Steering Committee shall distribute the assets and accrued income to one or more scientific or educational organizations whose purposes are deemed consistent with those of the Survey and which qualify under the provisions of the Internal Revenue Code.
	alpha.dickinson.edu /prorg/pabs/constitution.htm (2095 words)

	ISMB 2001 Poster Abstracts: Databases, Information and Knowledge Management
		Furthermore, extension of the database is attempted so as to perform the simulation by regarding a set of the generated instance objects as the element of a particle simulation framework.
		The Genome Database (GDB, http://www.gdb.org) is a public repository of data on human genomic data on genes, STSs, clones and variation.
		GIMS is an object database that models the eukaryote genome and integrates it with functional data on the transcriptome and on protein-protein interactions.
	ismb01.cbs.dtu.dk /DatabasesInformationKnowledgeManagement.html (17538 words)

	Biological Database
		The mission of the ATCC is to acquire, authenticate, and maintain reference cultures, related biological materials, and associated data, and to distribute these to qualified scientists in government, industry, and education.
		The relational database of the PDD is designed to answer questions regarding protein patterns found in common body fluids with respect to disease conditions discussed in the literature.
		The TIGR Database (TDB) is being developed as a collection of molecular biology databases comprising DNA and protein sequence, gene expression, function, cellular role, isology class, taxonomic and sample collection data.
	www.bcmsu.ac.in /BDBASE.HTM (1538 words)

	Wetlands Biological Assessment Database - (ST) (Site not responding. Last check: 2007-10-26)
		The biological protocols are under review and may change when ecoregional studies are completed and evaluated.
		Ecoregion monitoring will generate regional reference databases that may be used to establish water quality standards, develop biological criteria, establish background conditions, and assist in the assessment of aquatic life uses in unclassified waters.
		Biological assessments of fish and macroinvertebrate were included as a major study component.
	yosemite.epa.gov /water/bioassessment.nsf/ST/TX?OpenDocument (551 words)

	Collection Database at the UAM Mammal Collection (Site not responding. Last check: 2007-10-26)
		You are welcome to interrogate a summary database containing genus, species, USGS map name (or a higher level geographic unit), and object type.
		We strive for consistency with emerging international standards, and we are moving toward the engineered structure at the UC Berkeley's Museum of Vertebrate Zoololgy.
		This is a VFP "database container" and we are happy to share it with anyone interested in a PC version of MVZ's model.
	www.uaf.edu /museum/mammal/dbf (285 words)

	Bioinformatics.Org: MBDI - Macfast Biological Database Index (Site not responding. Last check: 2007-10-26)
		-lt;i>Perhaps the world's only database of biological database is now available for the users at http://www.macfast.org/mbdi.
		To develop in to a reliable and exhaustive uptodate database of biological data repositories.
		All users are requested to submit unlisted database to MBDI to develop it as a complete biological database resource.
	bioinformatics.org /forums/forum.php?forum_id=2616 (104 words)

	SBE - Biological Properties Database
		Human Mitochondrial Protein Database (HMPDb) - comprehensive data on mitochondrial and human nuclear encoded proteins involved in mitochondrial biogenesis and function
		Enzymes and Metabolic Pathways database (EMP) - biochemical data that covers all aspects of enzymology and metabolism and represents the whole factual content of original journal publications
		MetaCyc - a multiorganism database of metabolic pathways and enzymes containing 700 pathways from more than 600 different organisms garnered from the scientific experimental literature.
	www.aiche.org /SBE/Resources/Database.aspx (256 words)

	Chemical Effects on Biological Systems Database Development (Site not responding. Last check: 2007-10-26)
		The Chemical Effects in Biological Systems (CEBS) will be created as a high quality, publicly accessible relational database that is compatible with standard laboratory output platforms.
		Database development will be integrated with strategic toxicogenomics experimental design and conduct.
		Information about the biological effects of chemicals and other agents and their mechanism of action will be collected from the literature and stored.
	www.niehs.nih.gov /nct/cebs.htm (344 words)

	HIV/OI Chemical Biological Database
		This database can be searched by chemical name or synonym, chemical or therapeutic class, the company that has tested or is developing the compound, CAS number, NSC number, molecular formula, or molectular weight.
		The database was derived from the literature, patants and meeting abstracts and also contains cytotoxicity (IC50), therapeutic index (TI) and viral resistance data.
		The database was derived from literature, patents and meeting abstracts and contains inhibitory and enzymatic data (i.e.
	chemdb2.niaid.nih.gov /struct_search/default.html (514 words)

	Development of Database for Biological Invasion (Site not responding. Last check: 2007-10-26)
		Toward this end, maintaining a database to facilitate international cooperation in resolving this major issue is of significant importance.
		The utilization of the Internet is indispensable in terms of sharing database information on biological invaders among countries in the region and/or in the international level.
		To help resolve such problems and minimize the damage caused by alien species, the Asia-Pacific Alien Species Database (APASD) was introduced by the NIAES (National Institute for Agro-Environmental Sciences), Japan, during the first meeting in 2003 and has been improved as an outcome of the second seminar in 2004; database input has continued since then.
	www.agnet.org /programs/0008.html (288 words)

	Water Quality Information Center: Water Quality Information on DigiTop
		The following is a listing and description of bibliographic databases on water and related topics accessible through DigiTop, which is available to USDA staff and on-site library users.
		Cambridge Scientific Abstracts, Bethesda, MD This database contains records covering several biological research disciplines such as biomedicine, biotechnology, zoology and ecology, and some aspects of agriculture and veterinary science.
		The database includes over two dozen areas of expertise and provides access to information from over 6000 journals, as well as conference proceedings, reports, books and patents.
	www.nal.usda.gov /wqic/digitop.shtml (1504 words)

	FDA/CFSAN - Library of Biological Resources via the INTERNET
		Biological Research at the California Academy of Sciences.
		ActionBioscience.org: an education resource of the American Institute of Biological Sciences providing peer-reviewed articles on issues related to seven bioscience challenges: environment, environment, biodiversity, genomics, biotechnology, evolution, new frontiers in science, and bioscience education, and provides original lessons and other resources to enhance bioscience teaching
		HerbMed® - an interactive, electronic herbal database provides hyperlinked access to the scientific data underlying the use of herbs for health.
	www.cfsan.fda.gov /~frf/biologic.html (1172 words)

	BiologicalDatabases < Teaching < TWiki
		Provides students with the principles and skills required to implement biological databases and their web-based interfaces.
		The course will present the principals of biological database design using relational and object-oriented database models and management systems, e.g.
		The intended audience is students enrolled in the MHS in Bioinformatics as well as students interested in learning how to publish biological data on the world-wide web.
	pinedalab.jhsph.edu /twiki/bin/viewauth/Teaching/BiologicalDatabases (528 words)

	Bioimage Introduction (Site not responding. Last check: 2007-10-26)
		At present, the BioImage Database is undergoing a thorough redesign and external access to the images and their metadata is not available.
		The BioImage Database is part of the European Commission-funded ORIEL Project (Online Research Information Environment for the Life Sciences), which, as the research arm of E-BioSci, is developing tools and procedures to promote access to and integration and retrieval of high-quality digital biological information.
		The objectives of the current phase of the BioImage Database project are to develop the functionality of the BioImage Database, to populate it with images from biological journals, learned societies and research collections, and to integrate it within the overall E-BioSci environment.
	www.bioimage.org (253 words)

	Marine Biological Database, BIOMAD (Site not responding. Last check: 2007-10-26)
		Monitoring of biological variables has been an integral part of the national swedish monitoring programme, funded by the Swedish Environmental Protection Agency (NV), since the mid 1970ties.
		In order to produce a comprehensive database of all marine biological monitoring data the Stockholm Marine Research Centre (SMRC) and the Department of Systems Ecology was contracted by NV in 1996.
		Ulf Larsson, database administrator and webmaster is Svante Nyberg at the Department of Systems Ecology.
	www.ecology.su.se /dbbm/index.shtml (91 words)

	Biological Sciences
		This interdisciplinary database offers abstracts and citations to a wide range of research in biomedicine, biotechnology, zoology and ecology, and some aspects of agriculture and veterinary science.
		Supporting over two dozen areas of expertise, this CSA database provides access to literature from over 6000 serials, as well as conference proceedings, technical reports, monographs and selected books and patents.
		Note: subscribers to this database also have complimentary access to Biology Digest, rolling 10-year file of MEDLINE, Plant Science, rolling 5-year file of TOXLINE, Recent References, and the Web Resources Database.
	www.csa.com /factsheets/biolclust-set-c.php (358 words)

	Choosing the Appropriate Biological Literature Database
		This database from the National Library of Medicine covers not only clinical medicine but also many areas of biology including biochemistry, molecular biology, genetics, physiology, microbiology, immunology, etc, and is the most heavily used database for these kind of biologists.
		Covers all areas of biological sciences and is much better than Medline for ecology, plant sciences, zoology, or wildlife literature.
		This British database covers agriculture, veterinary science, animal science, and some basic biological journals (to a lesser extent).
	guides.lib.msu.edu /page.phtml?page_id=33 (479 words)

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