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Open Biomedical Ontologies
Open Biomedical Ontologies
Open Biomedical Ontologies
(abbreviated OBO; formerly Open Biological Ontologies) is an effort to create controlled vocabularies for shared use across different biological and medical domains. As of 2006, OBO forms part of the resources of the U.S. National Center for Biomedical Ontology where it will form a central element of the NCBO's BioPortal.Contents1 OBO Foundry 2 Related projects 3 Semantic web3.1 OBO and OWL roundtrip transformations4 References 5 External linksOBO Foundry[edit] The OBO Ontology library forms the basis of the OBO Foundry,[1] a collaborative experiment involving a group of ontology developers who have agreed in advance to the adoption of a growing set of principles specifying best practices in ontology development. These principles are designed to foster interoperability of ontologies within the broader OBO framework and also to ensure a gradual improvement of quality and formal rigor in ontologies
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Controlled Vocabulary
Controlled vocabularies provide a way to organize knowledge for subsequent retrieval. They are used in subject indexing schemes, subject headings, thesauri,[1][2] taxonomies and other forms of knowledge organization systems. Controlled vocabulary schemes mandate the use of predefined, authorised terms that have been preselected by the designers of the schemes, in contrast to natural language vocabularies, which have no such restriction.Contents1 In library and information science 2 Indexing languages 3 Applications 4 See also 5 References 6 External linksIn library and information science[edit] In library and information science controlled vocabulary is a carefully selected list of words and phrases, which are used to tag units of information (document or work) so that they may be more easily retrieved by a search.[3][4] Controlled vocabularies solve the problems of homographs, synonyms and polysemes by a bijection between concepts and authorized terms
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EcoCyc
In bioinformatics EcoCyc is a biological database for the bacterium Escherichia coli K-12. The EcoCyc project performs literature-based curation of the E. coli genome, and of E. coli transcriptional regulation, transporters, and metabolic pathways. EcoCyc contains written summaries of E. coli genes, distilled from over 16,000 scientific articles. EcoCyc is also a description of the genome and cellular networks of E. coli that supports scientists to carry out computational analyses.[2] Data objects in the EcoCyc database describe each E. coli gene and gene product. Database objects also describe molecular interactions, including metabolic pathways, transport events, and the regulation of gene expression
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Special
Special
Special
or specials may refer to:Contents1 Music 2 Film and television 3 Other uses 4 See alsoMusic[edit] Special
Special
(album), a 1992 album by Vesta Williams "Special" (Garbage song), 1998 "Special
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Open Access
Open access
Open access
(OA) refers to online research outputs that are free of all restrictions on access (e.g. access tolls) and free of many restrictions on use (e.g
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PubMed Identifier
PubMed
PubMed
is a free search engine accessing primarily the MEDLINE database of references and abstracts on life sciences and biomedical topics. The United States National Library of Medicine
United States National Library of Medicine
(NLM) at the National Institutes of Health
National Institutes of Health
maintains the database as part of the Entrez
Entrez
system of information retrieval. From 1971 to 1997, MEDLINE online access to the MEDLARS Online computerized database primarily had been through institutional facilities, such as university libraries
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PubMed Central
PubMed
PubMed
Central (PMC) is a free digital repository that archives publicly accessible full-text scholarly articles that have been published within the biomedical and life sciences journal literature. As one of the major research databases within the suite of resources that have been developed by the National Center for Biotechnology Information (NCBI), PubMed
PubMed
Central is much more than just a document repository
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Digital Object Identifier
In computing, a Digital Object Identifier or DOI is a persistent identifier or handle used to uniquely identify objects, standardized by the International Organization for Standardization
International Organization for Standardization
(ISO).[1] An implementation of the Handle System,[2][3] DOIs are in wide use mainly to identify academic, professional, and government information, such as journal articles, research reports and data sets, and official publications though they also have been used to identify other types of information resources, such as commercial videos. A DOI aims to be "resolvable", usually to some form of access to the information object to which the DOI refers. This is achieved by binding the DOI to metadata about the object, such as a URL, indicating where the object can be found. Thus, by being actionable and interoperable, a DOI differs from identifiers such as ISBNs and ISRCs which aim only to uniquely identify their referents
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Nature Biotechnology
Nature Biotechnology
Biotechnology
is a peer reviewed scientific journal published monthly by the Nature Publishing Group. The chief editor is Andrew Marshall who is part of an in-house team of editors. The focus of the journal is biotechnology including research results and the commercial business sector of this field. Coverage includes the related biological, biomedical, agricultural and environmental sciences
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Ontology For Biomedical Investigations
The Ontology for Biomedical Investigations (OBI) is an open-access, integrated ontology for the description of biological and clinical investigations. OBI provides a model for the design of an investigation, the protocols and instrumentation used, the materials used, the data generated and the type of analysis performed on it. The project is being developed as part of the OBO Foundry and as such adheres to all the principles therein such as orthogonal coverage (i.e. clear delineation from other foundry member ontologies) and the use of a common formal language. In OBI the common formal language used is the Web Ontology Language (OWL)
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FGED Society
The Functional GEnomics Data Society (FGED) (formerly known as the MGED Society) is a non-profit, volunteer-run international organization of biologists, computer scientists, and data analysts that aims to facilitate biological and biomedical discovery through data integration
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United States
Coordinates: 40°N 100°W / 40°N 100°W / 40; -100 United States
United States
of AmericaFlagGreat SealMotto:  "In God
God
We Trust"[1][fn 1]Other traditional mottos  "E pluribus unum" (Latin) (de facto) "Out of many, one" "Annuit cœptis" (Latin) "He h
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The Arabidopsis Information Resource
The Arabidopsis Information Resource (TAIR) is a community resource and online model organism database of genetic and molecular biology data for the model plant Arabidopsis thaliana, commonly known as mouse-ear cress.[1] TAIR integrates information about the Arabidopsis genome, genes, gene products, natural variants, mutant alleles and plant phenotypes and research literature. Data in TAIR can be retrieved using simple and advanced searches, bulk query and download tools, and in collections of prepared text files. The Arabidopsis genome and annotations can be visualized using the interactive SeqViewer and GBrowse tools. TAIR’s biocurators are responsible for acquiring and integrating data from the research literature (functional annotation)[2] as well as for assisting the community in using Arabidopsis data and tools. TAIR collaborates with the Arabidopsis Biological Resource Consortium (ABRC) to allow researchers to search, browse and order seed and DNA stocks
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Rat Genome Database
The Rat Genome Database (RGD) is the premiere location for rat genomics, genetics, physiology and functional data, as well as data for comparative genomics between rat, human and mouse.[1] RGD is responsible for attaching biological information to the rat genome via structured vocabulary, or ontology, annotations assigned to genes and quantitative trait loci (QTL), and for consolidating rat strain data and making it available to the research community. RGD is working with groups such as the Programs for Genomic Applications[2] at MCW and the National BioResource Project for the Rat (NBPR-Rat) in Japan[3] to collect and make available comprehensive physiologic data for a variety of rat strains
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SGD
The Singapore
Singapore
dollar (sign: S$; code: SGD) is the official currency of Singapore. It is divided into 100 cents. It is normally abbreviated with the dollar sign $, or S$ to distinguish it from other dollar-denominated currencies
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Mouse Genome Informatics
Mouse Genome Informatics (MGI) is a free, online database and bioinformatics resource hosted by The Jackson Laboratory, with funding by The National Human Genome Research Institute (NHGRI), the National Cancer Institute (NCI) and the Eunice Kennedy Shriver National Institute of Child Health and Human Development (NICHD).[1] MGI provides access to data on the genetics, genomics and biology of the laboratory mouse to facilitate the study of human health and disease.[2][3] The database integrates multiple projects with the two largest contributions from the Mouse Genome Database and Gene Expression Database (GXD).[4] The Mouse Genome Informatics resource[5] is a collection of data, tools, and analyses created and tailored for use in the laboratory mouse, a widely used model organism
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