• Ideally, such controlled vocabularies take the form of ontologies, which support logical reasoning over the data annotated using the terms in the vocabulary. (wikipedia.org)
  • formerly Open Biomedical Ontologies) is an effort to create ontologies (controlled vocabularies) for use across biological and medical domains. (wikipedia.org)
  • Controlled vocabularies define a set of terms to be used for a given purpose (e.g., indexing the literature, annotating gene functions). (nih.gov)
  • Ontologies are data structures that are composed of controlled vocabularies, and the relations between them, that represent a piece of knowledge in a subject area. (osf.io)
  • It may surprise many to know that I am a great believer in ontologies and controlled vocabularies. (cameronneylon.net)
  • The initial set of OBO Foundry ontologies was composed by mature ontologies (such as the Gene Ontology, GO, and the Foundational Model of Anatomy, FMAO), by mergers of previously existing ontologies (ex: the Cell Ontology, CL, formed from different dedicated ontologies, and related parts on GO and FMAO) and by development of new ontologies based on its principles. (wikipedia.org)
  • The original set of ontologies also included the Zebrafish Anatomical Ontology (a part of the Zebrafish Information Network), the CheBI ontology, the Disease Ontology, the Plant Ontology, the Sequence Ontology, the Ontology for Biomedical Investigations and the Protein Ontology. (wikipedia.org)
  • The example I used in the talk was the Sequence Ontology terms relating to categories of DNA. (cameronneylon.net)
  • with a detailed description of the Plant Ontology (PO). (philpapers.org)
  • The reference ontologies include the Plant Ontology, Plant Trait Ontology, and the Plant Experimental Conditions Ontology developed by the Planteome project, along with the Gene Ontology, Chemical Entities of Biological Interest, Phenotype and Attribute Ontology, and others. (philpapers.org)
  • The Plant Ontology facilitates comparisons of plant development stages across species. (philpapers.org)
  • The Plant Ontology (PO) is a community resource consisting of standardized terms, definitions, and logical relations describing plant structures and development stages, augmented by a large database of annotations from genomic and phenomic studies. (philpapers.org)
  • The biomedical model is in fact so commonplace that it is easy to overlook how philosophically weighty (and contentious) its core commitments are: that health phenomena must be understood in terms of physical/biochemical entities and processes, that experimental techniques are the preferred means of acquiring and assessing health-related knowledge, and that human bodies are best understood as composed of a collection of subsidiary parts and processes (Krieger 2011: 130). (stanford.edu)
  • Biomedical ontologies provide an organizational framework of the concepts involved in biological entities and processes in a system of hierarchical and associative relations that allows reasoning about biomedical knowledge. (nih.gov)
  • Using RO relations, GO-CAMs link GO annotations together with biological entities and external ontology terms to model how a gene functions in the broader context of a biological process or pathway. (geneontology.org)
  • The FMA represents anatomical entities from a very fine granularity such as the biological molecules to cells, tissues, organs, organ systems, major body parts, up to the entire body. (washington.edu)
  • Quine sees science and philosophy as one and the same enterprise, and objects to ontologies that include types of entities that science can't, even in principle, study. (partiallyexaminedlife.com)
  • The benefit of using top-level ontologies in applied ontology can only be … Suppose that sitting on a desk before A is, In application to matters of ontology, realism is standardly applied to doctrines which assert the existence of entities of some problematic or controversial kind. (com.sa)
  • Our investigation in the state-of-the-art hazard-related conceptualization (i.e., taxonomy, vocabulary and ontology) revealed existing of a … Total Assets Managed by the Ontology Foundation and Related Development Entities. (com.sa)
  • But there is another part to that definition that will help us in the following sections, and that is ontology is usually also taken to encompass problems about the most general features and relations of the entities which do exist. (com.sa)
  • The proposal here is that what we encounter as entities and events that appear to be either physical or mental are in fact manifestations of some more basic ontology that includes both types of mechanism. (asymmetricalbook.com)
  • Biomedical ontologies are sets of terms and relations that represent entities in the scientific world and how they relate to each other. (biomedcentral.com)
  • There are currently more than 150 biomedical ontologies and 700,000 entities in the NCBO BioPortal http://bioportal.bioontology.org/ . (biomedcentral.com)
  • Uberon is a core resource that supports single- and cross-species queries for candidate genes using annotations for phenotypes from the systematics, biodiversity, medical, and model organism communities, while also providing entities for logical definitions in the Cell and Gene Ontologies. (biomedcentral.com)
  • While this works well when using a single ontology, integrating multiple ontologies can be problematic, as they are developed independently, which can lead to incompatibilities. (philpapers.org)
  • Here we present the unification of anatomy ontologies into Uberon, a single ontology resource that enables interoperability among disparate data and research groups. (biomedcentral.com)
  • The OBO Foundry establishes a set of principles for ontology development for creating a suite of interoperable reference ontologies in the biomedical domain. (wikipedia.org)
  • The Planteome database: an integrated resource for reference ontologies, plant genomics and phenomics. (philpapers.org)
  • The National Center for Biomedical Ontology (NCBO) in collaboration with the Protein Ontology (PRO) and the Infectious Disease Ontology (IDO) will host a three-day dissemination workshop in Buffalo, NY on June 11-13, 2012. (bioontology.org)
  • OBO ontologies form part of the resources of the National Center for Biomedical Ontology, where they form a central component of the NCBO's BioPortal. (wikipedia.org)
  • OBO forms part of the resources of the U.S. National Center for Biomedical Ontology (NCBIO) and a central element of the NCBO's BioPortal. (wikipedia.org)
  • The FMA stands for Foundational Model of Anatomy ontology. (washington.edu)
  • The Foundational Model of Anatomy ontology is one of the information resources integrated in the distributed framework of the Anatomy Information System developed and maintained by the Structural Informatics Group at the University of Washington . (washington.edu)
  • The Gene Ontology contains a wealth of terms covering immune system processes for the annotation of proteins involved in the functioning of the immune system. (bioontology.org)
  • I will provide a overview of these terms and their use in GO annotation. (bioontology.org)
  • 2) The term-centric view of GO annotation data and the fact that all information is stored in a single file. (biomedcentral.com)
  • As genomic and phenomic data become available for more species, we anticipate that the annotation of data with ontology terms will become less centralized, while at the same time, the need for cross-species queries will become more common, causing more researchers in plant science to turn to ontologies. (philpapers.org)
  • To support the selection of the databases suitable for a particular application, the 'Task specific information' tabs within 'Lipid Oriented Databases' section provide an overview of the database functionalities, including the number of included lipid structures, structural ontology, covered lipid (sub)classes, levels of curation and annotation. (analisedeseo.com)
  • Standard GO annotations may further be qualified using annotation extensions that provide additional biological context to a GO term using a relation from the [http://www.obofoundry.org/ontology/ro.html Relations Ontology (RO)] and a term from GO or an external ontology, e.g. [http://uberon.github.io/ UBERON]. (geneontology.org)
  • To provide more comprehensive annotation of genes and link their activities in a causal framework, the GO developed [http://geneontology.org/docs/gocam-overview/ GO-CAMs]. (geneontology.org)
  • Noctua: the Gene Ontology's GO-CAM Annotation Tool == [http://noctua.geneontology.org/ Noctua] is a web-based, collaborative [http://geneontology.org/ Gene Ontology (GO)] annotation tool developed by the GO Consortium. (geneontology.org)
  • Primary annotations based on sequence similarity are linked to networks of systematic annotation in Gene Ontology (GO) and the Kyoto Encyclopedia of Genes and Genomes (KEGG) and can be queried and computationally utilized in downstream analyses. (biomedcentral.com)
  • Compared to an initial implementation of MIREOT, OntoFox allows additional and more easily configurable options for selecting and rewriting annotation properties, and for inclusion of all or a computed subset of terms between low and top level terms. (biomedcentral.com)
  • We will introduce users to the Open Biological and Biomedical Ontologies (OBO) foundry community and their founding principles, as well as explore practical examples and applications using the Genomic Epidemiology Ontology (GenEpiO) and the Food Ontology (FoodOn). (osf.io)
  • I also provide, and in reference to the normative goals described above, several arguments for preferring a social ontology of natural kinds with historical essences. (degruyter.com)
  • Research: I am interested in the philosophy of action, broadly conceived, as well as the philosophy of psychology/cognitive science and social ontology. (lu.se)
  • In Reactome we have integrated annotations of human TLR molecular functions with those of 6800 other human proteins involved in diverse biological processes to generate a resource suitable for data mining, pathway analysis, and other systems biology approaches. (bioontology.org)
  • The most renowned biological ontology, Gene Ontology (GO) is widely used for annotations of genes and gene products of different organisms. (biomedcentral.com)
  • As of August 2007, it contains approximately 23,700 terms, linked to a database of more than 16 million annotations of genes and gene products, originating from about 20 organisms. (biomedcentral.com)
  • The Planteome project provides a suite of reference and species-specific ontologies for plants and annotations to genes and phenotypes. (philpapers.org)
  • Standard annotations are defined as an association between a gene and a biological concept from one of the [http://geneontology.org/docs/ontology-documentation/ three GO aspects]: Molecular Function (MF), Biological Process (BP), and Cellular Component (CC). Standard annotations always contain a reference (either a published, peer-reviewed paper or internal GO reference) and an evidence code that indicates the type of experiment or method used to make the assertion. (geneontology.org)
  • GO-CAM Models ==== While standard GO annotations are very useful for discerning basic information about genes, they provide only a partial view of each gene's role in a larger biological context. (geneontology.org)
  • Initial implementations allow for controlled import of selected annotations and certain classes of related terms. (biomedcentral.com)
  • OntoFox http://ontofox.hegroup.org/ is a web-based system that allows users to input terms, fetch selected properties, annotations, and certain classes of related terms from the source ontologies and save the results using the RDF/XML serialization of the Web Ontology Language (OWL). (biomedcentral.com)
  • It does so by offering a structured reference for terms of different research fields and their interconnections (ex: a phenotype in a mouse model and its related phenotype in zebrafish). (wikipedia.org)
  • In-depth biological analysis of connected genes in ANDnet and XORnet revealed genes that are related to energy metabolism, cell cycle control (AATF), immune system response, and several cancer types. (researchgate.net)
  • The Open Biological and Biomedical Ontologies (OBO) Foundry is a group of people dedicated to build and maintain ontologies related to the life sciences. (wikipedia.org)
  • Currently, there are more than a hundred ontologies that follow the OBO Foundry principles. (wikipedia.org)
  • The formalization of concepts in the biomedical domain is especially known via the work of the Gene Ontology Consortium, a part of the OBO Foundry. (wikipedia.org)
  • This has led to the development of certain proposed principles of good practice in ontology development, which are now being put into practice within the framework of the Open Biomedical Ontologies consortium through its OBO Foundry initiative. (wikipedia.org)
  • A subset of the original OBO ontologies has started the OBO Foundry, which leads the OBO efforts since 2007. (wikipedia.org)
  • The OBO Foundry community is also dedicated to developing tools to facilitate creating and maintaining ontologies. (wikipedia.org)
  • To facilitate command line management of ontologies in a Protégé- and OWL-compatible format, the OBO Foundry has developed the tool ROBOT (ROBOT is an OBO Tool). (wikipedia.org)
  • The number of ontologies in OBO has grown to the order of hundreds, and they are gathered in the list of OBO Foundry ontologies. (wikipedia.org)
  • A number of different OBO Foundry ontologies have also been integrated to the Wikidata knowledge graph. (wikipedia.org)
  • OBO Foundry in 2021: Operationalizing Open Data Principles to Evaluate Ontologies. (philpapers.org)
  • The Open Biological and Biomedical Ontologies Foundry was created to address this by facilitating the development, harmonization, application, and sharing of ontologies, guided by a set of overarching principles. (philpapers.org)
  • To promote collaboration and interoperability between different projects, the OBO Foundry principles require that these ontologies be open and non-redundant, avoiding duplication of terms through the re-use of existing resources. (biomedcentral.com)
  • One way of meeting the goal of interoperability is to reuse existing resources by importing them into the to-be-created ontology. (biomedcentral.com)
  • As a Semantic Web application domain, Gene Ontology Consortium provides a RDF-XML data file http://archive.geneontology.org/full/2007-08-01/go_200708-assocdb.rdf-xml.gz . (biomedcentral.com)
  • The newly broadened Uberon ontology is a unified cross-taxon resource for metazoans (animals) that has been substantially expanded to include a broad diversity of vertebrate anatomical structures, permitting reasoning across anatomical variation in extinct and extant taxa. (biomedcentral.com)
  • An ontology includes the specific instantiation of the model, not just the abstract model itself. (com.sa)
  • And, if God, … Abstract: In the last years, the development of ontology-based applications has increased considerably, mainly related to the semantic web. (com.sa)
  • [1] value frameworks grounded in abstract universals. (theanarchistlibrary.org)
  • Bio-ontologies are essential tools for accessing and analyzing the rapidly growing pool of plant genomic and phenomic data. (philpapers.org)
  • That being said, this course is not limited to individuals who work within genomic and epidemiological frameworks - our aim is to support users in solving practical data-quality problems using open access ontologies across disciplines. (osf.io)
  • It is an export of the database, containing both the GO vocabulary and associations between GO terms and gene products. (biomedcentral.com)
  • Ontology (information science) In computer science and information science, an ontology formally represents knowledge as a hierarchy of concepts within a domain, using a shared vocabulary to denote the types, properties and interrelationships of those concepts. (pearltrees.com)
  • Very often the fit isn’t very good, and more seriously, it is rarely clear why or how to go about adapting or choosing the right ontology or vocabulary. (cameronneylon.net)
  • Other tool related to the OBO effort is OBO-Edit, an ontology editor and reasoner funded by the Gene Ontology Consortium. (wikipedia.org)
  • However, there are shortcomings in the Resource Description Framework (RDF) data file provided by the GO consortium: 1) Lack of sufficient semantic relationships between pairs of terms coming from the three independent GO sub-ontologies, that limit the power to provide complex semantic queries and inference services based on it. (biomedcentral.com)
  • International Conference on Biomedical Ontology and BioCreative (ICBO BioCreative 2016). (oregonstate.edu)
  • Conclusions: Bio-ontologies offer a flexible framework for comparative plant biology, based on common botanical understanding. (philpapers.org)
  • http://www.ebi.ac.uk/chebi/ ) currently includes over 455,000 terms. (biomedcentral.com)
  • As a community effort, standard common mappings have been created for lossless roundtrip transformations between Open Biomedical Ontologies (OBO) format and OWL. (wikipedia.org)
  • We propose a RDF model, GORouter , which encodes heterogeneous original data in a uniform RDF format, creates additional ontology mappings between GO terms, and introduces a set of inference rulebases. (biomedcentral.com)
  • It is a framework, a set of philosophical commitments, a global institution woven into Western culture and its power dynamics, and more. (stanford.edu)
  • This entry will review the philosophical literature (and some literature in allied fields, such as history of medicine) that scrutinizes the biomedical framework itself, in whole or in part. (stanford.edu)
  • This concern with meaning has an obvious application in connection with Husserl's theory of language, but it is no less a focus for his philosophical logic, ontology, phenomenology and what Husserl himself called 'axiology' (value theory). (nd.edu)
  • Ontology, the philosophical study of being in general, or of what applies neutrally to everything that is real. (com.sa)
  • There are ontologies that follow OBO principles but are not officially part of OBO, such as eagle-i's Reagent Application Ontology. (wikipedia.org)
  • It is based on the principles of Web Ontology Language (OWL). (wikipedia.org)
  • We have applied these checks across the full OBO suite of ontologies, revealing areas where individual ontologies require changes to conform to our principles. (philpapers.org)
  • This paper provides background on what bio-ontologies are, why they are relevant to botany, and the principles of ontology development. (philpapers.org)
  • This paper describes the structure of the ontology and the design principles we used in constructing PO terms for plant development stages. (philpapers.org)
  • These principles require that member ontologies be open, orthogonal, expressed in a common shared syntax, and designed to possess a common space of identifiers. (biomedcentral.com)
  • Welcome** ### Introduction to Data Curation using Ontologies - FAIR Datasets and Community Collaboration The ways in which people encode meaning into text are complex. (osf.io)
  • The growing need for integration of diverse and heterogeneous data sets from distinct communities of scientists in separate biological research fields has thus been the major driving force to migrate from traditional XML to Semantic Web [ 2 ]. (biomedcentral.com)
  • This entailed a substantial effort to curate metadata across all ontologies and to coordinate with individual stakeholders. (philpapers.org)
  • This standard (ISA-TAB-Nano) specifies the format for representing and sharing information about nanomaterials, small molecules and biological specimens along with their assay characterization data (including metadata, and summary data) using spreadsheet or TAB-delimited files. (nih.gov)
  • What was interesting was the process of then mapping our terms and metadata onto designed vocabularies. (cameronneylon.net)
  • Thesauri organize the terms in a system of relations designed to help navigate among terms as needed, for example, in information retrieval tasks. (nih.gov)
  • Biological ontologies are used to organize, curate, and interpret the vast quantities of data arising from biological experiments. (philpapers.org)
  • Every academic discipline or field creates ontologies to limit complexity and organize data into information and knowledge. (com.sa)
  • access to species-specific Crop Ontologies developed by various plant breeding and research communities from around the world. (philpapers.org)
  • Although more than sixty terminological systems exist in the biomedical domain, few actually qualify as an ontology. (nih.gov)
  • The FMA is a reference ontology for the domain of anatomy. (washington.edu)
  • Single-species model organism anatomy ontologies (ssAOs) have been established to represent this variation. (biomedcentral.com)
  • Unfortunately this did not resolve all these issues, as CARO was not designed to provide a large set of terms for specific structures shared across species, but rather to provide an organizational framework for constructing anatomy ontologies. (biomedcentral.com)
  • The methodology can be used to bootstrap the construction of semantically rich biological models using the results of knowledge extraction processes. (biomedcentral.com)
  • Biological Processes in GO-CAMs ==== * The ultimate aim of GO-CAMs is to create a suite of Biological Process (BP)-centric models that can be used to interrogate causal effects of molecular activities on one another as part of the execution of a larger BP. (geneontology.org)
  • This type of diversity in materials raises questions about the meaning of obsolescence and potential values of material engagement with biological processes and trajectories. (iiconservation.org)
  • This type of "systems-level" analysis is critical to the understanding of patterns of gene expression that underlie biological processes. (biomedcentral.com)
  • Day 3 will include a session devoted to the use of ontologies to assist clinicians working with infectious disease data, followed by a session on the Ontology for General Medical Science. (bioontology.org)
  • To identify and coordinate activities on-going in immunology ontology and related fields, with special attention to the use of ontologies to support clinical data analysis in flow cytometry and related fields. (bioontology.org)
  • Ontologies provide structured vocabularies to support consistent aggregation of data and a semantic framework for automated analyses and reasoning. (philpapers.org)
  • Furthermore, there has been very limited success in using non-standardized data to represent or derive structure-activity-relationships (SARs) that are critical for understanding the effects of nanomaterial structure on biological activity in nanomedicine. (nih.gov)
  • Ontologies serve as common standards for semantic integration of a large and growing corpus of plant genomics, phenomics and genetics data. (philpapers.org)
  • We provide integrated data on plant traits, phenotypes, and gene function and expression from 95 plant taxa, annotated with reference ontology terms. (philpapers.org)
  • This is a course not on how to develop an ontology, nor on the underlying data models, but rather on how a data curator can engage in ontology practices to support their FAIR data objectives. (osf.io)
  • Over three sessions we will cover what ontologies are, how to access and explore ontologies, finding and evaluating appropriate ontology terms, annotating spreadsheet data, and how to make new term requests. (osf.io)
  • Audience:** Researchers, Data Curators **Original Course Dates:** July 26th-28th, 2022 **Total Length:** 3 hours (1 hr/session) + optional exercises --- **Level:** Beginner **Requirements:** This course is for beginners with no prior experience in ontologies, but basic computer skills are expected. (osf.io)
  • Arguably, a conceptualization is about con- The figure below illustrates the consequent impact of ontology on the choice of research methods via epistemology, research approach, research strategy and methods of data collection and data analysis. (com.sa)
  • An integrated framework for cDNA library production, sequencing, quality control, expression data generation, and systems-level analysis is presented and utilized. (biomedcentral.com)
  • and (3) approaches to ally, understanding ADME leads to a more complete use of integrating PBPK model outputs with other HHRA tools, including biological and toxicological data to support route-to-route and benchmark dose modeling. (cdc.gov)
  • Biomedicine is the umbrella theoretical framework for most health science and health technology work done in academic and government settings. (stanford.edu)
  • Harren's paper highlights the issues of "managing material indeterminacy" in the Fluxus art movement, which calls for theoretical frameworks to support artworks beyond traditional points of reference within museum collections. (iiconservation.org)
  • 2009). On the other hand, emergence of Jung's conception of a complex according to Brooke (2009) the emergence of a psyche that cannot be explained only in physi- poetic thought in Jung would never have been ological, biological, neurological and/or ana- systematically exposed in a clear theoretical/ tomical terms. (bvsalud.org)
  • Thesauri are often limited to tasks such as information retrieval, whereas ontologies support reasoning. (nih.gov)
  • Additional methods for including related classes include a SPARQL-based ontology term retrieval algorithm that extracts terms related to a given set of signature terms and an option to extract the hierarchy rooted at a specified ontology term. (biomedcentral.com)
  • OntoFox currently supports term retrieval from a selection of 15 ontologies accessible via SPARQL endpoints and allows users to extend this by specifying additional endpoints. (biomedcentral.com)
  • Databases that curate individual lipid structures, both from historical and new publications into organized repositories are essential for researchers who aim to identify the specific molecules present in their biological samples. (analisedeseo.com)
  • Manifestations of health and disease can be thought of as properties (i.e., attributes) of anatomical structures ranging in size from biological macromolecules to cells, tissues, organs, organ systems and body parts. (washington.edu)
  • Individuals in every historical period require mental frameworks in terms of which to understand and represent the social structures and relations within which they live. (blogspot.com)
  • Applicants to this FOA should propose work to solve a substantial biological problem for which the determination of many protein structures is necessary. (nih.gov)
  • The framework of mad studies is used to investigate how both the works and personas of Plath and Swift have been received and interpreted through the lens of modernist, sanist social structures. (lu.se)
  • We will outline use of the ontology for immune assay integration and statistical enrichment analysis. (bioontology.org)
  • GO-CAMs thus provide structured descriptions of biological systems and allow for interrogation of causal events in biology through use of clearly defined, and consistently applied, semantics. (geneontology.org)
  • GO-CAM models are constructed by filling in as many pieces of relevant information in an Activity Unit as possible and then linking different Activity Units in a causal chain to model a biological process. (geneontology.org)
  • Many scientific approaches base their ontologies on causal relationships between specific parts (determinism, atomism). (berghahnjournals.com)
  • You are using the Cyverse mirror of the Planteome Ontology Browser. (planteome.org)
  • Semantics in Support of Biodiversity: An Introduction to the Biological Collections Ontology and Related Ontologies. (philpapers.org)
  • The idea was also to propose a framework where the SWEGENE platform users would get computerised support for their research projects. (lu.se)
  • The creation of OBO in 2001 was largely inspired by the efforts of the Gene Ontology project. (wikipedia.org)
  • Integration of gene expression and methylation to unravel biological networks in glioblastoma patients: Gadaleta et al. (researchgate.net)
  • Use of GO in GO-CAMs === ==== Molecular Activities in GO-CAMs ==== * Wherever possible, curators should strive to select the single most granular GO Molecular Function (MF) term that best describes the overall activity of the gene, gene product, or protein-containing complex being annotated. (geneontology.org)
  • The Gene Ontology (GO) is a set of associations from biological phrases to specific genes that are either chosen by trained curators or generated automatically. (com.sa)
  • 10,000) and affected by historical, demographic and selective constraints, providing a framework for the partitioning of variation in gene expression within and among populations. (biomedcentral.com)
  • The first 18 months into the SWEGENE project, the fourth main effort within SWEGENE, bioinformatics, has not produced a proposal on how to meet the needs of the current bio- logical problem domain, or how they should advance into the near, and long term, future research areas within computational biology. (lu.se)
  • Microarrays from diverse EST collections offer opportunities to address many biological problems, but to effectively use this information often requires a locally generated bioinformatics approach. (biomedcentral.com)
  • Both can be shared, but ontologies lend themselves to reuse, sometimes in widely differing applications from the ones for which they were originally designed. (nih.gov)
  • OntoFox provides a timely publicly available service, providing different options for users to collect terms from external ontologies, making them available for reuse by import into client OWL ontologies. (biomedcentral.com)
  • Nevertheless, individual terms in such ontologies may be well-defined and therefore desirable to reuse. (biomedcentral.com)
  • This FOA encourages applications to establish partnerships between researchers interested in a biological problem of significant scope and researchers providing high-throughput structure determination capabilities through the NIGMS PSI:Biology network. (nih.gov)
  • ROBOT aggregates functions for routine tasks in ontology development, is open source, and can be used either via the command line or as a library for any language on the Java Virtual Machine. (wikipedia.org)
  • There are also plugins for OBO-Edit which facilitate the development of ontologies, such as the semi-automatic ontology generator DOG4DAG. (wikipedia.org)
  • Ontology development is a rapidly growing area of research, especially in the life sciences domain. (biomedcentral.com)
  • An OntoFox application in the development of the Vaccine Ontology (VO) is demonstrated. (biomedcentral.com)
  • The development of a new biomedical ontology covering a specific domain is often an ambitious, time-consuming project, usually requiring extensive cross-community collaboration. (biomedcentral.com)
  • For example, the source ontology may be too large for editing tools, use different design patterns, or be at an early stage of development. (biomedcentral.com)
  • An integration into OBO of the OntoClean's theory of rigidity has been proposed as a step to standardize candidate ontologies. (wikipedia.org)
  • Where I differ with many is that assumption that because an ontology exists it provides the best means of recording my research. (cameronneylon.net)
  • Day 1 will provide a survey of current ontology-based research in immunology and infectious disease with a view to future coordination among ontology developers and users in this field. (bioontology.org)
  • The Obol project proposed a formal language to provide computable definitions that serve to differentiate a term from other similar terms [ 5 ]. (biomedcentral.com)
  • Service Quality Ontology mainly defines the QoS-related concepts about telecommunications service, including access (2012) "Social Research Methods" 4th edition, Oxford University Press, [4] Bryman, A. Service Quality Ontology: A telecommunication network must provide the services which have the end-to-end QoS guarantee. (com.sa)
  • It is vital to recognize that both ontology and epistemology are mainly based on the researchers beliefs and personal persuasion about the conception of world and have certain methodological consequences (Hay, 2002: p. 61). (com.sa)
  • It is expected that these awards will lead to new collaborations between researchers emphasizing biological function and researchers emphasizing biological structure. (nih.gov)
  • GO has three independent subontologies, Cellular Component, Biological Process and Molecular Function. (biomedcentral.com)
  • Will describe initial work on an ontology of cellular immune networks that is designed to capture the qualitative cytokine expression patterns and cellular phenotypes associated with specific immune activation networks (e.g. (bioontology.org)
  • Likewise, to carry out these environmental education strategies, it is important to know some specific parameters, such as biological diversity and conservation, in addition to the conservation policies carried out by each nation. (bvsalud.org)