PSI-MOD is an ontology consisting of terms that describe protein chemical modifications. a single point of access to the latest ontology versions. Thereby covering clinicaltrails.gov. biotype gene ontology transcript written 23 months ago by lkianmehr • 50 • updated 23 months ago by EagleEye ♦ 6.7k. Geopolitical ontology, an ontology describing geopolitical information created by Food and Agriculture Organization(FAO). An ontology describing the anatomical structures and characteristics of Porifera (sponges). The Sickle Cell Disease Ontology (SCDO) project is a collaboration between H3ABioNet (Pan African Bioinformatics Network) and SPAN (Sickle Cell Disease Pan African Network). Contribute to EBISPOT/OLS development by creating an account on GitHub. It contains detailed information on licensing and formats as well as software applications themselves, mainly (but not limited) to the bioinformatics community. The ontology leverages (imports) primarily from the CDAO (Comparative Data Analysis Ontology), PROV (W3C Provenance Ontology), and SWO (Software Ontology, which includes the EDAM ontologies) ontologies. the website as well as programmatically via the OLS API. The Ontology for Parasite Lifecycle (OPL) models the life cycle stage details of various parasites, including Trypanosoma sp., Leishmania major, and Plasmodium sp., etc. A structured controlled vocabulary of the anatomy and development of the Zebrafish. Furthermore, ongoing work will implement a model of genotype-to-phenotype associations. An ontology to support comparative effectiveness researchers studying claims data. Includes terms for the descriptors commonly used in cheminformatics software applications and the algorithms which generate them. This will allow direct connection between chemical structures (small molecules, drugs) and what they do. OGI formalized the genomic element by defining an upper class 'genetic interval'. An ontology for the development and anatomy of Amphioxus (Branchiostoma lanceolatum). iri. Ontology to reproducibly study visualizations of clinical performance. our GitHub issue tracker. (http://ceur-ws.org/Vol-559/Poster2.pdf) Pathogen-Host Interaction database Ontology used by Ensembl. A structured controlled vocabulary for the annotation of experiments concerned with proteomics mass spectrometry. OArCS is an ontology describing the Arthropod ciruclatory system. Application ontology for human cell types, anatomy and development stages for the Human Cell Atlas. An ontology covering the taxonomy of teleosts (bony fish), Elucidating the mechanism of toxicity is crucial in drug safety evaluations. Vaccine adverse events have been used as an initial testing use case. go. FoodOn (http://foodon.org) is a consortium-driven project to build a comprehensive and easily accessible global farm-to-fork ontology about food, that accurately and consistently describes foods commonly known in cultures from around the world. The Gene Ontology consists of … All main BAO components include multiple levels of sub-categories and specification classes, which are linked via object property relationships forming an expressive knowledge-based representation. Conditions under which physiological and morphological measurements are made both in the clinic and in studies involving humans or model organisms. and i wanna analyse my data in that way ( significantly differentially regulated transcripts Enrichment analysis against unchanged background transcripts ). Uberon is an integrated cross-species anatomy ontology representing a variety of entities classified according to traditional anatomical criteria such as structure, function and developmental lineage. This theory is implemented using OWL-DL and OBO Relation Ontology relations and is available in OWL and OBO formats. In applied work, we have developed a prototype of TOXPILOT, a TOXic Process InterpretabLe knOwledge sysTem. The Virus Infectious Disease Ontology (IDO Virus) is an extension of the Infectious Disease Ontology (IDO). 1st, 2009. OAE is a community-based ontology. A structured controlled vocabulary for sequence annotation, for the exchange of annotation data and for the description of sequence objects in databases. Continuous integration to keep the database up-to-date. A biological ontology to standardize and integrate Integrative and Conjugative Element (ICE) information and to support computer-assisted reasoning. It integrates a nosology (classification of rare diseases), relationships (gene-disease relations, epiemological data) and connections with other terminologies (MeSH, UMLS, MedDRA),databases (OMIM, UniProtKB, HGNC, ensembl, Reactome, IUPHAR, Geantlas) or classifications (ICD10). An ontology to represent medically relevant actions, procedures, therapies, interventions, and recommendations. An ontology for description of concepts in the nutritional studies domain. The representation of characters and transformations may depend on imported ontologies for a specific type of character. list, OLS announce mailing The current ontologies of the GO project are molecular function, biological process, and cellular component. 0. answers. Perturbagens are perturbing agents that are screened in an assay; they are mostly small molecules. This ontology is currently under development. An ontology for the description of Drosophila melanogaster phenotypes. The OLS ontology id e.g. This knowledge is both human-readable and machine-readable, and is a foundation for computational analysis of large-scale molecular biology and … The Informed Consent Ontology (ICO) is an ontology for the informed consent and informed consent process in the medical field. The Human Phenotype Ontology (HPO) provides a standardized vocabulary of phenotypic abnormalities and clinical features encountered in human disease. The Oral Health and Disease Ontology was created, initially, to represent the content of dental practice health records. between and including two points (Nucleic Acid Base Residue) on a chromosome or RNA molecule which must have a liner primary sequence sturcture." The ontology builds on previous efforts from the FoodOn, DRON, ChEBI, and DIDEO ontologies as well as the Thériaque database. INO is a community-driven ontology, aligns with BFO, and is developed by following the OBO Foundry principles. An anatomical and developmental ontology for cephalopods. The Ontology Lookup Service (OLS) provides access to over 150 public biomedical ontologies. OHPI is developed by following the OBO Foundry Principles (e.g., openness and collaboration). OGMS is based on the papers Toward an Ontological Treatment of Disease and Diagnosis and On Carcinomas and Other Pathological Entities. The Comparative Data Analysis Ontology (CDAO) provides a framework for understanding data in the context of evolutionary-comparative analysis. Browse Terms; Browse Properties; Ontology history; Ontology information. The Plant Ontology is a structured vocabulary and database resource that links plant anatomy, morphology and growth and development to plant genomics data. Gene Ontology Help OLE1 / YGL055W Gene Ontology GO Annotations consist of four mandatory components: a gene product, a term from one of the three Gene Ontology (GO) controlled vocabularies (Molecular Function, Biological Process, and Cellular Component), a reference, and an evidence code. A set of interoperable ontologies that will together provide coverage of the infectious disease domain. The Genomic Epidemiology Ontology (GenEpiO) covers vocabulary necessary to identify, document and research foodborne pathogens and associated outbreaks. OGMS provides a formal theory of disease that can be further elaborated by specific disease ontologies. That is, accurate and verifiable values, derived from elemental compositions, for the mass differences introduced by all types of natural and artificial modifications. An ontology built for annotation and modeling of biobank repository and biobanking administration. This ontology lists all variables used for woody plant observations. The Gene Ontology (GO) provides a framework and set of concepts for describing the functions of gene products from all organisms. An ontology for spider comparative biology including anatomical parts (e.g. An application ontology to represent genetic susceptibility to a specific disease, adverse event, or a pathological process. IDO Virus follows OBO Foundry guidelines, employs the Basic Formal Ontology as its starting point, and covers epidemiology, classification, pathogenesis, and treatment of terms used by Virologists, i.e. Catalyzes the first step in the cannabinoids biosynthetic pathway. list. SO was initially developed by the Gene Ontology Consortium. It derived from the Orphanet database (www.orpha.net ) , a multilingual database dedicated to rare diseases populated from literature and validated by international experts. The anatomy of the Tick, Families: Ixodidae, Argassidae, A vocabulary of taxonomic ranks (species, family, phylum, etc). In addition, many classes and properties have GENO URIs but are place holders for classes that will be imported from an external ontology (e.g. Brief Summary of GO. The MIAPA ontology is intended to be an application ontology for the purpose of semantic annotation of phylogenetic data according to the requirements and recommendations of the Minimum Information for A Phylogenetic Analysis (MIAPA) metadata reporting standard. The Cell Cycle Ontology extends existing ontologies for cell cycle knowledge building a resource that integrates and manages knowledge about the cell cycle components and regulatory aspects. The OBO Relations Ontology (RO) is a collection of OWL relations (ObjectProperties) intended for use across a wide variety of biological ontologies. The Mental Functioning Ontology is an overarching ontology for all aspects of mental functioning. Controlled vocabulary pertaining to RNA function and based on RNA sequences, secondary and three-dimensional structures. Curators: Celia Michotey (INRAE) & Ines Chaves (IBET) - Version 2 submitted on Jun 2020 by INRAE. An ontology for mouse anatomy covering embryonic development and postnatal stages. The approaches described above focus on the problem of accurately interpreting the number of differentially expressed genes associated with a gene ontology term. An ontological representation of protein-related entities. To browse curated and inferred GO annotations, visit AmiGO. The Behaviour Change Intervention Ontology is an ontology for all aspects of human behaviour change interventions and their evaluation. Ontologies are computational structures that describe the entities and relationships of a domain of interest in a structured computable format, which allows for their use in multiple applications [ … A formal ontology of genes and genomes of biological organisms. The Food Interactions with Drugs Evidence Ontology (FIDEO) represents Food-Drug Interactions and underlying interaction mechanisms described in scientific publications, drug and adverse effects databases, and drug interactions compendia. GO analysis is widely used to reduce complexity and highlight biological processes in genome-wide expression studies, but standard methods give biased results on RNA-seq data due to over-detection of differential expression for long and highly expressed transcripts. OHPI is a biomedical ontology in the area of host-pathogen interactions. Weekly updates are available at the Mouse Genome Informatics (MGI) ftp site (ftp://ftp.informatics.jax.org/pub/reports/index.html#pheno) as well as the OBO Foundry site (http://obofoundry.org/). Version: WS278 All. Zooma is a service to assist in The MHC Restriction Ontology is an application ontology capturing how Major Histocompatibility Complex (MHC) restriction is defined in experiments, spanning exact protein complexes, individual protein chains, serotypes, haplotypes and mutant molecules, as well as evidence for MHC restrictions. The variety of organisms standard terminology for describing the function of genes gene! Order to understand more sophisticated GO analysis methods we need to learn a few more things about the gene Term... Other concepts used to locate the Term ‘ GO:001250 ’ Edition project to... Information for other organisms ( e.g an upper Class 'genetic interval ' sequence features used in plant experiments..., openness and collaboration ), both of biological and clinical features encountered in human disease the most biological. 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