{"id":13318205,"url":"https://github.com/OGMS/ogms","last_synced_at":"2025-03-11T01:31:46.336Z","repository":{"id":33045876,"uuid":"36681806","full_name":"OGMS/ogms","owner":"OGMS","description":"Automatically exported from code.google.com/p/ogms","archived":false,"fork":false,"pushed_at":"2022-04-19T14:09:34.000Z","size":2936,"stargazers_count":18,"open_issues_count":61,"forks_count":17,"subscribers_count":20,"default_branch":"master","last_synced_at":"2023-03-06T03:12:03.671Z","etag":null,"topics":["obofoundry"],"latest_commit_sha":null,"homepage":"","language":"Common Lisp","has_issues":true,"has_wiki":null,"has_pages":null,"mirror_url":null,"source_name":null,"license":"cc-by-4.0","status":null,"scm":"git","pull_requests_enabled":true,"icon_url":"https://github.com/OGMS.png","metadata":{"files":{"readme":"README.md","changelog":null,"contributing":null,"funding":null,"license":"LICENSE","code_of_conduct":null,"threat_model":null,"audit":null,"citation":null,"codeowners":null,"security":null,"support":null}},"created_at":"2015-06-01T18:57:12.000Z","updated_at":"2022-09-22T00:57:33.000Z","dependencies_parsed_at":"2022-08-29T19:11:53.985Z","dependency_job_id":null,"html_url":"https://github.com/OGMS/ogms","commit_stats":null,"previous_names":[],"tags_count":null,"template":null,"template_full_name":null,"repository_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/OGMS%2Fogms","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/OGMS%2Fogms/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/OGMS%2Fogms/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/OGMS%2Fogms/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/OGMS","download_url":"https://codeload.github.com/OGMS/ogms/tar.gz/refs/heads/master","host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":221201899,"owners_count":16775438,"icon_url":"https://github.com/github.png","version":null,"created_at":"2022-05-30T11:31:42.601Z","updated_at":"2022-07-04T15:15:14.044Z","host_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub","repositories_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories","repository_names_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repository_names","owners_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners"}},"keywords":["obofoundry"],"created_at":"2024-07-29T18:29:51.386Z","updated_at":"2024-10-23T13:31:47.787Z","avatar_url":"https://github.com/OGMS.png","language":"Common Lisp","funding_links":[],"categories":[],"sub_categories":[],"readme":"\u003ch1\u003eAbout the Ontology for General Medical Science\u003c/h1\u003e\n\u003ci\u003eYou can get the OWL version of OGMS at http://purl.obolibrary.org/obo/ogms.owl.\u003c/i\u003e\n\n\nThe Ontology for General Medical Science (OGMS) is an ontology of entities involved in a clinical encounter.  OGMS includes very general terms that are used across medical disciplines, including: 'disease', 'disorder', 'disease course', 'diagnosis', 'patient', and 'healthcare provider'.  OGMS uses the \u003ca href=\"http://www.ifomis.org/bfo/\"\u003eBasic Formal Ontology (BFO)\u003c/a\u003e as an upper-level ontology. The scope of OGMS is restricted to humans, but many terms can be applied to a variety of organisms.  OGMS provides a formal theory of disease that can be further elaborated by specific disease ontologies.  This theory is implemented using OWL-DL and \u003ca href=\"http://obofoundry.org/ro/\"\u003eOBO Relation Ontology\u003c/a\u003e relations and is available in \u003ca href=\"http://www.w3.org/TR/owl-features/\"\u003eOWL\u003c/a\u003e and \u003ca href=\"http://www.geneontology.org/GO.format.obo-1_2.shtml\"\u003eOBO\u003c/a\u003e formats.\n\nOGMS is based on the papers \u003ca href=\"http://ontology.buffalo.edu/medo/Disease_and_Diagnosis.pdf\"\u003eToward an Ontological Treatment of Disease and Diagnosis\u003c/a\u003e and \u003ca href=\"http://ontology.buffalo.edu/bio/ISMB/ISMB_Bio-ontologies.pdf\"\u003eOn Carcinomas and Other Pathological Entities\u003c/a\u003e. The ontology attempts to address some of the issues raised at the \u003ca href=\"http://bioontology.org/wiki/index.php/Workshop_on_Ontology_of_Diseases\"\u003eWorkshop on Ontology of Diseases\u003c/a\u003e (Dallas, TX) and the \u003ca href=\"http://bimib.disco.unimib.it/index.php/SSFW09\"\u003eSigns, Symptoms, and Findings Workshop\u003c/a\u003e(Milan, Italy). OGMS was formerly called the clinical phenotype ontology. Terms from OGMS hang from the \u003ca href=\"http://www.ifomis.org/bfo\"\u003eBasic Formal Ontology\u003c/a\u003e.\n\n*NEWS*:\nThe OGMS-based Cardiovascular Disease Ontology was the winner of this year's Ontology Competition at the FOIS (Formal Ontology in Information Systems) conference in Rio de Janeiro. \nhttp://fois2014.inf.ufes.br/p/paper-and-competition-awards.html\n\n\nWe are always interested in application-specific use cases for OGMS, such as those described \u003ca href=\"http://www.buffalo.edu/~ag33/OGMSApplied.ppt\"\u003ehere\u003c/a\u003e.  Existing and planned extensions of OGMS include:\n  * \u003ca href=\"http://datahub.io/dataset/bioportal-sdo\"\u003eSleep Domain Ontology\u003c/a\u003e (SDO)\n  * \u003ca href=\"http://infectiousdiseaseontology.org/Home.html\"\u003eInfectious Disease Ontology\u003c/a\u003e (IDO) and its suite of \u003ca href=\"http://infectiousdiseaseontology.org/page/Extensions\"\u003eextensions\u003c/a\u003e.\n  * \u003ca href=\"http://code.google.com/p/omrse/\"\u003eOntology of Medically Relevant Social Entities\u003c/a\u003e (OMRSE)\n  * \u003ca href=\"http://code.google.com/p/vital-sign-ontology/\"\u003eVital Sign Ontology\u003c/a\u003e (VSO)\n  * \u003ca href=\"http://ontology.buffalo.edu/psychiatry/JBSCeustersSmith2010.pdf\"\u003eMental Diseases\u003c/a\u003e\n  * \u003ca href=\"http://ontology.buffalo.edu/smith/ppt/OGMS/OGMS_Applied.ppt\"\u003eExamples of OGMS applied to specific diseases.\u003c/a\u003e\n  * \u003ca href=\"http://code.google.com/p/ohd-ontology\"\u003eOral Health and Disease ontology\u003c/a\u003e\n  * \u003ca href=\"http://code.google.com/p/cvdo/\"\u003eCardiovascular Disease Ontology\u003c/a\u003e\n  * \u003ca href=\"http://code.google.com/p/mental-functioning-ontology/\"\u003eMental Functioning Ontology\u003c/a\u003e\n  * \u003ca href=\"http://code.google.com/p/onstr/\"\u003eOntology for Newborn Screening Follow-up and Translational Research\u003c/a\u003e  \n  * \u003ca href=\"http://www.unbsj.ca/sase/csas/data/ws/icbo2013/papers/research/icbo2013_submission_40.pdf\"\u003eDrug Ontology\u003c/a\u003e \n  * \u003ca href=\"http://www.unbsj.ca/sase/csas/data/ws/icbo2013/papers/ec/icbo2013_submission_56.pdf\"\u003eModel for Clinical Information\u003c/a\u003e (MCI)\n  * \u003ca href=\"http://www.unbsj.ca/sase/csas/data/ws/icbo2013/papers/posters/icbo2013_submission_67.pdf\"\u003eOcular Disease Ontology\u003c/a\u003e (ODO)\n\nIf you are interested in participating in the development of OGMS, please send email to rscheuermann@jcvi.org.  Be sure to include a github-account username with your request.\n\nOGMS development meeting notes and associated files are located: https://drive.google.com/drive/folders/1pSAYgVJHUxIZ0ZlxYbA4gGql8JKvETh4\n\nDevelopment Notes and agendas located at https://docs.google.com/document/d/1_gNPXjC2-pr5wvrmO1iVd2Cp9rzqf0qQG2L4UUJwBIs/edit\n\n## License\n\nThis project is licensed under the MIT License - see the https://opensource.org/licenses/MIT for details\n","project_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2FOGMS%2Fogms","html_url":"https://awesome.ecosyste.ms/projects/github.com%2FOGMS%2Fogms","lists_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2FOGMS%2Fogms/lists"}