{"about":{"site":"https://codewithpapers.app","non_affiliation":"Code with Papers and Syntology are not affiliated with, endorsed by, or sponsored by Papers with Code, Meta, or the pwc-archive mirror.","licence":"CC BY-SA 4.0","licence_url":"https://creativecommons.org/licenses/by-sa/4.0/legalcode","attribution":"https://codewithpapers.app/attribution","modified":"archive material modified by Syntology; see the attribution page"},"url":"/paper/ontology-alignment-in-the-biomedical-domain","title":"Ontology Alignment in the Biomedical Domain Using Entity Definitions and Context","arxiv_id":"1806.07976","date":"2018-06-20","proceeding":"WS 2018 7","authors":["Lucy Lu Wang","Chandra Bhagavatula","Mark Neumann","Kyle Lo","Chris Wilhelm","Waleed Ammar"],"abstract":"Ontology alignment is the task of identifying semantically equivalent\nentities from two given ontologies. Different ontologies have different\nrepresentations of the same entity, resulting in a need to de-duplicate\nentities when merging ontologies. We propose a method for enriching entities in\nan ontology with external definition and context information, and use this\nadditional information for ontology alignment. We develop a neural architecture\ncapable of encoding the additional information when available, and show that\nthe addition of external data results in an F1-score of 0.69 on the Ontology\nAlignment Evaluation Initiative (OAEI) largebio SNOMED-NCI subtask, comparable\nwith the entity-level matchers in a SOTA system.","url_abs":"http://arxiv.org/abs/1806.07976v1","url_pdf":"http://arxiv.org/pdf/1806.07976v1.pdf","source":{"archive":"pwc-archive (Hugging Face), CC BY-SA 4.0","snapshot":"2025-07-28","licence_url":"https://creativecommons.org/licenses/by-sa/4.0/legalcode","row_kind":"abstracts"},"code_links":[{"paper_slug":"ontology-alignment-in-the-biomedical-domain","repo_url":"https://github.com/allenai/ontoemma","is_official":1,"mentioned_in_paper":1,"mentioned_in_github":0,"framework":"none","reach":null}],"tasks":[],"methods":[],"datasets_introduced":[],"methods_introduced":[],"results":[],"syntology":{"syntology_url":null,"atlas_url":null,"mcp":null,"developers":"https://syntology.ai/developers"},"arxiv_metadata":null,"syntology_extracted_results":null}