{"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/this-before-that-causal-precedence-in-the","title":"This before That: Causal Precedence in the Biomedical Domain","arxiv_id":"1606.08089","date":"2016-06-26","proceeding":"WS 2016 8","authors":["Gus Hahn-Powell","Dane Bell","Marco A. Valenzuela-Escárcega","Mihai Surdeanu"],"abstract":"Causal precedence between biochemical interactions is crucial in the\nbiomedical domain, because it transforms collections of individual\ninteractions, e.g., bindings and phosphorylations, into the causal mechanisms\nneeded to inform meaningful search and inference. Here, we analyze causal\nprecedence in the biomedical domain as distinct from open-domain, temporal\nprecedence. First, we describe a novel, hand-annotated text corpus of causal\nprecedence in the biomedical domain. Second, we use this corpus to investigate\na battery of models of precedence, covering rule-based, feature-based, and\nlatent representation models. The highest-performing individual model achieved\na micro F1 of 43 points, approaching the best performers on the simpler\ntemporal-only precedence tasks. Feature-based and latent representation models\neach outperform the rule-based models, but their performance is complementary\nto one another. We apply a sieve-based architecture to capitalize on this lack\nof overlap, achieving a micro F1 score of 46 points.","url_abs":"http://arxiv.org/abs/1606.08089v1","url_pdf":"http://arxiv.org/pdf/1606.08089v1.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":"this-before-that-causal-precedence-in-the","repo_url":"https://github.com/myedibleenso/this-before-that","is_official":1,"mentioned_in_paper":0,"mentioned_in_github":1,"framework":"none","reach":null},{"paper_slug":"this-before-that-causal-precedence-in-the","repo_url":"https://github.com/clulab/reach","is_official":0,"mentioned_in_paper":0,"mentioned_in_github":1,"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}