{"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/the-digitalization-of-bioassays-in-the-open","title":"The Digitalization of Bioassays in the Open Research Knowledge Graph","arxiv_id":"2203.14574","date":"2022-03-28","proceeding":null,"authors":["Jennifer D'Souza","Anita Monteverdi","Muhammad Haris","Marco Anteghini","Kheir Eddine Farfar","Markus Stocker","Vitor A. P. Martins dos Santos","Sören Auer"],"abstract":"Background: Recent years are seeing a growing impetus in the semantification of scholarly knowledge at the fine-grained level of scientific entities in knowledge graphs. The Open Research Knowledge Graph (ORKG) https://www.orkg.org/ represents an important step in this direction, with thousands of scholarly contributions as structured, fine-grained, machine-readable data. There is a need, however, to engender change in traditional community practices of recording contributions as unstructured, non-machine-readable text. For this in turn, there is a strong need for AI tools designed for scientists that permit easy and accurate semantification of their scholarly contributions. We present one such tool, ORKG-assays. Implementation: ORKG-assays is a freely available AI micro-service in ORKG written in Python designed to assist scientists obtain semantified bioassays as a set of triples. It uses an AI-based clustering algorithm which on gold-standard evaluations over 900 bioassays with 5,514 unique property-value pairs for 103 predicates shows competitive performance. Results and Discussion: As a result, semantified assay collections can be surveyed on the ORKG platform via tabulation or chart-based visualizations of key property values of the chemicals and compounds offering smart knowledge access to biochemists and pharmaceutical researchers in the advancement of drug development.","url_abs":"https://arxiv.org/abs/2203.14574v1","url_pdf":"https://arxiv.org/pdf/2203.14574v1.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":"the-digitalization-of-bioassays-in-the-open","repo_url":"https://github.com/jd-coderepos/bioassays-ie","is_official":1,"mentioned_in_paper":1,"mentioned_in_github":1,"framework":"tf","reach":null}],"tasks":[{"task_slug":"knowledge-graphs","task_name":"Knowledge Graphs"}],"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}