| Title: | From language models to large-scale food and biomedical knowledge graphs |
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| Authors: | ID Cenikj, Gjorgjina, Institut Jožef Stefan (Author)
ID Strojnik, Lidija, Institut Jožef Stefan (Author)
ID Angelski, Risto (Author)
ID Ogrinc, Nives, Institut Jožef Stefan (Author)
ID Koroušić-Seljak, Barbara, Institut Jožef Stefan (Author)
ID Eftimov, Tome, Institut Jožef Stefan (Author) |
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| Files: |  URL - Source URL, visit https://www.nature.com/articles/s41598-023-34981-4
 PDF - Presentation file, download (2,39 MB)
MD5: FA6D33D9F9BF8BEB3F386B8906D85B8F
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| Language: | English |
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| Typology: | 1.01 - Original Scientific Article |
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| Organization: |  IJS - Jožef Stefan Institute
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| Abstract: | Knowledge about the interactions between dietary and biomedical factors is scattered throughout uncountable research articles in an unstructured form (e.g., text, images, etc.) and requires automatic structuring so that it can be provided to medical professionals in a suitable format. Various biomedical knowledge graphs exist, however, they require further extension with relations between food and biomedical entities. In this study, we evaluate the performance of three state-of-the-art relation-mining pipelines (FooDis, FoodChem and ChemDis) which extract relations between food, chemical and disease entities from textual data. We perform two case studies, where relations were automatically extracted by the pipelines and validated by domain experts. The results show that the pipelines can extract relations with an average precision around 70%, making new discoveries available to domain experts with reduced human effort, since the domain experts should only evaluate the results, instead of finding, and reading all new scientific papers. |
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| Keywords: | biomedical knowledge graphs, relation-mining pipelines, relation extraction, validation |
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| Publication status: | Published |
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| Publication version: | Version of Record |
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| Article acceptance date: | 10.05.2023 |
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| Publication date: | 15.05.2023 |
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| Publisher: | Springer Nature |
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| Year of publishing: | 2023 |
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| Number of pages: | str. 1-14 |
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| Numbering: | Vol. 13, article no. 7815 |
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| Source: | Švica |
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| PID: | 20.500.12556/DiRROS-16510  |
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| UDC: | 004 |
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| ISSN on article: | 2045-2322 |
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| DOI: | 0.1038/s41598-023-34981-4 |
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| COBISS.SI-ID: | 152401411 |
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| Note: | Nasl. z nasl. zaslona;
Soavtorji: Lidija Strojnik, Risto Angelski, Nivec Ogrinc, Barbara Koroušić Seljak, Tome Eftimov;
Opis vira z dne 17. 5. 2023;
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| Publication date in DiRROS: | 17.05.2023 |
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| Views: | 381 |
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| Downloads: | 153 |
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