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Democratizing knowledge representation with BioCypher.

作者信息

Lobentanzer Sebastian, Aloy Patrick, Baumbach Jan, Bohar Balazs, Carey Vincent J, Charoentong Pornpimol, Danhauser Katharina, Doğan Tunca, Dreo Johann, Dunham Ian, Farr Elias, Fernandez-Torras Adrià, Gyori Benjamin M, Hartung Michael, Hoyt Charles Tapley, Klein Christoph, Korcsmaros Tamas, Maier Andreas, Mann Matthias, Ochoa David, Pareja-Lorente Elena, Popp Ferdinand, Preusse Martin, Probul Niklas, Schwikowski Benno, Sen Bünyamin, Strauss Maximilian T, Turei Denes, Ulusoy Erva, Waltemath Dagmar, Wodke Judith A H, Saez-Rodriguez Julio

机构信息

Heidelberg University, Faculty of Medicine, and Heidelberg University Hospital, Institute for Computational Biomedicine, Bioquant, Heidelberg, Germany.

Institute for Research in Biomedicine (IRB Barcelona), the Barcelona Institute of Science and Technology, Barcelona, Spain.

出版信息

Nat Biotechnol. 2023 Aug;41(8):1056-1059. doi: 10.1038/s41587-023-01848-y.

DOI:10.1038/s41587-023-01848-y
PMID:37337100
Abstract
摘要

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Graph representation learning in biomedicine and healthcare.生物医学和医疗保健中的图表示学习。
Nat Biomed Eng. 2022 Dec;6(12):1353-1369. doi: 10.1038/s41551-022-00942-x. Epub 2022 Oct 31.
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A review of biomedical datasets relating to drug discovery: a knowledge graph perspective.生物医学数据集在药物发现中的应用综述:知识图谱视角。
Brief Bioinform. 2022 Nov 19;23(6). doi: 10.1093/bib/bbac404.
3
Integrating and formatting biomedical data as pre-calculated knowledge graph embeddings in the Bioteque.在 Bioteque 中整合和格式化生物医学数据作为预先计算的知识图嵌入。
Bioinformatics. 2025 May 6;41(5). doi: 10.1093/bioinformatics/btaf279.
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AI-Driven Applications in Clinical Pharmacology and Translational Science: Insights From the ASCPT 2024 AI Preconference.临床药理学与转化科学中的人工智能驱动应用:来自2024年美国临床药理学与治疗学协会人工智能会前研讨会的见解
Clin Transl Sci. 2025 Apr;18(4):e70203. doi: 10.1111/cts.70203.
5
Causal machine learning for single-cell genomics.用于单细胞基因组学的因果机器学习。
Nat Genet. 2025 Apr;57(4):797-808. doi: 10.1038/s41588-025-02124-2. Epub 2025 Mar 31.
6
Computational tools and data integration to accelerate vaccine development: challenges, opportunities, and future directions.加速疫苗开发的计算工具与数据整合:挑战、机遇及未来方向
Front Immunol. 2025 Mar 7;16:1502484. doi: 10.3389/fimmu.2025.1502484. eCollection 2025.
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Agents for Change: Artificial Intelligent Workflows for Quantitative Clinical Pharmacology and Translational Sciences.变革推动者:定量临床药理学与转化科学的人工智能工作流程
Clin Transl Sci. 2025 Mar;18(3):e70188. doi: 10.1111/cts.70188.
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NetworkCommons: bridging data, knowledge, and methods to build and evaluate context-specific biological networks.网络共享:连接数据、知识和方法以构建和评估特定背景下的生物网络。
Bioinformatics. 2025 Feb 4;41(2). doi: 10.1093/bioinformatics/btaf048.
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Computational Drug Repositioning in Cardiorenal Disease: Opportunities, Challenges, and Approaches.心肾疾病中的计算药物重新定位:机遇、挑战与方法
Proteomics. 2025 Jun;25(11-12):e202400109. doi: 10.1002/pmic.202400109. Epub 2025 Jan 31.
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Nat Biotechnol. 2025 Feb;43(2):166-169. doi: 10.1038/s41587-024-02534-3.
Nat Commun. 2022 Sep 9;13(1):5304. doi: 10.1038/s41467-022-33026-0.
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Annu Rev Biomed Data Sci. 2020 Jul;3:23-41. doi: 10.1146/annurev-biodatasci-010820-091627. Epub 2020 Apr 7.
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Sci Data. 2020 May 14;7(1):144. doi: 10.1038/s41597-020-0486-7.
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Sci Data. 2016 Mar 15;3:160018. doi: 10.1038/sdata.2016.18.
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