Published June 19, 2023
| Version v1
Journal article
Open
Democratizing knowledge representation with BioCypher
Creators
- Lobentanzer, Sebastian1
- Aloy, Patrick2
- Baumbach, Jan3
- Bohar, Balazs4
- Carey, Vincent J.5
- Charoentong, Pornpimol6
- Danhauser, Katharina7
- Doğan, Tunca8
- Dreo, Johann9
- Dunham, Ian10
- Farr, Elias1
- Fernandez-Torras, Adrià11
- Gyori, Benjamin M.12
- Hartung, Michael3
- Hoyt, Charles Tapley12
- Klein, Christoph7
- Korcsmaros, Tamas13
- Maier, Andreas3
- Mann, Matthias14
- Ochoa, David10
- Pareja-Lorente, Elena11
- Popp, Ferdinand15
- Preusse, Martin16
- Probul, Niklas3
- Schwikowski, Benno17
- Sen, Bünyamin8
- Strauss, Maximilian T.18
- Turei, Denes19
- Ulusoy, Erva8
- Waltemath, Dagmar20
- Wodke, Judith A. H.20
- Saez-Rodriguez, Julio1
- 1. Heidelberg University, Faculty of Medicine and Heidelberg University Hospital, Institute for Computational Biomedicine, Heidelberg, Germany
- 2. Institute for Research in Biomedicine (IRB Barcelona), the Barcelona Institute of Science and Technology, Barcelona, Catalonia, Spain; Institució Catalana de Recerca i Estudis Avançats (ICREA), Barcelona, Catalonia, Spain
- 3. Institute for Computational Systems Biology, University of Hamburg, Germany
- 4. Earlham Institute, Norwich, UK; Biological Research Centre, Szeged, Hungary
- 5. Channing Division of Network Medicine, Mass General Brigham, Harvard Medical School, Boston, USA
- 6. Centre for Quantitative Analysis of Molecular and Cellular Biosystems (Bioquant), Heidelberg University, Im Neuenheimer Feld 267, 69120, Heidelberg, Germany; Department of Medical Oncology, National Centre for Tumour Diseases (NCT), Heidelberg University Hospital (UKHD), Im Neuenheimer Feld 460, 69120, Heidelberg, Germany
- 7. Department of Pediatrics, Dr. von Hauner Children's Hospital, University Hospital, LMU Munich, Germany
- 8. Biological Data Science Lab, Department of Computer Engineering, Hacettepe University, Ankara, Turkey; Department of Bioinformatics, Graduate School of Health Sciences, Hacettepe University, Ankara, Turkey
- 9. Computational Systems Biomedicine Lab, Department of Computational Biology, Institut Pasteur, Université Paris Cité, Paris, France; Bioinformatics and Biostatistics Hub, Institut Pasteur, Université Paris Cité, Paris, France
- 10. European Molecular Biology Laboratory, European Bioinformatics Institute (EMBL-EBI), Wellcome Genome Campus, Hinxton, Cambridgeshire CB10 1SD, UK; Open Targets, Wellcome Genome Campus, Hinxton, Cambridgeshire CB10 1SD, UK
- 11. Institute for Research in Biomedicine (IRB Barcelona), the Barcelona Institute of Science and Technology, Barcelona, Catalonia, Spain
- 12. Laboratory of Systems Pharmacology, Harvard Medical School, Boston, USA
- 13. Earlham Institute, Norwich, UK; Quadram Institute Bioscience, Norwich, UK
- 14. Proteomics Program, Novo Nordisk Foundation Centre for Protein Research, University of Copenhagen, Copenhagen, Denmark; Department of Proteomics and Signal Transduction, Max Planck Institute of Biochemistry, Martinsried, Germany
- 15. Applied Tumour Immunity Clinical Cooperation Unit, National Centre for Tumour Diseases (NCT), German Cancer Research Centre (DKFZ), Im Neuenheimer Feld 460, 69120, Heidelberg, Germany
- 16. German Centre for Diabetes Research (DZD), Neuherberg, Germany
- 17. Computational Systems Biomedicine Lab, Department of Computational Biology, Institut Pasteur, Université Paris Cité, Paris, France
- 18. Proteomics Program, Novo Nordisk Foundation Centre for Protein Research, University of Copenhagen, Copenhagen, Denmark
- 19. Heidelberg University, Faculty of Medicine, and Heidelberg University Hospital, Institute for Computational Biomedicine, Bioquant, Heidelberg, Germany
- 20. Centre for Quantitative Analysis of Molecular and Cellular Biosystems (Bioquant), Heidelberg University, Im Neuenheimer Feld 267, 69120, Heidelberg, Germany
Description
This is the self-archived version of the article 'Democratizing knowledge representation with BioCypher.' It describes the BioCypher framework, a tool to build grounded knowledge graphs in biomedical science. For more information, see https://biocypher.org.
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Additional details
Related works
- Has version
- Preprint: arXiv:2212.13543 (arXiv)
- Journal article: https://www.nature.com/articles/s41587-023-01848-y (URL)