Dr Egon Willighagen (E.L.)
Research projects
- Open PHACTS
- eNanoMapper
- NanoCommons
- EU-ToxRisk
- OpenRiskNet
Publications
Core publications:
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Wohlgemuth, G., Mehta, S. S., Mejia, R. F., Neumann, S., Pedrosa, D., Pluskal, T., ... Fiehn, O. (2016). SPLASH, a hashed identifier for mass spectra. Nature Biotechnology, 34(11), 1099-1101. https://doi.org/10.1038/nbt.3689
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Kutmon, M., Riutta, A., Nunes, N., Hanspers, K., Willighagen, E. L., Bohler, A., ... Pico, A. R. (2016). WikiPathways: capturing the full diversity of pathway knowledge. Nucleic Acids Research, 44(D1), D488-D494. https://doi.org/10.1093/nar/gkv1024
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Hastings, J., Jeliazkova, N., Owen, G., Tsiliki, G., Munteanu, C. R., Steinbeck, C., & Willighagen, E. (2015). eNanoMapper: harnessing ontologies to enable data integration for nanomaterial risk assessment. Journal of biomedical semantics, 6, [10]. https://doi.org/10.1186/s13326-015-0005-5
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Fu, G., Batchelor, C., Dumontier, M., Hastings, J., Willighagen, E., & Bolton, E. (2015). PubChemRDF: towards the semantic annotation of PubChem compound and substance databases. Journal of Cheminformatics, 7, 34. https://doi.org/10.1186/s13321-015-0084-4
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Mietchen, D., Hagedorn, G., Willighagen, E., Rico, M., Gómez-Pérez, A., Aibar, E., ... Kinzler, D. (2015). Enabling open science: Wikidata for research (Wiki4R). Research Ideas and Outcomes, 1, [e7573]. https://doi.org/10.3897/rio.1.e7573
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Willighagen, E. L., Waagmeester, A. S., Spjuth, O., Ansell, P., Williams, A. J., Tkachenko, V., ... Wild, D. J. (2013). The ChEMBL database as linked open data. Journal of Cheminformatics, 5(1), [23]. https://doi.org/10.1186/1758-2946-5-23
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Kohonen, P., Benfenati, E., Bower, D., Ceder, R., Crump, M., Cross, K., ... Hardy, B. (2013). The ToxBank Data Warehouse: Supporting the Replacement of In Vivo Repeated Dose Systemic Toxicity Testing. Molecular Informatics, 32(1), 47-63. https://doi.org/10.1002/minf.201200114
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Spjuth, O., Rydberg, P., Willighagen, E. L., Evelo, C. T., & Jeliazkova, N. (2016). XMetDB: an open access database for xenobiotic metabolism. Journal of Cheminformatics, 8, [47]. https://doi.org/10.1186/s13321-016-0161-3
Most recent publications:
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Martens, M., Verbruggen, T., Nymark, P., Grafstrom, R., Burgoon, L. D., Aladjov, H., ... Willighagen, E. L. (2018). Introducing WikiPathways as a Data-Source to Support Adverse Outcome Pathways for Regulatory Risk Assessment of Chemicals and Nanomaterials. Frontiers in Genetics, 9, [661]. https://doi.org/10.3389/fgene.2018.00661
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Kuhn, T., Meroño-Peñuela, A., Malic, A., Poelen, J. H., Hurlbert, A. H., Ortiz, E. C., ... Dumontier, M. (2018). Nanopublications: A Growing Resource of Provenance-Centric Scientific Linked Data. In 2018 IEEE 14th International Conference on e-Science (e-Science) (Proceedings of IEEE e-Science).
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Townend, G. S., Ehrhart, F., van Kranen, H. J., Wilkinson, M., Jacobsen, A., Roos, M., ... Curfs, L. M. G. (2018). MECP2 variation in Rett syndrome-An overview of current coverage of genetic and phenotype data within existing databases. Human Mutation, 39(7), 914-924. https://doi.org/10.1002/humu.23542
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Willighagen, E., Jahn, N., & Nielsen, F. Å. (2018). The EU NanoSafety Cluster as Linked Data visualized with Scholia. NanoSafety Cluster Newsletter, 6. https://doi.org/10.6084/m9.figshare.6727931
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Nielsen, F. Å., Mietchen, D., & Willighagen, E. (2018). Geospatial data and Scholia. In GeoLD-QuWeDa 2018 ESWC 2018 Workshops: GeoLD 2018 and QuWeDa 2018 (Vol. 2110, pp. 34-40). CEUR Workshop Proceedings.
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Nymark, P., Rieswijk, L., Ehrhart, F., Jeliazkova, N., Tsiliki, G., Sarimveis, H., ... Grafstrom, R. C. (2018). A Data Fusion Pipeline for Generating and Enriching Adverse Outcome Pathway Descriptions. Toxicological Sciences, 162(1), 264-275. https://doi.org/10.1093/toxsci/kfx252
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Slenter, D. N., Kutmon, M., Hanspers, K., Riutta, A., Windsor, J., Nunes, N., ... Willighagen, E. L. (2018). WikiPathways: a multifaceted pathway database bridging metabolomics to other omics research. Nucleic Acids Research, 46(D1), D661-D667. https://doi.org/10.1093/nar/gkx1064
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Karcher, S., Willighagen, E. L., Rumble, J., Ehrhart, F., Evelo, C. T., Fritts, M., ... Hendren, C. O. (2018). Integration among databases and data sets to support productive nanotechnology: Challenges and recommendations. NanoImpact, 9, 85-101. https://doi.org/10.1016/j.impact.2017.11.002
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Willighagen, E. (2018). Increasing the nanopublication recall with a BridgeDb Identifier Mapping Service. In Semantic Web Applications and Tools for Health Care and Life Sciences (Vol. 2275, pp. 1-6). CEUR Workshop Proceedings.
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Guha, R., & Willighagen, E. (2017). Helping to improve the practice of cheminformatics. Journal of Cheminformatics, 9, [40]. https://doi.org/10.1186/s13321-017-0217-z
Other publications:
Lists of my publication can be found at:
E.L. Willighagen
Assistant Professor
ORCID: 0000-0001-7542-0286
Department of Bioinformatics
NUTRIM School of Nutrition and Translational Research in Metabolism
Faculty of Health, Medicine and Life Sciences
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