Publications

Jeliazkova, N., Longhin, E., El yamani, N., Rundén-Pran, E., Moschini, E., Serchi, T., Vrček, I. V., Burgum, M. J., Doak, S. H., Cimpan, M. R., Rios-Mondragon, I., Cimpan, E., Battistelli, C. L., Bossa, C., Tsekovska, R., Drobne, D., Novak, S., Repar, N., Ammar, A., ... Dusinska, M. (2024). A template wizard for the cocreation of machine-readable data-reporting to harmonize the evaluation of (nano)materials. Nature Protocols, 19(9), 2642-2684. https://doi.org/10.1038/s41596-024-00993-1

Fuchs, C., 't Hoen, P. A. C., Mueller, A. R., Ehrhart, F., & Van Karnebeek, C. D. M. (2024). Drug repurposing in Rett and Rett-like syndromes: a promising yet underrated opportunity? Frontiers in medicine, 11, Article 1425038. https://doi.org/10.3389/fmed.2024.1425038

Groenewold, M., Bleeker, E. A. J., Noorlander, C. W., Sips, A. J. A. M., van der Zee, M., Aitken, R. J., Baker, J. H., Bakker, M. I., Bouman, E. A., Doak, S. H., Drobne, D., Dumit, V. I., Florin, M.-V., Fransman, W., Gonzalez, M. M., Heunisch, E., Isigonis, P., Jeliazkova, N., Jensen, K. A., ... Scott-Fordsmand, J. J. (2024). Governance of advanced materials: Shaping a safe and sustainable future. NanoImpact, 35, Article 100513. https://doi.org/10.1016/j.impact.2024.100513

Bahram Sangani, N., Koetsier, J., Mélius, J., Kutmon, M., Ehrhart, F., Evelo, C. T., Curfs, L. M. G., Reutelingsperger, C. P., & Eijssen, L. M. T. (2024). A novel insight into neurological disorders through HDAC6 protein-protein interactions. Scientific Reports, 14(1), Article 14666. https://doi.org/10.1038/s41598-024-65094-1

Ahmed, Z. T., Zain Al-Abeden, M. S., Al Abdin, M. G., Muqresh, M. A., Al Jowf, G. I., Eijssen, L. M. T., & Haider, K. H. (2024). Dose-response relationship of MSCs as living Bio-drugs in HFrEF patients: a systematic review and meta-analysis of RCTs. Stem Cell Research & Therapy, 15(1), Article 165. https://doi.org/10.1186/s13287-024-03713-4

Mortensen, H. M., Amos, J. D., Exner, T. E., Flores, K., Harper, S., Jarabek, A. M., Klaessig, F., Lobaskin, V., Lynch, I., Marcum, C. S., Martens, M., Brough, B., Spadola, Q., & Bjorkland, R. (2024). NNI nanoinformatics conference 2023: Movement toward a common infrastructure for federal nanoEHS data computational toxicology: Short communication. Computational Toxicology, 30, Article 100316. https://doi.org/10.1016/j.comtox.2024.100316

Eischen-Loges, M., Tahmasebi birgani, Z., Alaoui selsouli, Y., Eijssen, L., Rho, H., Sthijns, M., Van griensven, M., Lapointe, V., & Habibović, P. (2024). A roadmap of osteogenic differentiation in human mesenchymal stem cells assessed by protein multiplex analysis. European Cells and Materials, 47, 170-189. https://doi.org/10.22203/eCM.v047a12

Ammar, A., Evelo, C., & Willighagen, E. (2024). FAIR assessment of nanosafety data reusability with community standards. Scientific data, 11(1), Article 503. https://doi.org/10.1038/s41597-024-03324-x

van Rijn, J. P. M., Martens, M., Ammar, A., Cimpan, M. R., Fessard, V., Hoet, P., Jeliazkova, N., Murugadoss, S., Vinkovic Vrcek, I., & Willighagen, E. L. (2024). From papers to RDF-based integration of physicochemical data and adverse outcome pathways for nanomaterials. Journal of Cheminformatics, 16(1), Article 49. https://doi.org/10.1186/s13321-024-00833-0

Willighagen, E., Teunis, M., & De haan, A. (2024). The Chemistry Development Kit in 2024: improving cheminformatics research. Research Ideas and Outcomes, 10, Article e124884. https://doi.org/10.3897/rio.10.e124884

van der Meer, D., Cheng, W., Rokicki, J., Fernandez-Cabello, S., Shadrin, A., Smeland, O. B., Ehrhart, F., Gülöksüz, S., Pries, L.-K., Lin, B., Rutten, B. P. F., van Os, J., O'Donovan, M., Richards, A. L., Steen, N. E., Djurovic, S., Westlye, L. T., Andreassen, O. A., Kaufmann, T., ... European Network of National Schizophrenia Networks Studying Gene-Environment Interactions Work Package 6 (EU-GEI WP6) Group (2024). Clustering Schizophrenia Genes by Their Temporal Expression Patterns Aids Functional Interpretation. Schizophrenia Bulletin, 50(2), 327-338. Article sbad140. https://doi.org/10.1093/schbul/sbad140

Serrano, B. A., Gheorghe, L. C., Exner, T. E., Resch, S., Wolf, C., Himly, M., Falk, A., Bossa, N., Vazquez, S., Papadiamantis, A. G., Afantitis, A., Melagraki, G., Maier, D., Saramveis, H., Willighagen, E., Lobaskin, V., Oldfield, J. D., & Lynch, I. (2024). The role of FAIR nanosafety data and nanoinformatics in achieving the UN sustainable development goals: the NanoCommons experience. RSC Sustainability, 2(5), 1378-1399. https://doi.org/10.1039/d3su00148b

Abbassi-Daloii, T., Mallon, S. D., Abdellaoui, S. E., Voortman, L. M., & Raz, V. (2024). High-throughput Analysis of Capillary Density in Skeletal Muscle Cross Sections. Bio-protocol, 14(2), Article e4922. https://doi.org/10.21769/BioProtoc.4922

Slenter, D., Kutmon, M., Evelo, C. T., & Willighagen, E. L. (2024). Discovering life's directed metabolic (sub)paths to interpret human biochemical markers using the DSMN tool. Digital Discovery, 3(1), 81-98. https://doi.org/10.1039/d3dd00069a

Nymark, P., Clerbaux, L. A., Amorim, M. J., Andronis, C., de Bernardi, F., Bezemer, G. F. G., Coecke, S., Gavins, F. N. E., Jacobson, D., Lekka, E., Margiotta-Casaluci, L., Martens, M., Mayasich, S. A., Mortensen, H. M., Kim, Y. J., Sachana, M., Tanabe, S., Virvilis, V., Edwards, S. W., & Halappanavar, S. (2024). Building an Adverse Outcome Pathway network for COVID-19. Frontiers in Systems Biology, 4, Article 1384481. https://doi.org/10.3389/fsysb.2024.1384481

Murugadoss, S., Vinkovic Vrcek, I., Schaffert, A., Paparella, M., Pem, B., Sosnowska, A., Stepnik, M., Martens, M., Willighagen, E. L., Puzyn, T., Roxana Cimpan, M., Lemaire, F., Mertens, B., Dusinska, M., Fessard, V., & Hoet, P. H. (2024). Linking nanomaterial-induced mitochondrial dysfunction to existing adverse outcome pathways for chemicals. ALTEX, 41(1), 76-90. https://doi.org/10.14573/altex.2305011

Agrawal, A., Balci, H., Hanspers, K., Coort, S. L., Martens, M., Slenter, D. N., Ehrhart, F., Digles, D., Waagmeester, A., Wassink, I., Abbassi-Daloii, T., Lopes, E. N., Iyer, A., Acosta, J. M., Willighagen, L. G., Nishida, K., Riutta, A., Basaric, H., Evelo, C. T., ... Pico, A. R. (2024). WikiPathways 2024: next generation pathway database. Nucleic acids research, 52(D1), D679–D689. https://doi.org/10.1093/nar/gkad960