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Results: 53
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  • Kramer, G. (2025). MassIVE MSV000099169 - Capturing the RNA-binding proteome from plants using orthogonal organic phase separationSummary RNA-binding proteins (RBPs) regulate many processes related to RNA biogenesis, localization, half-life and function. Here, we present a protocol for the en masse isolation of RBPs cross-linked to RNA and provide a strategy for proteomics analysis. We describe the steps for in vivo UV-crosslinking of RNA-protein complexes, tissue lysis, fractionation and purification of crosslinked RNA-protein adducts using organic solvents. Although the protocol was developed for Nicotiana benthamiana leaves, it can be optimized for use in different plants and tissues. [Data set]. MassIVE. https://doi.org/10.25345/c5kk94r4h
  • Open Access
    Koopman, N., Jaspers, Y., van Leeuwen, P. T., Chronas, K., Li Yim, A. Y. F., Diederen, K., te Velde, A. A., Roseboom, W., Kindermann, A., Benninga, M. A., Kramer, G., de Jonge, W. J., Brul, S., Levin, E., Kemp, S., & Seppen, J. (2025). Integrated multi-omics of feces, plasma and urine can describe and differentiate pediatric active Crohn's Disease from remission. Communications medicine, 5, Article 281. https://doi.org/10.1038/s43856-025-00984-7
  • Open Access
    Tu, Z., Li, Y., Ji, S., Wang, S., Zhou, R., Kramer, G., Cui, Y., & Xie, F. (2025). Gas-phase fractionation DDA promotes in-depth DIA phosphoproteome analysis. Heliyon, 11(2), Article e41928. https://doi.org/10.1016/j.heliyon.2025.e41928
  • Open Access
    Hansildaar, R., van Velzen, M., van der Vossen, E. W. J., Kramer, G., Nurmohamed, M. T., & Levels, J. H. M. (2025). Plasma proteome analysis of rheumatic patients reveals differences in fingerprints based on cardiovascular history: a pilot study. Proteome Science, 23, Article 4. https://doi.org/10.1186/s12953-025-00243-6
  • Kramer, G., de Winde, J. H., Ongenae, V. M., Arentshorst, M., Zwerus, J., Meuken, G., Ijadpanahsaravi, M., Roseboom, W., Ram, A. F. J., Seekles, S. J., van den Brule, T., Punt, M., Dijksterhuis, J., Ohm, R. A., & Wösten, H. A. (2024). Additional file 11 of Compatible solutes determine the heat resistance of conidia [Data set]. Figshare. https://doi.org/10.6084/m9.figshare.26639391.v1
  • Kramer, G., de Winde, J. H., Roseboom, W., Arentshorst, M., Ongenae, V. M., Meuken, G., Ijadpanahsaravi, M., Zwerus, J., Ram, A. F. J., Seekles, S. J., van den Brule, T., Punt, M., Dijksterhuis, J., Ohm, R. A., & Wösten, H. A. (2024). Additional file 9 of Compatible solutes determine the heat resistance of conidia [Data set]. Figshare. https://doi.org/10.6084/m9.figshare.26639385.v1
  • Open Access
    Liu, S., Laman, P., Jensen, S., van der Wel, N. N., Kramer, G., Zaat, S. A. J., & Brul, S. (2024). Isolation and characterization of persisters of the pathogenic microorganism Staphylococcus aureus. iScience, 27(6), Article 110002. https://doi.org/10.1016/j.isci.2024.110002
  • Open Access
    Huang, Y., Swarge, B. N., Roseboom, W., Bleeker, J. D., Brul, S., Setlow, P., & Kramer, G. (2024). Integrative Metabolomics and Proteomics Allow the Global Intracellular Characterization of Bacillus subtilis Cells and Spores. Journal of Proteome Research, 23(2), 596-608. https://doi.org/10.1021/acs.jproteome.3c00386
  • Open Access
    van Karnebeek, C. D. M., Tarailo-Graovac, M., Leen, R., Meinsma, R., Correard, S., Jansen-Meijer, J., Prykhozhij, S. V., Pena, I. A., Ban, K., Schock, S., Saxena, V., Pras-Raves, M. L., Drögemöller, B. I., Grootemaat, A. E., van der Wel, N. N., Dobritzsch, D., Roseboom, W., Schomakers, B. V., Jaspers, Y. R. J., ... van Kuilenburg, A. B. P. (2024). CIAO1 and MMS19 deficiency: a lethal neurodegenerative phenotype caused by cytosolic Fe-S cluster protein assembly disorders. Genetics in Medicine, 26(6), Article 101104. https://doi.org/10.1016/j.gim.2024.101104
  • Open Access
    van Kleeff, P. J. M., Mastop, M., Sun, P., Dangol, S., van Doore, E., Dekker, H. L., Kramer, G., Lee, S., Ryu, C.-M., de Vos, M., & Schuurink, R. (2024). Discovery of three Bemisia tabaci effectors and their effect on gene expression in planta. Molecular Plant-Microbe Interactions, 37(4), 380-395. https://doi.org/10.1094/MPMI-04-23-0044-R
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