Privacy-preserving multicenter differential protein abundance analysis with FedProt

Burankova, Y. (First Author), Abele, M. (Co-Author), Bakhtiari, M. (Co-Author), von Toerne, C. (Co-Author), Barth, T. K. (Co-Author), Schweizer, L. (Co-Author), Giesbertz, P. (Co-Author), Schmidt, J. R. (Co-Author), Kalkhof, S. (Co-Author), Müller-Deile, J. (Co-Author), van Veelen, P. A. (Co-Author), Mohammed, Y. (Co-Author), Hammer, E. (Co-Author), Arend, L. (Co-Author), Adamowicz, K. (Co-Author), Laske, T. (Co-Author), Hartebrodt, A. (Co-Author), Frisch, T. (Co-Author), Meng, C. (Co-Author) & Matschinske, J. (Co-Author) & 11 others, Späth, J. (Co-Author), Röttger, R. (Co-Author), Schwämmle, V. (Co-Author), Hauck, S. M. (Co-Author), Lichtenthaler, S. F. (Co-Author), Imhof, A. (Co-Author), Mann, M. (Co-Author), Ludwig, C. (Co-Author), Kuster, B. (Co-Author), Baumbach, J. (Co-Author) & Zolotareva, O. (Last Author), Aug 2025, In: Nature Computational Science. 5, 8, p. 675-688 14 p.

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Systematic Comparison of Bone Proteome Extraction Methods to Allow for Integrated Proteomics–Metabolomics Correlation

Wiltzsch, V. (First Author), Schmidt, J. R. (Co-Author), Adamowicz, K. (Co-Author), Lauterbach, T. (Co-Author), Lehmann, J. (Co-Author), Baumbach, J. (Co-Author), Laske, T. (Co-Author) & Kalkhof, S. (Last Author), 5 Sep 2025, In: Journal of Proteome Research. 24, 9, p. 4362-4376 15 p.

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Systematic evaluation of normalization approaches in tandem mass tag and label-free protein quantification data using PRONE

Arend, L. (First Author), Adamowicz, K. (Co-Author), Schmidt, J. R. (Co-Author), Burankova, Y. (Co-Author), Zolotareva, O. (Co-Author), Tsoy, O. (Co-Author), Pauling, J. K. (Co-Author), Kalkhof, S. (Co-Author), Baumbach, J. (Co-Author), List, M. (Co-Author) & Laske, T. (Last Author), 2025, In: Briefings in Bioinformatics. 26, 3, bbaf201.

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Drugst.One - a plug-and-play solution for online systems medicine and network-based drug repurposing

Maier, A. (Shared First Author), Hartung, M. (Shared First Author), Abovsky, M. (Co-Author), Adamowicz, K. (Co-Author), Bader, G. D. (Co-Author), Baier, S. (Co-Author), Blumenthal, D. B. (Co-Author), Chen, J. (Co-Author), Elkjaer, M. L. (Co-Author), Garcia-Hernandez, C. (Co-Author), Helmy, M. (Co-Author), Hoffmann, M. (Co-Author), Jurisica, I. (Co-Author), Kotlyar, M. (Co-Author), Lazareva, O. (Co-Author), Levi, H. (Co-Author), List, M. (Co-Author), Lobentanzer, S. (Co-Author), Loscalzo, J. (Co-Author) & Malod-Dognin, N. (Co-Author) & 20 others, Manz, Q. (Co-Author), Matschinske, J. (Co-Author), Mee, M. (Co-Author), Oubounyt, M. (Co-Author), Pastrello, C. (Co-Author), Pico, A. R. (Co-Author), Pillich, R. T. (Co-Author), Poschenrieder, J. M. (Co-Author), Pratt, D. (Co-Author), Pržulj, N. (Co-Author), Sadegh, S. (Co-Author), Saez-Rodriguez, J. (Co-Author), Sarkar, S. (Co-Author), Shaked, G. (Co-Author), Shamir, R. (Co-Author), Trummer, N. (Co-Author), Turhan, U. (Co-Author), Wang, R. S. (Co-Author), Zolotareva, O. (Co-Author) & Baumbach, J. (Last Author), 5 Jul 2024, In: Nucleic Acids Research. 52, W1, p. W481-W488

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Meta-analysis of proteomics data from osteoblasts, bone, and blood: Insights into druggable targets, active factors, and potential biomarkers for bone biomaterial design

Schmidt, J. R. (Shared First Author), Adamowicz, K. (Shared First Author), Arend, L. (Shared First Author), Lehmann, J. (Co-Author), List, M. (Co-Author), Poh, P. S. P. (Co-Author), Baumbach, J. (Co-Author), Kalkhof, S. (Co-Author) & Laske, T. (Last Author), 2024, In: Journal of Tissue Engineering. 15

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