Publications
2026
Niedermaier F, Mechteridis K, Pelz K, Würf V, Köhler N, Pauling JK. Navigating the lipid universe with LipidLibrarian: a cross-linked database for lipidomics data integration. Journal of Lipid Research. 2026 Apr 28;67(7):101049. Epub 2026 Apr 28. doi: 10.1016/j.jlr.2026.101049
De Jonckheere B, Mehic D, Kopczynski D, Pirabe A, Schrottmaier W, Schmuckenschlager A et al. Altered platelet lipidome in bleeding patients with unexplained platelet function defects. Haematologica. 2026 Jan 1;111(1):300-313. doi: 10.3324/haematol.2025.287698
Fischer M, Sigle M, Manke MC, Marzi J, Schütte JP, Sun N et al. Platelet Casein Kinase 2α is a pivotal player in arterial thrombotic occlusion and post-ischemic myocardial remodeling. Cardiovascular Research. 2026 Jan;122(1):132-145. doi: 10.1093/cvr/cvaf269
2024
Kopczynski D, Ejsing CS, McDonald JG, Bamba T, Baker ES, Bertrand-Michel J et al. The lipidomics reporting checklist a framework for transparency of lipidomic experiments and repurposing resource data. Journal of Lipid Research. 2024 Sept;65(9):100621. doi: 10.1016/j.jlr.2024.100621
Witting M, Malik A, Leach A, Bridge A, Aimo L, Conroy MJ et al. Challenges and perspectives for naming lipids in the context of lipidomics. Metabolomics. 2024 Feb;20(1):15. doi: 10.1007/s11306-023-02075-x
2023
Heimerl S, Höring M, Kopczynski D, Sigruener A, Hart C, Burkhardt R et al. Quantification of bulk lipid species in human platelets and their thrombin-induced release. Scientific Reports. 2023 Dec;13(1):6154. doi: 10.1038/s41598-023-33076-4
Kopczynski D, Hoffmann N, Troppmair N, Coman C, Ekroos K, Kreutz MR et al. LipidSpace: Simple Exploration, Reanalysis, and Quality Control of Large-Scale Lipidomics Studies. Analytical Chemistry. 2023 Oct 4;95(41):15236-15244. doi: 10.1021/acs.analchem.3c02449
Troppmair N, Kopczynski D, Assinger A, Lehmann R, Coman C, Ahrends R. Accurate Sphingolipid Quantification Reducing Fragmentation Bias by Nonlinear Models. Analytical Chemistry. 2023 Oct;95(41):15227-15235. doi: 10.1021/acs.analchem.3c02445
de Jonckheere B, Kollotzek F, Münzer P, Göb V, Fischer M, Mott K et al. Critical shifts in lipid metabolism promote megakaryocyte differentiation and proplatelet formation. Nature Cardiovascular Research. 2023 Sept;2(9):835-852. doi: 10.1038/s44161-023-00325-8
Vondrackova M, Kopczynski D, Hoffmann N, Kuda O. LORA, Lipid Over-Representation Analysis Based on Structural Information. Analytical Chemistry. 2023 Aug 29;95(34):12600-12604. doi: 10.1021/acs.analchem.3c02039
Chen S, Liang C, Li H, Yu W, Prothiwa M, Kopczynski D et al. Pepstatin-Based Probes for Photoaffinity Labeling of Aspartic Proteases and Application to Target Identification. ACS Chemical Biology. 2023 Apr 21;18(4):686-692. doi: 10.1021/acschembio.2c00946
Ni Z, Wolk M, Jukes G, Espinosa KM, Ahrends R, Aimo L et al. Guiding the choice of informatics software and tools for lipidomics research applications. Nature Methods. 2023 Feb;20(2):193-204. doi: 10.1038/s41592-022-01710-0
Kopczynski D, Krause D, Al Machot F, Schwudke D, Hoffmann N, Ahrends R. The Past and Future of Lipidomics Bioinformatics. In Mass Spectrometry for Lipidomics: Methods and Applications. Wiley. 2023. p. 271-290 doi: 10.1002/9783527836512.ch10
2022
McDonald JG, Ejsing CS, Kopczynski D, Holcapek M, Aoki J, Arita M et al. Introducing the Lipidomics Minimal Reporting Checklist. Nature Metabolism. 2022 Aug;4(9):1086-1088. doi: 10.1038/s42255-022-00628-3
Hoffmann N, Mayer G, Has C, Kopczynski D, Al Machot F, Schwudke D et al. A Current Encyclopedia of Bioinformatics Tools, Data Formats and Resources for Mass Spectrometry Lipidomics. Metabolites. 2022 Jul;12(7):584. doi: 10.3390/metabo12070584
Kopczynski D, Hoffmann N, Peng B, Liebisch G, Spener F, Ahrends R. Goslin 2.0 Implements the Recent Lipid Shorthand Nomenclature for MS-Derived Lipid Structures. Analytical Chemistry. 2022 Apr 26;94(16):6097-6101. doi: 10.1021/acs.analchem.1c05430
2020
Kopczynski D, Hentschel A, Coman C, Schebb NH, Hornemann T, Mashek DG et al. Simple Targeted Assays for Metabolic Pathways and Signaling: A Powerful Tool for Targeted Proteomics. Analytical Chemistry. 2020 Oct 20;92(20):13672-13676. doi: 10.1021/acs.analchem.0c02793
Kopczynski D, Hoffmann N, Peng B, Ahrends R. Goslin: A Grammar of Succinct Lipid Nomenclature. Analytical Chemistry. 2020 Aug 18;92(16):10957-10960. doi: 10.1021/acs.analchem.0c01690
Peng B, Kopczynski D, Pratt BS, Ejsing CS, Burla B, Hermansson M et al. LipidCreator workbench to probe the lipidomic landscape. Nature Communications. 2020 Apr 28;11(1):2057. doi: 10.1038/s41467-020-15960-z