Z03

© Kaschani

Project Area Z - Central Services

Dr. Farnusch Kaschani

Analytics Core Facility Essen (ACE)

Center of Medical Biotechnology (ZMB)
University of Duisburg-Essen

Phone: +49 201 183 4924
Email

Central proteomics support

Mass spectrometry (MS)-based proteomics has evolved into a robust and powerful technology for timely mechanistic molecular biology research and is thus ideally suited to support the investigation of cell state transitions. The Analytics Core Facility Essen (ACE) will provide state-of-the-art high-resolution, label-based or label-free quantitative ‘bottom up’ mass spectrometry-based proteomics as well as the required expertise for sample preparation workflows and data evaluation to all CRC members. This will for example allow to reveal molecular mechanisms regulating cell state transitions by identifying and dissecting protein-protein interactions (using label-free quantification strategies, proximity labelling or crosslinking MS) and characterizing dynamic changes in expression levels or post-translational modification (PTM) patterns in isolates or whole proteomes.

Project Members

Dr. Sabrina Ninck

sabrina.ninck@uni-due.de

Publications

    Journal articles

  • Brenner, Joel Cyrille; Zirden, Linda; Almeida-Hernandez, Yasser; Kaschani, Farnusch; Kaiser, Markus; Sanchez-Garcia, Elsa; Poepsel, Simon; Hellerschmied-Jelinek, Doris
    Conformational plasticity of a BiP-GRP94 chaperone complex
    In: Nature Structural & Molecular Biology, Vol. 32, 2025, Nr. 10, pp. 1947 – 1958
    DOI (Open Access)
  • Führer, Siska; Gallant, Kai; Kaschani, Farnusch; Kaiser, Markus; Janning, Petra; Waldmann, Herbert; Gersch, Malte
    Small Molecule-Induced Alterations of Protein Polyubiquitination Revealed by Mass-Spectrometric Ubiquitome Analysis
    In: Angewandte Chemie International Edition, Vol. 64, 2025, Nr. 32, e202508916
    DOI (Open Access)
  • Sewald, Leonard; Tabak, Werner W. A.; Fehr, Lorenz; Zolg, Samuel; Najdzion, Maja; Verhoef, Carlo J. A.; Podlesainski, David; Geiss-Friedlander, Ruth; Lammens, Alfred; Kaschani, Farnusch; Hellerschmied, Doris; Huber, Robert; Kaiser, Markus
    Sulphostin-inspired N-phosphonopiperidones as selective covalent DPP8 and DPP9 inhibitors
    In: Nature Communications, Vol. 16, 2025, Nr. 1, 3208
    DOI (Open Access)
  • Schillinger, Jasmin; Koci, Michelle; Bravo-Rodriguez, Kenny; Heilmann, Geronimo; Kaschani, Farnusch; Kaiser, Markus; Beuck, Christine; Luecke, Hartmut; Huber, Robert; Hellerschmied-Jelinek, Doris; Burston, Steven G.; Ehrmann, Michael
    High resolution analysis of proteolytic substrate processing
    In: The Journal of Biological Chemistry (JBC), Vol. 300, 2024, Nr. 11, 107812
    DOI, Online Full Text (Open Access)
  • Pol, Savina Abraham; Liljenberg, Sara; Barr, Jack; Simon, Gina; Wong-Dilworth, Luis; Paterson, Danielle L.; Berishvili, Vladimir P.; Bottanelli, Francesca; Kaschani, Farnusch; Kaiser, Markus; Pettersson, Mariell; Hellerschmied, Doris
    Induced degradation of SNAP-fusion proteins
    In: RSC Chemical Biology, Vol. 5, 2024, Nr. 12, pp. 1232 – 1247
    DOI (Open Access)
  • Pleuger, Richard; Cozma, Christian; Hohoff, Simone; Denkhaus, Christian; Dudziak, Alexander; Kaschani, Farnusch; Kaiser, Markus; Musacchio, Andrea; Vetter, Ingrid R.; Westermann, Stefan
    Microtubule end-on attachment maturation regulates Mps1 association with its kinetochore receptor
    In: Current Biology, Vol. 34, 2024, Nr. 11, pp. 2279 – 2293.e6
    DOI (Open Access)
  • Day, Matthew; Tetik, Bilal; Parlak, Milena; Almeida-Hernández, Yasser; Räschle, Markus; Kaschani, Farnusch; Siegert, Heike; Marko, Anika; Sanchez-Garcia, Elsa; Kaiser, Markus; Barker, Isabel A.; Pearl, Laurence H.; Oliver, Antony W.; Boos, Dominik
    TopBP1 utilises a bipartite GINS binding mode to support genome replication
    In: Nature Communications, Vol. 15, 2024, Nr. 1, 1797
    DOI, Online Full Text (Open Access)
  • Hoi, David M.; Junker, Sabryna; Junk, Lukas; Schwechel, Kristin; Fischel, Katharina; Podlesainski, David; Hawkins, Paige M.E.; van Geelen, Lasse; Kaschani, Farnusch; Leodolter, Julia; Morreale, Francesca Ester; Kleine, Stefan; Guha, Somraj; Rumpel, Klaus; Schmiedel, Volker M.; Weinstabl, Harald; Meinhart, Anton; Payne, Richard J.; Kaiser, Markus; Hartl, Markus; Boehmelt, Guido; Kazmaier, Uli; Kalscheuer, Rainer; Clausen, Tim
    Clp-targeting BacPROTACs impair mycobacterial proteostasis and survival
    In: Cell, Vol. 186, 2023, Nr. 10, pp. 2176 – 2192.e22
    DOI (Open Access)
  • Rüttermann, Maximilian; Koci, Michelle; Lill, Pascal; Geladas, Ermis Dionysios; Kaschani, Farnusch; Klink, Björn Udo; Erdmann, Ralf; Gatsogiannis, Christos
    Structure of the peroxisomal Pex1/Pex6 ATPase complex bound to a substrate
    In: Nature Communications, Vol. 14, 2023, Nr. 1, 5942
    DOI (Open Access)
  • Blüggel, Mike; Kröning, Alexander; Kracht, Matthias; van den Boom, Johannes; Dabisch, Matthias; Göhring, Anna; Kaschani, Farnusch; Kaiser, Markus; Bayer, Peter; Meyer, Hemmo; Beuck, Christine
    The UBX domain in UBXD1 organizes ubiquitin binding at the C-terminus of the VCP/p97 AAA-ATPase
    In: Nature Communications, Vol. 14, 2023, Nr. 1, 3258
    DOI, Online Full Text (Open Access)
  • Chauvistré, Heike; Shannan, Batool; Daignault-Mill, Sheena M.; Ju, Robert J.; Picard, Daniel; Egetemaier, Stefanie; Váraljai, Renáta; Gibhardt, Christine S.; Sechi, Antonio; Kaschani, Farnusch; Keminer, Oliver; Stehbens, Samantha J.; Liu, Qin; Yin, Xiangfan; Jeyakumar, Kirujan; Vogel, Felix C. E.; Krepler, Clemens; Rebecca, Vito W.; Kubat, Linda; Lueong, Smiths S.; Forster, Jan; Horn, Susanne; Remke, Marc; Ehrmann, Michael; Paschen, Annette; Becker, Jürgen; Helfrich, Iris; Rauh, Daniel; Kaiser, Markus; Gul, Sheraz; Herlyn, Meenhard; Bogeski, Ivan; Rodríguez-López, José Neptuno; Haass, Nikolas K.; Schadendorf, Dirk; Rösch, Alexander
    Persister state-directed transitioning and vulnerability in melanoma
    32. Deutscher Hautkrebskongress (ADO-Jahrestagung), 14.–17. September 2022, Hannover, Germany,
    In: Nature Communications, Vol. 13, 2022, Nr. 1, pp. 35 – 36
    DOI, Online Full Text (Open Access)
  • Dorsch, Madeleine; Kowalczyk, Manuela; Planque, Mélanie; Heilmann, Geronimo; Urban, Sebastian; Dujardin, Philip; Forster, Jan; Ueffing, Kristina; Nothdurft, Silke; Oeck, Sebastian; Paul, Annika; Liffers, Sven T.; Kaschani, Farnusch; Kaiser, Markus; Schramm, Alexander; Siveke, Jens T.; Winslow, Monte M.; Fendt, Sarah-Maria; Nalbant, Perihan; Grüner, Barbara M.
    Statins affect cancer cell plasticity with distinct consequences for tumor progression and metastasis
    In: Cell Reports, Vol. 37, 2021, Nr. 8, 110056
    DOI, Online Full Text (Open Access)

    • Preprints

  • Zaffar, Eman; Vieyto-Nuñez, Julio; Pravi, Katerina; Aslam, Mohammed Faidh; Almeida-Hernández, Yasser; Mieres-Pérez, Joel; Kaschani, Farnusch; Kaiser, Markus; Kroesen, Anika; Boos, Dominik; Sánchez-García, Elsa
    MTBP allosterically activates Cdk8-CycC kinase activity
    2025
    DOI (Open Access)
  • Egetemaier, Stefanie; Chauvistré, Heike; Váraljai, Renáta; Hua, Yichao; Lueong, Smiths; Makhzami, Samira; Srinivas, Nalini; Forster, Jan; Ullrich, Vivien; Stupia, Simone; Schroeder, Valéria; Scharfenberg, Sarah; Hoewner, Anna; Shannan, Batool; Siveke, Jens; Baietti, Maria Francesca; Leucci, Eleonora; Marine, Jean-Christophe; Paschen, Annette; Scheffler, Björn; Engel, Daniel R.; Becker, Lisa; Nensa, Felix; Köster, Johannes; Grünwald, Barbara; Poepsel, Simon; Ninck, Sabrina; Kaschani, Farnusch; Schadendorf, Dirk; Becker, Jürgen; Tasdogan, Alpaslan; Rambow, Florian; Rösch, Alexander
    Redirecting resistance evolution in BRAFV600 melanoma by inhibition of the peroxiredoxin-thioredoxin system
    2025
    DOI (Open Access)
  • Klink, Nikolas; Urban, Sebastian; Seier, Johanna A.; Adhikari, Bikash; Schwalm, Martin P.; Müller, Juliane; Dorsch, Madeleine; Kaschani, Farnusch; Koch, Johannes; Führer, Siska; Kaiser, Markus; Schulze, Nina; Knapp, Stefan; Wolf, Elmar; Paschen, Annette; Grüner, Barbara M.; Gersch, Malte
    Targeted degradation of USP7 in solid cancer cells reveals disparate effects of deubiquitinase inhibition vs. acute protein depletion
    2025
    DOI, Online Full Text (Open Access)
  • Blümke, Anika; Hagemeier, Birte; Ripkens, Kamilla; Schulze, Nina; Strzala, Michal; Koci, Michelle; Kaschani, Farnusch; Kaiser, Markus; Erkelenz, Michael; Schlücker, Sebastian; Merdanovic, Melisa; Poepsel, Simon; Hellerschmied-Jelinek, Doris; Burston, Steve; Ehrmann, Michael
    A non-autonomous protein quality control mechanism targeting tau aggregate propagation
    2024
    DOI (Open Access)
  • Pleuger, Richard; Cozma, Christian; Hohoff, Simone; Denkhaus, Christian; Dudziak, Alexander; Kaschani, Farnusch; Musacchio, Andrea; Vetter, Ingrid R.; Westermann, Stefan
    Ipl1-controlled attachment maturation regulates Mps1 association with its kinetochore receptor
    2023
    DOI (Open Access)

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