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AG Schilling

Welcome to the laboratory of Professor Dr. Oliver Schilling.

The Schilling laboratory pursues a research program in two areas: translational proteomics and proteolytic signaling.

Professor Dr. Oliver Schilling
Heisenberg Professor of Translational Proteomics
Institute of Surgical Pathology
Faculty of Medicine - University of Freiburg
Breisacher Strasse 115a
D-79106 Freiburg

Tel:  +49 761 270 80610
Fax: +49 761 270 81970  



We are always happy to hear from students who are interested in pursuing their BSc, MSc or MD thesis in our field.
Please do not hesitate to contact us.

Fig. 1: Spatially resolved, Maldi ion image of a mouse kidney

Translational proteomics

In translational proteomics, the Schilling laboratory pursues three major goals:

  •  establishing proteome profiles and markers to stratify patients with regard to therapeutic response and individualized therapeutic options
  • establishing proteome profiles and markers that distinguish related diseases
  • understanding mechanisms of therapy resistance and identifying novel therapeutic targets

 We utilize three flavors of mass spectrometry based proteomics

  1. Explorative (“shotgun”)
  2. Targeted (MRM / SRM)
  3. Spatially resolved (“MALDI Imaging”, Fig. 1)

Fig. 2: Summary of ADAM-9 functionality in solid tumors

Proteolytic signaling

In this area, the laboratory focuses on cell surface proteases and how they modify cell-matrix interaction. Recent projects have investigated the roles of ADAM-9 and FAPα in solid tumors (Fig. 2).


The Schilling laboratory is supported, amongst others, by the Heisenberg program of the German Research Council (Deutsche Forschungsgemeinschaft, DFG), the ERA-Net program on rare diseases (E-Rare), the ERA-Net program on personalized medicine (PerMed), and the German-Israel Foundation.

Members of the Schilling laboratory (in alphabetical order)

Dr. rer. nat. Chia-Yi Chen
now Eurofins Biopharma

Dr. rer. Klemens Fröhlich
Proteomics Core Facility, University of Basel

Zon Weng Lai, Ph
now Harvard Medical School (Department of Cell Biology) and Harvard School of Public Health (Department of Genetics and Complex Diseases)

Dipl. Mol. Med. Julia Knopf
now University of Heidelberg, laboratory of Prof. Dr. Marius Lemberg

Dr. rer. nat. Maria Koczorowska

Dr. rer. nat. Victor Oginga Oria
Dept of Medical Oncology (Jilaveanu Lab), Yale Cancer Center, Yale University

Dr. rer. nat.  Agnese Petrera
now Helmholtz Zentrum München, Research Unit Protein Science

Dr. rer. nat. Florian Sigloch
now PolyQuant GmbH, 93077 Bad Abbach, Germany

Dr. rer. nat. Stefan Tholen
now Teruel Lab, Stanford University


  • Zhang HE, Hamson EJ, Tholen S, Chowdhury S, Bailey CG, Koczorowska MM, Lay AJ, Twigg SM, Lee Q, Roediger B, Biniossek ML, O'Rourke M, McCaughan GW, Keane FM, Schilling O, Gorrell MD.
    Identification of Novel Natural Substrates of Fibroblast Activation Protein-alpha by Differential Degradomics and Proteomics.
    Mol Cell Proteomics. 2019 Jan;18(1):65-85. doi: 10.1074/mcp.RA118.001046. Epub 2018 Sep 26.
    Pubmed 30257879


  • Oria VO, Lopatta P, Schmitz T, Preca BT, Nyström A, Conrad C, Bartsch JW, Kulemann B, Hoeppner J, Maurer J, Bronsert P, Schilling O.
    ADAM9 contributes to vascular invasion in pancreatic ductal adenocarcinoma.
    Mol Oncol. 2018 Dec 17. doi: 10.1002/1878-0261.12426.
    Pubmed 30556643 [Epub ahead of print]
  • Ohmer M, Tzivelekidis T, Niedenführ N, Volceanov-Hahn L, Barth S, Vier J, Börries M, Busch H, Kook L, Biniossek ML, Schilling O, Kirschnek S, Häcker G.
    Infection of HeLa cells with Chlamydia trachomatis inhibits protein synthesis and causes multiple changes to host cell pathways.
    Cell Microbiol. 2018 Dec 14:e12993. doi: 10.1111/cmi.12993.
    Pubmed 30551267 [Epub ahead of print]
  • Weise SC, Arumugam G, Villarreal A, Videm P, Heidrich S, Nebel N, Dumit VI, Sananbenesi F, Reimann V, Craske M, Schilling O, Hess WR, Fischer A, Backofen R, Vogel T.FOXG1 Regulates PRKAR2B Transcriptionally and Posttranscriptionally via miR200 in the Adult Hippocampus.
    Mol Neurobiol. 2018 Dec 11. doi: 10.1007/s12035-018-1444-7.
    Pubmed 30539330 [Epub ahead of print]
  • Enderle-Ammour K, Wellner U, Kocsmar E, Kiss A, Lotz G, Csanadi A, Bader M, Schilling O, Werner M, Bronsert P.
    [Three-dimensional reconstruction of solid tumors : Morphological evidence for tumor heterogeneity].
    Pathologe. 2018 Dec;39(Suppl 2):231-235. doi: 10.1007/s00292-018-0529-4.
    Pubmed 30361775 Review
  • Wang P, Magdolen V, Seidl C, Dorn J, Drecoll E, Kotzsch M, Yang F, Schmitt M, Schilling O, Rockstroh A, Clements JA, Loessner D.
    Kallikrein-related peptidases 4, 5, 6 and 7 regulate tumour-associated factors in serous ovarian cancer.
    Br J Cancer. 2018 Oct;119(7):823-831. doi: 10.1038/s41416-018-0260-1. Epub 2018 Oct 5. Pubmed 30287916
  • Oria VO, Bronsert P, Thomsen AR, Föll MC, Zamboglou C, Hannibal L, Behringer S, Biniossek ML, Schreiber C, Grosu AL, Bolm L, Rades D, Keck T, Werner M, Wellner UF, Schilling O.
    Proteome Profiling of Primary Pancreatic Ductal Adenocarcinomas Undergoing Additive Chemoradiation Link ALDH1A1 to Early Local Recurrence and Chemoradiation Resistance.
    Transl Oncol. 2018 Dec;11(6):1307-1322. doi: 10.1016/j.tranon.2018.08.001. Epub 2018 Aug 30.
    Pubmed 30172883
  • Porodko A, Cirnski A, Petrov D, Raab T, Paireder M, Mayer B, Maresch D, Nika L, Biniossek ML, Gallois P, Schilling O, Oostenbrink C, Novinec M, Mach L.
    The two cathepsin B-like proteases of Arabidopsis thaliana are closely related enzymes with discrete endopeptidase and carboxydipeptidase activities.
    Biol Chem. 2018 Sep 25;399(10):1223-1235. doi: 10.1515/hsz-2018-0186.
    Pubmed 29924726
  • Haun F, Neumann S, Peintner L, Wieland K, Habicht J, Schwan C, Østevold K, Koczorowska MM, Biniossek M, Kist M, Busch H, Boerries M, Davis RJ, Maurer U, Schilling O, Aktories K, Borner C.
    Identification of a novel anoikis signalling pathway using the fungal virulence factor gliotoxin. Nat Commun. 2018 Aug 30;9(1):3524. doi: 10.1038/s41467-018-05850-w.
    Pubmed 30166526
  • Schilling O, Biniossek ML, Mayer B, Elsässer B, Brandstetter H, Goettig P, Stenman UH, Koistinen H.
    Specificity profiling of human trypsin-isoenzymes.
    Biol Chem. 2018 Sep 25;399(9):997-1007. doi: 10.1515/hsz-2018-0107.
    Pubmed 29883318
  • Chen CY, Melo E, Jakob P, Friedlein A, Elsässer B, Goettig P, Kueppers V, Delobel F, Stucki C, Dunkley T, Fauser S, Schilling O, Iacone R.
    N-Terminomics identifies HtrA1 cleavage of thrombospondin-1 with generation of a proangiogenic fragment in the polarized retinal pigment epithelial cell model of age-related macular degeneration.
    Matrix Biol. 2018 Sep;70:84-101. doi: 10.1016/j.matbio.2018.03.013. Epub 2018 Mar 20.
  • Drendel V, Heckelmann B, Schell C, Kook L, Biniossek ML, Werner M, Jilg CA, Schilling O. Proteomic distinction of renal oncocytomas and chromophobe renal cell carcinomas.
    Clin Proteomics. 2018 Aug 3;15:25. doi: 10.1186/s12014-018-9200-6. eCollection 2018. Pubmed 30087584
  • Debela M, Magdolen V, Skala W, Elsässer B, Schneider EL, Craik CS, Biniossek ML, Schilling O, Bode W, Brandstetter H, Goettig P.
    Structural determinants of specificity and regulation of activity in the allosteric loop network of human KLK8/neuropsin.
    Sci Rep. 2018 Jul 16;8(1):10705. doi: 10.1038/s41598-018-29058-6.
    Pubmed 30013126
  • Westmeier D, Solouk-Saran D, Vallet C, Siemer S, Docter D, Götz H, Männ L, Hasenberg A, Hahlbrock A, Erler K, Reinhardt C, Schilling O, Becker S, Gunzer M, Hasenberg M, Knauer SK, Stauber RH.
    Nanoparticle decoration impacts airborne fungal pathobiology.
    Proc Natl Acad Sci U S A. 2018 Jul 3;115(27):7087-7092. doi: 10.1073/pnas.1804542115 Pubmed 29925597
  • Oria VO, Lopatta P, Schilling O.
    The pleiotropic roles of ADAM9 in the biology of solid tumors.
    Cell Mol Life Sci. 2018 Jul;75(13):2291-2301. doi: 10.1007/s00018-018-2796-x. Epub 2018 Mar 17.
    Pubmed29550974 Review
  • Seidl M, Bader M, Vaihinger A, Wellner UF, Todorova R, Herde B, Schrenk K, Maurer J, Schilling O, Erbes T, Fisch P, Pfeiffer J, Hoffmann L, Franke K, Werner M, Bronsert P. Morphology of Immunomodulation in Breast Cancer Tumor Draining Lymph Nodes Depends on Stage and Intrinsic Subtype.
    Sci Rep. 2018 Mar 28;8(1):5321. doi: 10.1038/s41598-018-23629-3.
    Pubmed 29593307
  • Föll MC, Fahrner M, Oria VO, Kühs M, Biniossek ML, Werner M, Bronsert P, Schilling O.
    Reproducible proteomics sample preparation for single FFPE tissue slices using acid-labile surfactant and direct trypsinization.
    Clin Proteomics. 2018 Mar 6;15:11. doi: 10.1186/s12014-018-9188-y. eCollection 2018. Pubmed 29527141
  • Föll MC, Fahrner M, Gretzmeier C, Thoma K, Biniossek ML, Kiritsi D, Meiss F, Schilling O, Nyström A, Kern JS.
    Identification of tissue damage, extracellular matrix remodeling and bacterial challenge as common mechanisms associated with high-risk cutaneous squamous cell carcinomas.
    Matrix Biol. 2018 Mar;66:1-21. doi: 10.1016/j.matbio.2017.11.004. Epub 2017 Nov 20. Pubmed 29158163
  • Müller AK, Föll M, Heckelmann B, Kiefer S, Werner M, Schilling O, Biniossek ML, Jilg CA, Drendel V.
    Proteomic Characterization of Prostate Cancer to Distinguish Nonmetastasizing and Metastasizing Primary Tumors and Lymph Node Metastases.
    Neoplasia. 2018 Feb;20(2):140-151. doi: 10.1016/j.neo.2017.10.009. Epub 2017 Dec 14. Pubmed 29248718
  • Melo E, Oertle P, Trepp C, Meistermann H, Burgoyne T, Sborgi L, Cabrera AC, Chen CY, Hoflack JC, Kam-Thong T, Schmucki R, Badi L, Flint N, Ghiani ZE, Delobel F, Stucki C, Gromo G, Einhaus A, Hornsperger B, Golling S, Siebourg-Polster J, Gerber F, Bohrmann B, Futter C, Dunkley T, Hiller S, Schilling O, Enzmann V, Fauser S, Plodinec M, Iacone R.
    HtrA1 Mediated Intracellular Effects on Tubulin Using a Polarized RPE Disease Model.
    EBioMedicine. 2018 Jan;27:258-274. doi: 10.1016/j.ebiom.2017.12.011. Epub 2017 Dec 13. Pubmed 29269042

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Institut für Klinische Pathologie
Universitätsklinikum Freiburg
Breisacher Str. 115a
79106 Freiburg
Tel.: +49 761 270 80060 (Sekretariat)
Fax: +49 761 270-80040

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