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Oliver Schilling Profile Page
Oliver Schilling


Lab: Prof. Dr. Oliver Schilling
Department: Heisenberg Professor of Translational Proteomics,
Institute of Surgical Pathology, Faculty of Medicine, University of Freiburg
Address: Breisacher Strasse 115a
D-79106 Freiburg
Phone: +49 761 270 80610
E-mail: This e-mail address is being protected from spambots. You need JavaScript enabled to view it
Lab homepage:
PhD positions available: YES
Research Area: Molecular Medicine
Research Interests: We apply innovative proteomic and degradomic techniques to understand how proteolysis contributes to physiological and pathological processes. With over 560 proteases in man, this enzyme family ranks among the most abundant protein classes, illustrating its ubiquitous importance in human biology. We understand proteolysis as a post-translational modification that regulates protein location, function, and abundance.


Education & Training: 2014: Habilitation (Venia Legendi) in Molecular Medicine, University of Freiburg, Germany
2004: Dr.rer.nat. in Biology, University of Muenster, Germany & European Molecular Biology Laboratory (EMBL)
2000: Diploma in Biology at Muenster University
Employment & Experience: since 07/2018: Heisenberg Professor for Translational Proteome Research at the Institute of Surgical Pathology, University Freiburg Medical Center
2008–06/2018: Research group leader, Institute of Molecular Medicine and Cell Research, University of Freiburg, Germany
2005−2008: Postdoctoral fellow with Prof. Christopher M. Overall, University of British Columbia, Vancouver, Canada
2004: Postdoctoral fellow, European Molecular Biology Laboratory
2000−2004: International PhD program, European Molecular Biology Laboratory
Scientific Activities: Since 2020: Scientific Advisory Board, Pluridisciplinary Institute Hubert Curien, Strasbourg, France
Since 2019: Steering committee, BIOSS Centre for Biological Signalling Studies, Freiburg
2018-2021: Executive Board, Spemann Graduate School of Biology and Medicine, Freiburg
ad hoc journal reviewer: Nature Communications, Bioinformatics, Biological Chemistry, Chemistry and Biology, EMBO Journal, Expert Reviews in Proteomics, Extremophiles, FEBS Letters, Journal of Biological Chemistry, Journal of Proteome Research, Molecular and Cellular Proteomics, Nature Protocols, Proteomics, Rapid Communications in Mass Spectrometry, and others
ad hoc grant reviewer: Deutsche Forschungsgemeinschaft, Else Kröner-Fresenius-Stiftung, Israel Science Foundation, Flanders Science Organization, Swiss Cancer League, and others


Honors and Awards:

2017: Heisenberg professorship of the DFG
2015: Offer for Full Professorship “Protein Chemistry” VetMed Uni Vienna, Austria (declined)
2012–2017: Starting Grant of the European Research Council ERC
2009–2014: Emmy-Noether funding of the DFG


Selected Publications:

Fahrner M, Bronsert P, Fichtner-Feigl S, Jud A, Schilling O. Proteome biology of primary colorectal carcinoma and corresponding liver metastases. Neoplasia. 2021 Dec;23(12):1240-1251.  Abstract

Föll MC, Moritz L, Wollmann T, Stillger MN, Vockert N, Werner M, Bronsert P, Rohr K, Grüning BA, Schilling O. Accessible and reproducible mass spectrometry imaging data analysis in Galaxy. Gigascience. 2019 Dec 1;8(12):giz143.  Abstract

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. 2019 Feb;13(2):456-479.  Abstract

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.  Abstract

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.  Abstract

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.  Abstract

Röst HL, Sachsenberg T, Aiche S, Bielow C, Weisser H, Aicheler F, Andreotti S, Ehrlich HC, Gutenbrunner P, Kenar E, Liang X, Nahnsen S, Nilse L, Pfeuffer J, Rosenberger G, Rurik M, Schmitt U, Veit J, Walzer M, Wojnar D, Wolski WE, Schilling O, Choudhary JS, Malmström L, Aebersold R, Reinert K, Kohlbacher O. OpenMS: a flexible open-source software platform for mass spectrometry data analysis. Nat Methods. 2016 Aug 30;13(9):741-8.  Abstract

Lai ZW, Weisser J, Nilse L, Costa F, Keller E, Tholen M, Kizhakkedathu JN, Biniossek M, Bronsert P, Schilling O. Formalin-Fixed, Paraffin-Embedded Tissues (FFPE) as a Robust Source for the Profiling of Native and Protease-Generated Protein Amino Termini. Mol Cell Proteomics. 2016 Jun;15(6):2203-13.  Abstract

Koczorowska MM, Tholen S, Bucher F, Lutz L, Kizhakkedathu JN, De Wever O, Wellner UF, Biniossek ML, Stahl A, Lassmann S, Schilling O. Fibroblast activation protein-α, a stromal cell surface protease, shapes key features of cancer associated fibroblasts through proteome and degradome alterations. Mol Oncol. 2016 Jan;10(1):40-58.  Abstract

Schilling O, Barré O, Huesgen PF, Overall CM. Proteome-wide analysis of protein carboxy termini: C terminomics. Nat Methods. 2010 Jul;7(7):508-11.  Abstract

SGBM PhD students

SGBM PhD students:

Tobias Feilen (since February 2021)

Patrick Bernhard (since December 2019)

Tilman Werner (since August 2019)

Matthias Fahrner (since May 2017)




Klemens Fröhlich (Apr 2017-Sep 2021)

Victor Oria (Jan 2015-Nov 2018)

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