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Matthias Fahrner Profile Page
Matthias Fahrner


PhD Lab:

Oliver Schilling

Department: Institute of Surgical Pathology
Address: Breisacher Strasse 115a
D-79106 Freiburg, Germany
Phone: +49 761 270 80300
E-mail: This e-mail address is being protected from spambots. You need JavaScript enabled to view it
Lab homepage:
Research Area: Molecular Medicine

Curriculum Vitae

Country: Germany
Education/Training: BSc and MSc in Biology at the University of Freiburg (graduated 2017)
Start of PhD Thesis: May 2017
Subject of Thesis: Explorative targeted and spatially resolved proteomic analyses of tumour specimens
Research Interests: Clinical Proteomics, Cancer Biology, Functional and Quantitative Proteomics
Research Techniques: Formalin fixed paraffin embedded (FFPE) tissue processing, cell culture, mass spectrometry based proteomics (shotgun and targeted), high performance liquid chromatography (HPLC)



Krauspe V, Fahrner M, Spät P, Steglich C, Frankenberg-Dinkel N, Maček B, … Hess WR (2021). Discovery of a small protein factor involved in the coordinated degradation of phycobilisomes in cyanobacteria. Proc Natl Acad Sci U S A. (2021) 118(5):e2012277118. Abstract

Serrano-Solano B, Föll MC, Gallardo-Alba C, Erxleben A, Rasche H, Hiltemann S, Fahrner M, Dunning MJ, Schulz MH, Scholtz B, Clements D, Nekrutenko A, Batut B, & Grüning BA (2021). Fostering accessible online education using Galaxy as an e-learning platform. PLoS Comput Biol. (2021) 17(5):e1008923. Abstract

Fahrner M, Kook L, Fröhlich K, Biniossek ML, Schilling OA (2021). Systematic Evaluation of Semispecific Peptide Search Parameter Enables Identification of Previously Undescribed N-Terminal Peptides and Conserved Proteolytic Processing in Cancer Cell Lines. Proteomes (2021) 9(2), 26. Abstract

Baumert HM, Metzger E, Fahrner M, George J, Thomas RK, Schilling O & Schüle R. Depletion of histone methyltransferase KMT9 inhibits lung cancer cell proliferation by inducing non-apoptotic cell death. Cancer Cell Int. (2020) 20:52. Abstract

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. Clinical Proteomics (2018) 15(1), 11.  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. (2017) 66:1-21.  Abstract

Thesis Committee

TC members:

1. Dr. Oliver Schilling
2. Prof. Dr. Marc Timmers
3. Dr. Alexander Nyström

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