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2021 Karvaly GB, Biniossek M, Merkely B, Schilling O, Radovits T. Sex-related differences of early cardiac functional and proteomic alterations in a rat model of myocardial ischemia. J Transl Med. 2021 Dec 11;19(1):507. doi: 10.1186/s12967-021-03164-y. PMID: 34895263; PMCID: PMC8666068.
  Gomez-Auli A, Hillebrand LE, Christen D, Günther SC, Biniossek ML, Peters C, Schilling O, Reinheckel T. The secreted inhibitor of invasive cell growth CREG1 is negatively regulated by cathepsin proteases. Cell Mol Life Sci. 2021 Jan;78(2):733-755. doi: 10.1007/s00018-020-03528-5. Epub 2020 May 8. PMID: 32385587; PMCID: PMC7873128.
  Alatibi KI, Tholen S, Wehbe Z, Hagenbuchner J, Karall D, Ausserlechner MJ, Schilling O, Grünert SC, Vockley J, Tucci S. Lipidomic and Proteomic Alterations Induced by Even and Odd Medium-Chain Fatty Acids on Fibroblasts of Long-Chain Fatty Acid Oxidation Disorders. Int J Mol Sci. 2021 Sep 29;22(19):10556. doi: 10.3390/ijms221910556. PMID: 34638902; PMCID: PMC8508682.
  Fahrner M, Kook L, Fröhlich K, Biniossek ML, Schilling O. A 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 May 25;9(2):26. doi: 10.3390/proteomes
9020026. PMID: 34070654; PMCID: PMC8162549.
  Rogg M, Maier JI, Dotzauer R, Artelt N, Kretz O, Helmstädter M, Abed A, Sammarco A, Sigle A, Sellung D, Dinse P, Reiche K, Yasuda-Yamahara M, Biniossek ML, Walz G, Werner M, Endlich N, Schilling O, Huber TB, Schell C. SRGAP1 Controls Small Rho GTPases To Regulate Podocyte Foot Process Maintenance. J Am Soc Nephrol. 2021 Mar;32(3):563-579. doi: 10.1681/ASN.2020081126. Epub 2021 Jan 29. PMID: 33514561; PMCID: PMC7920176.
  Kern U, Fröhlich K, Bedacht J, Schmidt N, Biniossek ML, Gensch N, Baerenfaller K, Schilling O. Impact of DJ-1 and Helix 8 on the Proteome and Degradome of Neuron-Like Cells. Cells. 2021 Feb 16;10(2):404. doi: 10.3390/cells10020404. PMID: 33669258; PMCID: PMC7920061.
  Weiss SAI, Rehm SRT, Perera NC, Biniossek ML, Schilling O, Jenne DE. Origin and Expansion of the Serine Protease Repertoire in the Myelomonocyte Lineage. Int J Mol Sci. 2021 Feb 7;22(4):1658. doi: 10.3390/ijms22041658. PMID: 33562184; PMCID: PMC7914634.
  Kunath A, Weiner J, Krause K, Rehders M, Pejkovska A, Gericke M, Biniossek ML, Dommel S, Kern M, Ribas-Latre A, Schilling O, Brix K, Stumvoll M, Klöting N, Heiker JT, Blüher M. Role of Kallikrein 7 in Body Weight and Fat Mass Regulation. Biomedicines. 2021 Jan 29;9(2):131. doi: 10.3390/biomedicines9020131. PMID: 33572949; PMCID: PMC7912635.
2020 Honselmann KC, Finetti P, Birnbaum DJ, Monsalve CS, Wellner UF, Begg SKS, Nakagawa A, Hank T, Li A, Goldsworthy MA, Sharma H, Bertucci F, Birnbaum D, Tai E, Ligorio M, Ting DT, Schilling O, Biniossek ML, Bronsert P, Ferrone CR, Keck T, Mino-Kenudson M, Lillemoe KD, Warshaw AL, Fernandez-Del Castillo C, Liss AS. Neoplastic-stromal cell crosstalk regulates matrisome expression in pancreatic cancer. Mol Cancer Res. 2020 Dec;18(12):1889-1902. doi: 10.1158/1541-7786.MCR-20-0439. Pubmed32873625
2019 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). pii: giz143. doi: 10.1093/gigascience/giz143. Pubmed31816088
Larionov A, Dahlke E, Kunke M, Zanon Rodriguez L, Schiessl IM, Magnin JL, Kern U, Alli AA, Mollet G, Schilling O, Castrop H, Theilig F. Cathepsin B increases ENaC activity leading to hypertension early in nephrotic syndrome. J Cell Mol Med. 2019 Oct;23(10):6543-6553. doi: 10.1111/jcmm.14387. Epub 2019 Jul 31. Pubmed31368174
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. 2019 Jul;56(7):5188-5201. doi: 10.1007/s12035-018-1444-7. Epub 2018 Dec 11. Pubmed30539330
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. 2019 Apr;21(4):e12993. doi: 10.1111/cmi.12993. Pubmed30551267
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. Pubmed30257879
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. doi: 10.1002/1878-0261.12426. Epub 2019 Jan 9. Pubmed30556643
2018 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. Pubmed30361775 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. Pubmed30287916
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. Pubmed30172883
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. Pubmed29924726
  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. Pubmed30166526
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. Pubmed29883318
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. Pubmed29572155
  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. Pubmed30087584
  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. Pubmed30013126
  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 Pubmed29925597
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. Pubmed29593307
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. Pubmed29527141
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. Pubmed29158163
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. Pubmed29248718
  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. Pubmed29269042
2017 Drendel V, Heckelmann B, Chen CY, Weisser J, Espadas G, Schell C, Sabido E, Werner M, Jilg CA, Schilling O. Proteome profiling of clear cell renal cell carcinoma in von Hippel-Lindau patients highlights upregulation of Xaa-Pro aminopeptidase-1, an anti-proliferative and anti-migratory exoprotease. Oncotarget. 2017 Oct 19;8(59):100066-100078. doi: 10.18632/oncotarget.21929. eCollection 2017 Nov 21. Pubmed29245961
Koczorowska MM, Friedemann C, Geiger K, Follo M, Biniossek ML, Schilling O. Differential effect of TGFβ on the proteome of cancer associated fibroblasts and cancer epithelial cells in a co-culture approach - a short report. Cell Oncol (Dordr). 2017 Dec;40(6):639-650. doi: 10.1007/s13402-017-0344-6. Epub 2017 Aug 14. Pubmed28808957
  Rogg M, Yasuda-Yamahara M, Abed A, Dinse P, Helmstädter M, Conzelmann AC, Frimmel J, Sellung D, Biniossek ML, Kretz O, Grahammer F, Schilling O, Huber TB, Schell C. The WD40-domain containing protein CORO2B is specifically enriched in glomerular podocytes and regulates the ventral actin cytoskeleton. Sci Rep. 2017 Nov 21;7(1):15910. doi: 10.1038/s41598-017-15844-1. Pubmed29162887
  Cabrera AC, Melo E, Roth D, Topp A, Delobel F, Stucki C, Chen CY, Jakob P, Banfai B, Dunkley T, Schilling O, Huber S, Iacone R, Petrone P. HtrA1 activation is driven by an allosteric mechanism of inter-monomer communication. Sci Rep. 2017 Nov 1;7(1):14804. doi: 10.1038/s41598-017-14208-z. Pubmed29093542
Pfeuffer J, Sachsenberg T, Alka O, Walzer M, Fillbrunn A, Nilse L, Schilling O, Reinert K, Kohlbacher O. OpenMS - A platform for reproducible analysis of mass spectrometry data. J Biotechnol. 2017 Nov 10;261:142-148. doi: 10.1016/j.jbiotec.2017.05.016. Pubmed28559010
  Sigloch FC, Tholen M, Gomez-Auli A, Biniossek ML, Reinheckel T, Schilling O. Proteomic analysis of lung metastases in a murine breast cancer model reveals divergent influence of CTSB and CTSL overexpression. J Cancer. 2017 Oct 23;8(19):4065-4074. doi: 10.7150/jca.21401. eCollection 2017. Pubmed29187882
Shahinian JH, Mayer B, Tholen S, Brehm K, Biniossek ML, Füllgraf H, Kiefer S, Heizmann U, Heilmann C, Rüter F, Grapow M, Reuthebuch OT, Eckstein F, Beyersdorf F, Schilling O, Siepe M. Proteomics highlights decrease of matricellular proteins in left ventricular assist device therapy†. Eur J Cardiothorac Surg. 2017 Jun 1;51(6):1063-1071. doi: 10.1093/ejcts/ezx023. Pubmed28329269
  Enderle-Ammour K, Bader M, Ahrens TD, Franke K, Timme S, Csanadi A, Hoeppner J, Kulemann B, Maurer J, Reiss P, Schilling O, Keck T, Brabletz T, Stickeler E, Werner M, Wellner UF, Bronsert P. Form follows function: Morphological and immunohistological insights into epithelial-mesenchymal transition characteristics of tumor buds. Tumour Biol. 2017 May;39(5):1010428317705501. doi: 10.1177/1010428317705501. Pubmed28475002
  Fuellgraf H, Schilling O, Lai ZW, Kulemann B, Timme S, Makowiec F, Shahinian JH, Hoeppner J, Werner M, Hopt UT, Wellner UF, Bronsert P. The Prognostic Impact of the Carcinoembryonic Antigen in Ampullary Cancer - A Retrospective Single Center Study. J Cancer. 2017 Feb 25;8(4):657-664. doi: 10.7150/jca.16200. eCollection 2017. Pubmed28367245
  Chen CY, Mayer B, Schilling O. Profiling of Protease Cleavage Sites by Proteome-Derived Peptide Libraries and Quantitative Proteomics. Methods Mol Biol. 2017;1574:197-204. doi: 10.1007/978-1-4939-6850-3_14. Pubmed28315252
  Lai ZW, Schilling O. System-Wide Profiling of Protein Amino Termini from Formalin-Fixed, Paraffin-Embedded Tissue Specimens for the Identification of Novel Substrates. Methods Mol Biol. 2017;1574:105-114. doi: 10.1007/978-1-4939-6850-3_8. Pubmed28315246
Lai ZW, Schilling O. Identification of Protease Cleavage Sites by Charge-Based Enrichment of Protein N-Termini. Methods Mol Biol. 2017;1579:199-207. doi: 10.1007/978-1-4939-6863-3_10. Pubmed28299738
Paireder M, Tholen S, Porodko A, Biniossek ML, Mayer B, Novinec M, Schilling O, Mach L. The papain-like cysteine proteinases NbCysP6 and NbCysP7 are highly processive enzymes with substrate specificities complementary to Nicotiana benthamiana cathepsin B. Biochim Biophys Acta. 2017 Apr;1865(4):444-452. doi: 10.1016/j.bbapap.2017.02.007. Pubmed28188928
Fuchs JE, Schilling O, Liedl KR. Determinants of Macromolecular Specificity from Proteomics-Derived Peptide Substrate Data.Curr Protein Pept Sci. 2017;18(9):905-913. doi: 10.2174/1389203717666160724211231. Pubmed27455965
2016 Rupp T, Langlois B, Koczorowska MM, Radwanska A, Sun Z, Hussenet T, Lefebvre O, Murdamoothoo D, Arnold C, Klein A, Biniossek ML, Hyenne V, Naudin E, Velazquez-Quesada I, Schilling O, Van Obberghen-Schilling E, Orend G. Tenascin-C Orchestrates Glioblastoma Angiogenesis by Modulation of Pro- and Anti-angiogenic Signaling. Cell Rep. 2016 Dec 6;17(10):2607-2619. doi: 10.1016/j.celrep.2016.11.012. Pubmed27926865
Sigloch FC, Knopf JD, Weißer J, Gomez-Auli A, Biniossek ML, Petrera A, Schilling O. Proteomic analysis of silenced cathepsin B expression suggests non-proteolytic cathepsin B functionality. Biochim Biophys Acta. 2016 Nov;1863(11):2700-2709. doi: 10.1016/j.bbamcr.2016.08.005. Epub 2016 Aug 12. Pubmed27526672
  Shahinian JH, Fuellgraf H, Tholen S, Mastroianni J, Knopf JD, Kuehs M, Mayer B, Schlimpert M, Kulemann B, Kuesters S, Hoeppner J, Wellner UF, Werner M, Hopt UT, Zeiser R, Bronsert P, Schilling O. Pregnancy Specific β-1 Glycoprotein 1 is Expressed in Pancreatic Ductal Adenocarcinoma and its Subcellular Localization Correlates with Overall Survival. J Cancer. 2016 Oct 17;7(14):2018-2027. Pubmed27877217
  Nilse L, Avci D, Heisterkamp P, Serang O, Lemberg MK, Schilling O. Yeast membrane proteomics using leucine metabolic labelling: Bioinformatic data processing and exemplary application to the ER-intramembrane protease Ypf1. Biochim Biophys Acta. 2016 Oct;1864(10):1363-71. doi: 10.1016/j.bbapap.2016.07.002. Epub 2016 Jul 15. Pubmed27426920
Petrera A, Kern U, Linz D, Gomez-Auli A, Hohl M, Gassenhuber J, Sadowski T, Schilling O. Proteomic Profiling of Cardiomyocyte-Specific Cathepsin A Overexpression Links Cathepsin A to the Oxidative Stress Response. J Proteome Res. 2016 Sep 2;15(9):3188-95. doi: 10.1021/acs.jproteome.6b00413. Epub 2016 Jul 28. Pubmed27432266
  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. doi: 10.1038/nmeth.3959. Pubmed27575624
Fascellaro G, Petrera A, Lai ZW, Nanni P, Grossmann J, Burger S, Biniossek ML, Gomez-Auli A, Schilling O, Imkamp F. Comprehensive Proteomic Analysis of Nitrogen Starved Mycobacterium smegmatis Δpup Reveals the Impact of Pupylation on Nitrogen Stress Response. J Proteome Res. 2016 Aug 5;15(8):2812-25. doi: 10.1021/acs.jproteome.6b00378. Epub 2016 Jul 25. Pubmed27378031
Paireder M, Mehofer U, Tholen S, Porodko A, Schähs P, Maresch D, Biniossek ML, van der Hoorn RA, Lenarcic B, Novinec M, Schilling O, Mach L. The death enzyme CP14 is a unique papain-like cysteine proteinase with a pronounced S2 subsite selectivity. Arch Biochem Biophys. 2016 Aug 1;603:110-7. doi: 10.1016/j.abb.2016.05.017. Epub 2016 May 28. Pubmed27246477
  Biniossek ML, Niemer M, Maksimchuk K, Mayer B, Fuchs J, Huesgen PF, McCafferty DG, Turk B, Fritz G, Mayer J, Haecker G, Mach L, Schilling O. Identification of Protease Specificity by Combining Proteome-Derived Peptide Libraries and Quantitative Proteomics. Mol Cell Proteomics.2016 Jul;15(7):2515-24. doi: 10.1074/mcp.O115.056671. Epub 2016 Apr 27. Pubmed27122596
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 as a Robust Source for the Profiling of Native and Protease-Generated Protein Amino Termini. Mol Cell Proteomics. 2016 Jun;15(6):2203-13. doi: 10.1074/mcp.O115.056515. Epub 2016 Apr 17. Pubmed27087653
  Petrera A, Gassenhuber J, Ruf S, Gunasekaran D, Esser J, Shahinian JH, Hübschle T, Rütten H, Sadowski T, Schilling O. Cathepsin A inhibition attenuates myocardial infarction-induced heart failure on the functional and proteomic levels. J Transl Med. 2016 May 31;14(1):153. doi: 10.1186/s12967-016-0907-8. Pubmed27246731
  Tholen S, Wolf C, Mayer B, Knopf JD, Löffek S, Qian Y, Kizhakkedathu JN, Biniossek ML, Franzke CW, Schilling O. Skin Barrier Defects Caused by Keratinocyte-Specific Deletion of ADAM17 or EGFR Are Based on Highly Similar Proteome and Degradome Alterations. J Proteome Res.2016 May 6;15(5):1402-17. doi: 10.1021/acs.jproteome.5b00691. Pubmed27089454
  Lai ZW, Bolm L, Fuellgraf H, Biniossek ML, Makowiec F, Hopt UT, Werner M, Keck T, Bausch D, Sorio C, Scarpa A, Schilling O, Bronsert P, Wellner UF. Characterization of various cell lines from different ampullary cancer subtypes and cancer associated fibroblast-mediated responses. BMC Cancer. 2016 Mar 8;16(1):195. doi: 10.1186/s12885-016-2193-5. Pubmed26951071
Gomez-Auli A, Hillebrand LE, Biniossek ML, Peters C, Reinheckel T, Schilling O. Impact of cathepsin B on the interstitial fluid proteome of murine breast cancers. Biochimie. 2016 Mar;122:88-98. doi: 10.1016/j.biochi.2015.10.009. Epub 2015 Oct 8. Pubmed26455267
Guo S, Skala W, Magdolen V, Briza P, Biniossek ML, Schilling O, Kellermann J, Brandstetter H, Goettig P. A Single glycan at the 99-loop of human kallikrein-related peptidase 2 regulates activation and enzymatic activity. J Biol Chem. 2016 Jan 8;291(2):593-604. doi: 10.1074/jbc.M115.691097. Epub 2015 Nov 18. Pubmed26582203
Eckhard U, Huesgen PF, Schilling O, Bellac CL, Butler GS, Cox JH, Dufour A, Goebeler V, Kappelhoff R, Keller UA, Klein T, Lange PF, Marino G, Morrison CJ, Prudova A, Rodriguez D, Starr AE, Wang Y, Overall CM. Active site specificity of the matrix metalloproteinase family: Proteomic identification of 4300 cleavage sites by nine MMPs explored with structural and synthetic peptide cleavage analyses.Matrix Biol. 2016 Jan;49:37-60. doi: 10.1016/j.matbio.2015.09.003. Epub 2015 Sep 25. Pubmed26407638
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. doi: 10.1016/j.molonc.2015.08.001. Epub 2015 Aug 11. Pubmed26304112
  Wellner UF, Krauss T, Csanadi A, Lapshyn H, Bolm L, Timme S, Kulemann B, Hoeppner J, Kuesters S, Seifert G, Bausch D, Schilling O, Vashist YK, Bruckner T, Langer M, Makowiec F, Hopt UT, Werner M, Keck T, Bronsert P. Mesopancreatic Stromal Clearance Defines Curative Resection of Pancreatic Head Cancer and Can Be Predicted Preoperatively by Radiologic Parameters: A Retrospective Study. Medicine (Baltimore). 2016 Jan;95(3):e2529. doi: 10.1097/MD.0000000000002529. Pubmed26817896
2015 Lim C, Gandhi S, Biniossek ML, Feng L, Schilling O, Urban S, Chen X. An Aminopeptidase in the Drosophila Testicular Niche Acts in Germline Stem Cell Maintenance and Spermatogonial Dedifferentiation. Cell Rep. 2015 Oct 13;13(2):315-25. doi: 10.1016/j.celrep.2015.09.001. Epub 2015 Oct 1. Pubmed26440886
Dong F, Eibach M, Bartsch JW, Dolga AM, Schlomann U, Conrad C, Schieber S, Schilling O, Biniossek ML, Culmsee C, Strik H, Koller G, Carl B, Nimsky C. The metalloprotease-disintegrin ADAM8 contributes to temozolomide chemoresistance and enhanced invasiveness of human glioblastoma cells. Neuro Oncol. 2015 Nov;17(11):1474-85. doi: 10.1093/neuonc/nov042. Epub 2015 Mar 29. Pubmed25825051
  Sigloch FC, Burk UC, Biniossek ML, Brabletz T, Schilling O. miR-200c dampens cancer cell migration via regulation of protein kinase A subunits. Oncotarget. 2015 Sep 15;6(27):23874-89. Pubmed26203557
  Knopf JD, Tholen S, Koczorowska MM, De Wever O, Biniossek ML, Schilling O. The Stromal Cell-Surface Protease Fibroblast Activation Protein-α Localizes to Lipid Rafts and is Recruited to Invadopodia. Biochim Biophys Acta. 2015 Oct;1853(10 Pt A):2515-25. doi: 10.1016/j.bbamcr.2015.07.013. Pubmed26209915

Weißer J, Lai ZW, Bronsert P, Kuehs M, Drendel V, Timme S, Kuesters S, Jilg CA, Wellner UF, Lassmann S, Werner M, Biniossek ML, Schilling O. Quantitative proteomic analysis of formalin-fixed, paraffin-embedded clear cell renal cell carcinoma tissue using stable isotopic dimethylation of primary amines. BMC Genomics. 2015 Jul 29;16:559. doi: 10.1186/s12864-015-1768-x. Pubmed26220445

  Nilse L, Sigloch FC, Biniossek ML, Schilling O. Towards improved peptide feature detection in quantitative proteomics using stable isotope labelling. Proteomics Clin Appl. 2015 Aug;9(7-8):706-14. doi: 10.1002/prca.201400173 Pubmed25931027
Lai ZW, Gomez-Auli A, Keller E, Mayer B, Biniossek M, Schilling O. Enrichment of protein N-termini by charge-reversal of internal peptides. Proteomics. 2015 Jul;15(14):2470-8. doi: 10.1002/pmic.201500023. Epub 2015 Jun 15. Pubmed26013158

Wünsch D, Hahlbrock A, Heiselmayer C, Bäcker S, Schrenk C, Benne F, Schilling O, Knauer SK. Evolutionary divergence of Threonine Aspartase1 leads to species-specific substrate recognition. Biol Chem. 2015 Apr 1;396(4):367-76. doi: 10.1515/hsz-2014-0318. Pubmed25720119

  Kohler I, Bronsert P, Timme S, Werner M, Brabletz T, Hopt UT, Schilling O, Bausch D, Keck T, Wellner UF. Detailed analysis of epithelial-mesenchymal transition and tumor budding identifies predictors of long-term survival in pancreatic ductal adenocarcinoma. J Gastroenterol Hepatol. 2015 Mar;30 Suppl 1:78-84. doi: 10.1111/jgh.12752. Pubmed25827809
Lai ZW, Petrera A, Schilling O. The emerging role of the peptidome in biomarker discovery and degradome profiling. Biol Chem. 2015 Mar 1;396(3):185-92. doi: 10.1515/hsz-2014-0207. Pubmed25229414
  Kern U, Wischnewski V, Biniossek ML, Schilling O, Reinheckel T. Lysosomal protein turnover contributes to the acquisition of TGFβ-1 induced invasive properties of mammary cancer cells. Mol Cancer. 2015 Feb 15;14(1):39. doi: 10.1186/s12943-015-0313-5. Pubmed25744631
  Lai ZW, Petrera A, Schilling O. Protein amino-terminal modifications and proteomic approaches for N-terminal profiling. Curr Opin Chem Biol. 2015 Feb;24C:71-79. doi: 10.1016/j.cbpa.2014.10.026. Epub 2014 Nov 15. Pubmed25461725 Review
2014 Avci D, Fuchs S, Schrul B, Fukumori A, Breker M, Frumkin I, Chen CY, Biniossek ML, Kremmer E, Schilling O, Steiner H, Schuldiner M, Lemberg MK. The Yeast ER-Intramembrane Protease Ypf1 Refines Nutrient Sensing by Regulating Transporter Abundance. Mol Cell. 2014 Dec 4;56(5):630-40. doi: 10.1016/j.molcel.2014.10.012. Epub 2014 Nov 13. Pubmed25454947
Petrera A, Lai ZW, Schilling O. Carboxyterminal Protein Processing in Health and Disease: Key Actors and Emerging Technologies.
J Proteome Res. 2014 Nov 7;13(11):4497-504. doi: 10.1021/pr5005746. Epub 2014 Sep 19. Pubmed25204196
Bronsert P, Enderle-Ammour K, Bader M, Timme S, Kuehs M, Csanadi A, Kayser G, Kohler I, Bausch D, Hoeppner J, Hopt U, Keck T, Stickeler E, Passlick B, Schilling O, Reiss C, Vashist Y, Brabletz T, Berger J, Lotz J, Olesch J, Werner M, Wellner U. Cancer cell invasion and EMT marker expression - a three-dimensional study of the human cancer-host interface - J Pathol. 2014 Nov;234(3):410-22. doi: 10.1002/path.4416. Pubmed25081610
  Bronsert P, Weißer J, Biniossek ML, Kuehs M, Mayer B, Drendel V, Timme S, Shahinian H, Küsters S, Wellner UF, Lassmann S, Werner M, Schilling O. Impact of Routinely Employed Procedures for Tissue Processing on the Proteomic Analysis of Formalin-Fixed Paraffin-Embedded Tissue. Proteomics Clin Appl. 2014 Oct;8(10):796-804. doi: 10.1002/prca.201300082. Epub 2014 Jul 24. Pubmed24888792
  Volceanov L, Herbst K, Biniossek M, Schilling O, Haller D, Nölke T, Subbarayal P, Rudel T, Zieger B, Häcker G. Septins Arrange F-Actin-Containing Fibers on the Chlamydia trachomatis Inclusion and Are Required for Normal Release of the Inclusion by Extrusion.
MBio. 2014 Oct 7;5(5). pii: e01802-14. doi: 10.1128/mBio.01802-14. Pubmed25293760
  Bronsert P, Kohler I, Timme S, Kiefer S, Werner M, Schilling O, Vashist Y, Makowiec F, Brabletz T, Hopt UT, Bausch D, Kulemann B, Keck T, Wellner UF. Prognostic significance of Zinc finger E-box binding homeobox 1 (ZEB1) expression in cancer cells and cancer-associated fibroblasts in pancreatic head cancer. Surgery. 2014 Jul;156(1):97-108. doi: 10.1016/j.surg.2014.02.018. Epub 2014 Feb 28. Pubmed24929761
  Videm P, Gunasekaran D, Schröder B, Mayer B, Biniossek ML, Schilling O. Automated peptide mapping and protein-topographical annotation of proteomics data.BMC Bioinformatics. 2014 Jun 19;15:207. doi: 10.1186/1471-2105-15-207. Pubmed24946880
  Schilling O, Findeisen P. Proteases and disease. Proteomics Clin Appl. 2014 Jun;8(5-6):296-8. doi: 10.1002/prca.201470035. Pubmed24913842
Tholen S, Biniossek ML, Gansz M, Ahrens TD, Schlimpert M, Kizhakkedathu JN, Reinheckel T, Schilling O. Double deficiency of cathepsins B and L results in massive secretome alterations and suggests a degradative cathepsin-MMP axis. Cell Mol Life Sci. 2014 Mar;71(5):899-916. doi: 10.1007/s00018-013-1406-1. Epub 2013 Jun 29. Pubmed23811845
Shahinian H, Loessner D, Biniossek ML, Kizhakkedathu JN, Clements JA, Magdolen V, Schilling O. Secretome and degradome profiling shows that Kallikrein-related peptidases 4, 5, 6, and 7 induce TGFβ-1 signaling in ovarian cancer cells. Mol Oncol. 2014 Feb;8(1):68-82. doi: 10.1016/j.molonc.2013.09.003. Epub 2013 Oct 1.. Pubmed24120346
  Löffek S, Hurskainen T, Jackow J, Sigloch FC, Schilling O, Tasanen K, Bruckner-Tuderman L, Franzke CW. Transmembrane Collagen XVII Modulates Integrin Dependent Keratinocyte Migration via PI3K/Rac1 Signaling. PLoS One. 2014 Feb 5;9(2):e87263. doi: 10.1371/journal.pone.0087263. eCollection 2014. Pubmed24505282
  Hamson EJ, Keane FM, Tholen S, Schilling O, Gorrell MD. Understanding Fibroblast Activation Protein (FAP): substrates, activities, expression and targeting for cancer therapy. Proteomics Clin Appl. 2014 Jan 28. doi: 10.1002/prca.201300095. Pubmed24470260
2013 Shahinian H, Tholen S, Schilling O. Proteomic identification of protease cleavage sites: cell-biological and biomedical applications. Expert Rev Proteomics. 2013 Oct;10(5):421-33. doi: 10.1586/14789450.2013.841547. Pubmed24117201
  Küttner V, Mack C, Rigbolt KT, Kern JS, Schilling O, Busch H, Bruckner-Tuderman L, Dengjel J. Global remodelling of cellular microenvironment due to loss of collagen VII. Mol Syst Biol. 2013 Apr 16;9:657. doi: 10.1038/msb.2013.17. Pubmed23591773
Tholen S, Biniossek ML, Gansz M, Gomez-Auli A, Werner F, Noel A, Kizhakkedathu JN, Boerries M, Busch H, Reinheckel T, Schilling O. Deletion of cysteine cathepsins B or L yields differential impacts on murine skin proteome and degradome. Mol Cell Proteomics. 2013 Mar;12(3):611-25. doi: 10.1074/mcp.M112.017962. Epub 2012 Dec 10. Pubmed23233448
  Lai ZW, Nice EC, Schilling O. Glycocapture-based proteomics for secretome analysis. Proteomics.2013 Feb;13(3-4):512-25. doi: 10.1002/pmic.201200414. Pubmed23197367
  Tholen S., Koczorowska M., Lai Z., Dengjel J., Schilling O.: Limited and Degradative Proteolysis in the Context of Posttranslational Regulatory Networks: Current Technical and Conceptional Advances. In: K. Brix and W. Stöcker (eds.): Proteases: Structure and Function, Springer Science, cap. 5. 2013 / Buchbeitrag
2012 Biniossek ML, Schilling O. Enhanced identification of peptides lacking basic residues by LC-ESI-MS/MS analysis of singly charged peptides. Proteomics. 2012 May;12(9):1303-9. doi: 10.1002/pmic.201100569. PubMed22589179.
Perera NC, Schilling O, Kittel H, Back W, Kremmer E, Jenne DE. NSP4, an elastase-related protease in human neutrophils with arginine specificity. Proc Natl Acad Sci U S A. 2012 Apr 17;109(16):6229-34. Epub 2012 Apr 2. Pubmed22474388
2011 Biniossek ML, Nägler DK, Becker-Pauly C, Schilling O. Proteomic Identification of Protease Cleavage Sites Characterizes Prime and Non-prime Specificity of Cysteine Cathepsins B, L, and S. JProteome Res. 2011 Dec 2;10(12):5363-73. PubMed21967108
Schilling O, dem Keller UA, Overall CM. Factor Xa subsite mapping by proteome-derived peptide libraries improved using WebPICS, a resource for proteomic identification of cleavage sites. Biol Chem. 2011 Nov;392(11):1031-7. PubMed21846260
  Schilling O, Huesgen PF, Barré O, Overall CM. Identification and relative quantification of native and proteolytically generated protein C-termini from complex proteomes: C-terminome analysis. Methods Mol Biol. 2011;781:59-69. PubMed21877277
  Tholen S, Biniossek ML, Geßler AL, Müller S, Weißer J, Kizhakkedathu JN, Reinheckel T, Schilling O. Contribution of cathepsin L to secretome composition and cleavage pattern of mouse embryonic fibroblasts. Biol Chem. 2011 Nov;392(11):961-971. PubMed21972973
  Becker-Pauly C, Barre O, Schilling O, Auf dem Keller U, Ohler A, Broder C, Schuette A, Kappelhoff R, Stoecker W, Overall CM. Proteomic analyses reveal an acidic prime side specificity for the astacin metalloprotease family reflected by physiological substrates. Mol Cell Proteomics. 2011 Sep;10(9):M111.009233. Epub 2011 Jun 21. PubMed21693781
  Jefferson T, Causevic M, Auf dem Keller U, Schilling O, Isbert S, Geyer R, Maier W, Tschickardt S, Jumpertz T, Weggen S, Bond JS, Overall CM, Pietrzik CU, Becker-Pauly C. Metalloprotease Meprin {beta} Generates Nontoxic N-terminal Amyloid Precursor Protein Fragments in Vivo. J Biol Chem. 2011 Aug 5;286(31):27741-50. PubMed21646356
Löffek S, Schilling O, Franzke CW. Biological role of matrix metalloproteinases: a critical balance. Eur Respir J. 2011 Jul;38(1):191-208. Epub 2010 Dec 22. PubMed21177845
  Schilling O, auf dem Keller U, Overall CM. Protease specificity profiling by tandem mass spectrometry using proteome-derived Peptide libraries. Methods Mol Biol. 2011;753:257-72. PubMed21604128
  Schilling O, Huesgen PF, Barré O, Auf dem Keller U, Overall CM. Characterization of the prime and non-prime active site specificities of proteases by proteome-derived peptide libraries and tandem mass spectrometry. Nat Protoc. 2011 Jan;6(1):111-20. PubMed21212787
2010 Auf dem Keller U, Schilling O. Proteomic Techniques and Activity-based Probes for the System-wide Study of Proteolysis. Biochimie. 2010 Nov;92(11):1705-14. Pubmed20493233
  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. Pubmed20526347
  Kleifeld O, Doucet A, auf dem Keller U, Prudova A, Schilling O, Kainthan RK, Starr AE, Foster LJ, Kizhakkedathu JN, Overall CM. Isotopic labeling of terminal amines in complex samples identifies protein N-termini and protease cleavage products. Nat Biotechnol. 2010 Mar;28(3):281-8. Pubmed20208520
2008 Schilling O, Overall CM. Proteome-derived, database-searchable peptide libraries for identifying protease cleavage sites. Nat Biotechnol. 2008 Jun;26(6):685-94. Pubmed18500335
2007 Schilling, O. & Overall, C. M.: Proteomic discovery of protease substrates. Current Opinion in Chemical Biology 2007 Feb;11(1):36-45. Epub 2006 Dec 27.


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