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RUB » Protein Research Unit Ruhr within Europe

Publications 2019

• Reversible Immuno-Infrared Sensor for the Detection of Alzheimer's Disease Related Biomarkers.
  Budde B, Schartner J, Tönges L, Kötting C, Nabers A, Gerwert K
  ACS Sens. 2019 Jul 26;4(7):1851-1856.
• Aβ and tau structure-based biomarkers for a blood- and CSF-based two-step recruitment strategy to identify patients with dementia due to Alzheimer's disease.
  Nabers A, Hafermann H, Wiltfang J, Gerwert K.
  Alzheimers Dement (Amst). 2019 Mar 12;11:257-263.
• Lewy pathology in Parkinson's disease consists of crowded organelles and lipid membranes.
  Shahmoradian SH, Lewis AJ, Genoud C, Hench J, Moors TE, Navarro PP, Castaño-Díez D, Schweighauser G, Graff-Meyer A, Goldie KN, Sütterlin R, Huisman E, Ingrassia A, Gier Y, Rozemuller AJM, Wang J, Paepe A, Erny J, Staempfli A, Hoernschemeyer J, Großerüschkamp F, Niedieker D, El-Mashtoly SF, Quadri M, Van IJcken WFJ, Bonifati V, Gerwert K, Bohrmann B, Frank S, Britschgi M, Stahlberg H, Van de Berg WDJ, Lauer ME.
  Nat Neurosci. 2019 Jul;22(7):1099-1109.
• Integrated Fourier Transform Infrared Imaging and Proteomics for Identification of a Candidate Histochemical Biomarker in Bladder Cancer.
  Witzke KE, Großerueschkamp F, Jütte H, Horn M, Roghmann F, von Landenberg N, Bracht T, Kallenbach-Thieltges A, Käfferlein H, Brüning T, Schork K, Eisenacher M, Marcus K, Noldus J, Tannapfel A, Sitek B, Gerwert K.
  Am J Pathol. 2019 Mar;189(3):619-631.

Publications 2018

• Raman Micro-Spectroscopic Evidence for the Metabolism of a Tyrosine Kinase Inhibitor, Neratinib, in Cancer Cells.
  Aljakouch K, Lechtonen T, Yosef HK, Hammoud MK, Alsaidi W, Kötting C, Mügge C, Kourist R, El-Mashtoly S, Gerwert K.
  Angew Chem Int Ed Engl. 2018 Apr 12. doi: 10.1002/anie.201803394. [Epub ahead of print]
• Isolation of Distinct Types of Neurons from Fresh Brain Tissue Using Laser Microdissection in Combination with High-Performance Liquid Chromatography-Mass Spectrometry.
  Aring L, Steinbach S, Marcus K, May C.
  Methods Mol Biol. 2018;1723:247-260. doi: 10.1007/978-1-4939-7558-7_14.
• MicroRNA-30c as a novel diagnostic biomarker for primary and secondary B-cell lymphoma of the CNS.
  Baraniskin A, Chomiak M, Ahle G, Gress T, Buchholz M, Turewicz M, Eisenacher M, Margold M, Schlegel U, Schmiegel W, Hahn S, Schroers R.
  J Neurooncol. 2018 Jan 11. doi: 10.1007/s11060-018-2749-0. [Epub ahead of print]
• Characterization of Cerebrospinal Fluid via Data-Independent Acquisition Mass Spectrometry.
  Barkovits K, Linden A, Galozzi S, Schilde L, Pacharra S, Mollenhauer B, Stoepel N, Steinbach S, May C, Uszkoreit J, Eisenacher M, Marcus K.
  J Proteome Res. 2018 Oct 5;17(10):3418-3430. doi: 10.1021/acs.jproteome.8b00308. Epub 2018 Sep 12.
• Ligand-Induced Conformational Changes in HSP90 Monitored Time Resolved and Label Free-Towards a Conformational Activity Screening for Drug Discovery.
  Güldenhaupt J, Amaral M, Kötting C, Schartner J, Musil D, Frech M, Gerwert K.
  Angew Chem Int Ed Engl. 2018 Jul 26;57(31):9955-9960. doi: 10.1002/anie.201802603. Epub 2018 Jul 3.
• Raman micro-spectroscopy monitors acquired resistance to targeted cancer therapy at the cellular level.
  Hammoud MK, Yosef HK, Lechtonen T, Aljakouch K, Schuler M, Alsaidi W, Daho I, Maghnouj A, Hahn S, El-Mashtoly SF, Gerwert K.
  Sci Rep. 2018 Oct 15;8(1):15278. doi: 10.1038/s41598-018-33682-7.
• Significance of Liquid Biopsy for Monitoring and Therapy Decision of Colorectal Cancer.
  Klein-Scory S, Maslova M, Pohl M, Eilert-Micus C, Schroers R, Schmiegel W, Baraniskin A.
  Transl Oncol. 2018 Apr;11(2):213-220. doi: 10.1016/j.tranon.2017.12.010. Epub 2018 Jan 28.
• Quantum Cascade Laser-Based Infrared Microscopy for Label-Free and Automated Cancer Classification in Tissue Sections.
  Kuepper C, Kallenbach-Thieltges A, Juette H, Tannapfel A, Großerueschkamp F, Gerwert K.
  Sci Rep. 2018 May 16;8(1):7717. doi: 10.1038/s41598-018-26098-w.
• Hierarchical deep convolutional neural networks combine spectral and spatial information for highly accurate Raman-microscopy-based cytopathology.
  Krauß SD, Roy R, Yosef HK, Lechtonen T, El-Mashtoly SF, Gerwert K, Mosig A.
  J Biophotonics. 2018 Oct;11(10):e201800022. doi: 10.1002/jbio.201800022. Epub 2018 Jul 5.
• Autophagy inhibition promotes SNCA/alpha-synuclein release and transfer via extracellular vesicles with a hybrid autophagosome-exosome-like phenotype.
  Minakaki G, Menges S, Kittel A, Emmanouilidou E, Schaeffner I, Barkovits K, Bergmann A, Rockenstein E, Adame A, Marxreiter F, Mollenhauer B, Galasko D, Buzás EI, Schlötzer-Schrehardt U, Marcus K, Xiang W, Lie DC, Vekrellis K, Masliah E, Winkler J, Klucken J.
  Autophagy. 2018;14(1):98-119. doi: 10.1080/15548627.2017.1395992. Epub 2018 Jan 15.
• Direct-acting antivirals-based therapy decreases hepatic fibrosis serum biomarker microfibrillar-associated protein 4 in hepatitis C patients.
  Mölleken C, Ahrens M, Schlosser A, Dietz J, Eisenacher M, Meyer HE, Schmiegel W, Holmskov U, Sarrazin C, Sorensen GL, Sitek B, Bracht T.
  Clin Mol Hepatol. 2018 Nov 19. doi: 10.3350/cmh.2018.0029. [Epub ahead of print]
• Amyloid blood biomarker detects Alzheimer's disease.
  Nabers A, Perna L, Lange J, Mons U, Schartner J, Güldenhaupt J, Saum KU, Janelidze S, Holleczek B, Rujescu D, Hansson O, Gerwert K, Brenner H.
  EMBO Mol Med. 2018 Apr 6. pii: e8763. doi: 10.15252/emmm.201708763. [Epub ahead of print]
• Label-free identification of myopathological features with coherent anti-Stokes Raman scattering.
  Niedieker D, Grosserueschkamp F, Schreiner A, Barkovits K, Kötting C, Marcus K, Gerwert K, Vorgerd M.
  Muscle Nerve. 2018 Sep;58(3):456-459. doi: 10.1002/mus.26140. Epub 2018 May 17.
• Highly stable protein immobilization via maleimido-thiol chemistry to monitor enzymatic activity. Schartner J, Güldenhaupt J, Katharina Gaßmeyer S, Rosga K, Kourist R, Gerwert K, Kötting C.
  Analyst. 2018 May 15;143(10):2276-2284. doi: 10.1039/c8an00301g.
• Protein variability in cerebrospinal fluid and its possible implications for neurological protein biomarker research. Schilde LM, Kösters S, Steinbach S, Schork K, Eisenacher M, Galozzi S, Turewicz M, Barkovits K, Mollenhauer B, Marcus K, May C.
  PLoS One. 2018 Nov 29;13(11):e0206478. doi: 10.1371/journal.pone.0206478. eCollection 2018.
• Protein inference using PIA workflows and PSI standard file formats. Uszkoreit J, Perez-Riverol Y, Eggers B, Marcus K, Eisenacher M.
  J Proteome Res. 2018 Nov 26. doi: 10.1021/acs.jproteome.8b00723. [Epub ahead of print]
• Landscape of pain in Parkinson's disease: impact of gender differences. Zella MAS, May C, Müller T, Ahrens M, Tönges L, Gold R, Marcus K, Woitalla D.
  Neurol Res. 2018 Oct 12:1-11. doi: 10.1080/01616412.2018.1531208. [Epub ahead of print]

Publications 2017

• In-depth analysis of protein inference algorithms using multiple search engines and well-defined metrics.
  Audain E, Uszkoreit J, Sachsenberg T, Pfeuffer J, Liang X, Hermjakob H, Sanchez A, Eisenacher M, Reinert K, Tabb DL, Kohlbacher O, Perez-Riverol Y.
  J Proteomics. 2017 Jan 6;150:170-182. doi: 10.1016/j.jprot.2016.08.002.
• The Human Proteome Organization-Proteomics Standards Initiative Quality Control Working Group: Making Quality Control More Accessible for Biological Mass Spectrometry.
  Bittremieux W, Walzer M, Tenzer S, Zhu W, Salek RM, Eisenacher M, Tabb DL.
  Anal Chem. 2017 Apr 18;89(8):4474-4479. doi: 10.1021/acs.analchem.6b04310.
• Assessment of potential predictors of calretinin and mesothelin to improve the diagnostic performance to detect malignant mesothelioma: results from a population-based cohort study.
  Casjens S, Weber DG, Johnen G, Raiko I, Taeger D, Meinig C, Moebus S, Jöckel KH, Brüning T, Pesch B.
  BMJ Open. 2017 Oct 11;7(10):e017104. doi: 10.1136/bmjopen-2017-017104.
• Identification of a soluble guanylate cyclase in RBCs: preserved activity in patients with coronary artery disease.
  Cortese-Krott MM, Mergia E, Kramer CM, Lückstädt W, Yang J, Wolff G, Panknin C, Bracht T, Sitek B, Pernow J, Stasch JP, Feelisch M, Koesling D, Kelm M.
  Redox Biol. 2018 Apr;14:328-337. doi: 10.1016/j.redox.2017.08.020.
• Expression of PIWIL3 in primary and metastatic melanoma.
  Gambichler T, Kohsik C, Höh AK, Lang K, Käfferlein HU, Brüning T, Stockfleth E, Stücker M, Dreißigacker M, Sand M.
  J Cancer Res Clin Oncol. 2017 Mar;143(3):433-437. doi: 10.1007/s00432-016-2305-2.
• Proteomics Standards Initiative: Fifteen Years of Progress and Future Work.
  Deutsch EW, Orchard S, Binz PA, Bittremieux W, Eisenacher M, Hermjakob H, Kawano S, Lam H, Mayer G, Menschaert G, Perez-Riverol Y, Salek RM, Tabb DL, Tenzer S, Vizcaíno JA, Walzer M, Jones AR.
  J Proteome Res. 2017 Dec 1;16(12):4288-4298. doi: 10.1021/acs.jproteome.7b00370.
• Spatial and molecular resolution of diffuse malignant mesothelioma heterogeneity by integrating label-free FTIR imaging, laser capture microdissection and proteomics. Großerüschkamp, F., Bracht, T., Diehl, H.C., Küpper, C., Ahrens, M., Kallenbach-Thieltges, A., Mosig, A., Eisenacher, M., Marcus, K., Behrens, T., Brüning, T., Theegarten, D., Sitek, B., Gerwert, K.
  Sci Rep. 2017 Mar 30;7:44829. doi: 10.1038/srep44829.
• The Stem Cell Factor HMGA2 Is Expressed in Non-HPV-Associated Head and Neck Squamous Cell Carcinoma and Predicts Patient Survival of Distinct Subsites.
  Günther K, Foraita R, Friemel J, Günther F, Bullerdiek J, Nimzyk R, Markowski DN, Behrens T, Ahrens W.
  Cancer Epidemiol Biomarkers Prev. 2017 Feb;26(2):197-205. doi: 10.1158/1055-9965.EPI-16-0492.
• Proteomics of rimmed vacuoles define new risk allele in inclusion body myositis.
  Güttsches AK, Brady S, Krause K, Maerkens A, Uszkoreit J, Eisenacher M, Schreiner A, Galozzi S, Mertens-Rill J, Tegenthoff M, Holton JL, Harms MB, Lloyd TE, Vorgerd M, Weihl CC, Marcus K, Kley R.
  Ann Neurol. 2017 Feb;81(2):227-239. doi: 10.1002/ana.24847.
• The role of L-arginine/L-homoarginine/nitric oxide pathway for aortic distensibility and intima-media thickness in stroke patients.
  Haghikia A, Yanchev GR, Kayacelebi AA, Hanff E, Bledau N, Widera C, Sonnenschein K, Haghikia A, Weissenborn K, Bauersachs J, Bavendiek U, Tsikas D.
  Amino Acids. 2017 Jun;49(6):1111-1121. doi: 10.1007/s00726-017-2409-2.
• Morphological plasticity of emerging Purkinje cells in response to exogenous VEGF.
  Herrfurth L, Theis V, Matschke V, May C, Marcus K, Theiss C.
  Front Mol Neurosci. 2017 Jan 30;10:2. doi: 10.3389/fnmol.2017.00002. eCollection 2017.
• Calretinin as a blood-based biomarker for mesothelioma.
  Johnen G, Gawrych K, Raiko I, Casjens S, Pesch B, Weber DG, Taeger D, Lehnert M, Kollmeier J, Bauer T, Musk AW, Robinson BWS, Brüning T, Creaney J.
  BMC Cancer. 2017 May 30;17(1):386. doi: 10.1186/s12885-017-3375-5.
• Annexin A10 optimally differentiates between intrahepatic cholangiocarcinoma and hepatic metastases of pancreatic ductal adenocarcinoma: a comparative study of immunohistochemical markers and panels.
  Kälsch J, Padden J, Bertram S, Pott LL, Reis H, Westerwick D, Schaefer CM, Sowa JP, Möllmann D, Fingas C, DechÈ�ne A, Sitek B, Eisenacher M, Canbay A, Ahrens M, Baba HA.
  Virchows Arch. 2017 May;470(5):537-543. doi: 10.1007/s00428-017-2114-2.
• Vitreous microRNA levels as diagnostic biomarkers for vitreo-retinal lymphoma.
  Kakkassery V, Schroers R, Coupland SE, Wunderlich MI, Schargus M, Heinz C, Wasmuth S, Heiligenhaus A, Ahle G, Lenoble P, Schlegel U, Schmiegel W, Dick HB, Baraniskin A.
  Blood. 2017 Jun 8;129(23):3130-3133. doi: 10.1182/blood-2017-01-765180.
• Integrating spatial, morphological and textural information for improved cell type differentiation using Raman microscopy.
  Krauß SD, Yosef HK, Lechtonen T, Jütte H, Tannapfel A, Käfferlein H, Brüning T, Roghmann F, Noldus J, El-Mashtoly S, Gerwert K, Mosig A.
  in press
• Classification of advanced stages of Parkinson's disease: translation into stratified treatments.
  Krüger R, Klucken J, Weiss D, Tönges L, Kolber P, Unterecker S, Lorrain M, Baas H, Müller T, Riederer P.
  J Neural Transm (Vienna). 2017 Aug;124(8):1015-1027. doi: 10.1007/s00702-017-1707-x.
• Soluble chemokine (C-X-C motif) ligand 16 (CXCL16) in urine as a novel biomarker candidate to identify high grade and muscle invasive urothelial carcinomas
  Lang K, Bonberg N, Robens S, Behrens T, Hovanec J, Deix T, Braun K, Roghmann F, Noldus J, Harth V, Jöckel-KH, Erbel R, Tam YC, Tannapfel A, Käfferlein HU, Brüning T.
  Oncotarget. 2017; 8:104946-104959.
• An oncogenic axis of STAT-mediated BATF3 upregulation causing MYC activity in classical Hodgkin lymphoma and anaplastic large cell lymphoma.
  Lollies A, Hartmann S, Schneider M, Bracht T, Weiß A, Arnolds J, Klein-Hitpass L, Sitek B, Hansmann ML, Küppers R, Weniger MA.
  Leukemia. 2017 Jun 29. doi: 10.1038/leu.2017.203.
• [HER2 testing in gastric cancer - results of a German expert meeting]. Lordick F, Al-Batran SE, Hofheinz RD, Lorenzen S, Thuss-Patience P, Baretton GB, Dietel M, Gaiser T, Kirchner T, Kreipe HH, Quaas A, Röcken C, Rüschoff J, Tannapfel A.
  J Cancer Res Clin Oncol. 2017 May;143(5):835-841. doi: 10.1007/s00432-017-2374-x. Epub 2017 Mar 11.
• Testosterone Differentially Affects T Cells and Neurons in Murine and Human Models of Neuroinflammation and Neurodegeneration.
  Massa MG, David C, Jörg S, Berg J, Gisevius B, Hirschberg S, Linker RA, Gold R, Haghikia A.
  Am J Pathol. 2017 Jul;187(7):1613-1622. doi: 10.1016/j.ajpath.2017.03.006.
• Local Mode Analysis: Decoding IR Spectra by Visualizing Molecular Details. Massarczyk M, Rudack T, Schlitter J, Kuhne J, Kötting C, Gerwert K.
  J Phys Chem B. 2017 Apr 20;121(15):3483-3492. doi: 10.1021/acs.jpcb.6b09343. Epub 2017 Feb 8.
• A generally applicable lightweight method for calculating a value structure for tools and services in bioinformatics infrastructure projects.
  Mayer G, Quast C, Felden J, Lange M, Prinz M, Pühler A, Lawerenz C, Scholz U, Glöckner FO, Müller W, Marcus K, Eisenacher M.
  Brief Bioinform. 2017 Oct 30. doi: 10.1093/bib/bbx140.
• One Sample, One Shot - Evaluation of sample preparation protocols for the mass spectrometric proteome analysis of human bile fluid without extensive fractionation.
  Megger DA, Padden J, Rosowski K, Uszkoreit J, Bracht T, Eisenacher M, Gerges C, Neuhaus H, Schumacher B, Schlaak JF, Sitek B.
  J Proteomics. 2017 Feb 10;154:13-21. doi: 10.1016/j.jprot.2016.11.021.
• Deciphering of the Human Interferon-Regulated Proteome by Mass Spectrometry-Based Quantitative Analysis Reveals Extent and Dynamics of Protein Induction and Repression.
  Megger DA, Philipp J, Le-Trilling VTK, Sitek B, Trilling M.
  Front Immunol. 2017 Sep 14;8:1139. doi: 10.3389/fimmu.2017.01139. eCollection 2017.
• Tissue-based quantitative proteome analysis of human hepatocellular carcinoma using tandem mass tags.
  Megger DA, Rosowski K, Ahrens M, Bracht T, Eisenacher M, Schlaak JF, Weber F, Hoffmann AC, Meyer HE, Baba HA, Sitek B.
  Biomarkers. 2017 Mar;22(2):113-122. doi: 10.1080/1354750X.2016.1210678.
• Autophagy inhibition promotes alpha-synuclein release and transfer via extracellular vesicles with a hybrid autophago/exosome-like phenotype.
  Minakaki G, Menges S, Kittel A, Emmanouilidou E, Schaeffner I, Barkovits K, Bergmann A, Rockenstein E, Adame A, Marxreiter F, Mollenhauer B, Galasko D, Irén Buzá E, Schlötzer-Schrehardt U, Marcus K, Xiang W, Chichung Lie D, Vekrellis K, Masliah E, Winkler J, Klucken J.
  in press
• Comprehensive proteomic analysis of Penicillium verrucosum.
  Nöbauer K, Hummel K, Mayrhofer C, Ahrens M, Setyabudi FMC, Schmidt-Heydt M, Eisenacher M, Razzazi-Fazeli E.
  Proteomics. 2017 May;17(9). doi: 10.1002/pmic.201600467.
• Exposure-Response Analyses of Asbestos and Lung Cancer Subtypes in a Pooled Analysis of Case-Control Studies.
  Olsson AC, Vermeulen R, Schüz J, Kromhout H, Pesch B, Peters S, Behrens T, Portengen L, Mirabelli D, Gustavsson P, Kendzia B, Almansa J, Luzon V, Vlaanderen J, Stücker I, Guida F, Consonni D, Caporaso N, Landi MT, Field J, Brüske I, Wichmann HE, Siemiatycki J, Parent ME, Richiardi L, Merletti F, Jöckel KH, Ahrens W, Pohlabeln H, Plato N, Tardón A, Zaridze D, McLaughlin J, Demers P, Szeszenia-Dabrowska N, Lissowska J, Rudnai P, Fabianova E, Stanescu Dumitru R, Bencko V, Foretova L, Janout V, Boffetta P, Bueno-de-Mesquita B, Forastiere F, Brüning T, Straif K.
  Epidemiology. 2017 Mar;28(2):288-299. doi: 10.1097/EDE.0000000000000604.
• Virtual Staining of Colon Cancer Tissue by Label-free Raman Micro-spectroscopy. Petersen D, Mavarani L, Niedieker D, Freier E, Tannapfel A, Kötting C, Gerwert K, El-Mashtoly SF.
  Analyst. 2017 Apr 10;142(8):1207-1215. doi: 10.1039/c6an02072k.
• Raman fiber-optical method for colon cancer detection: Cross-validation and outlier identification approach. Petersen D, Naveedb P, Ragheb A, Niedieker D, El-Mashtoly SF, Brechmann T, Kötting C, Schmiegel WH, Freier E, Pox C, Gerwert K.
  Spectrochim Acta A Mol Biomol Spectrosc. 2017 Jun 15;181:270-275. doi: 10.1016/j.saa.2017.03.054. Epub 2017 Mar 25.
• A recombinant polypeptide of the megakaryocyte potentiating factor is a potential biomarker in plasma for the detection of mesothelioma.
  Raiko I, Rihs HP, Gleichenhagen J, Sander I, Kollmeier J, Lehnert M, Brüning T, Johnen G.
  Biochem Biophys Res Commun. 2017 Apr 29;486(2):526-532. doi: 10.1016/j.bbrc.2017.03.077.
• Asymmetric rhenium tricarbonyl complexes show superior luminescence properties in live cell imaging. Raszeja LJ, Siegmund D, Cordes AL, Güldenhaupt J, Gerwert K, Hahn S, Metzler-Nolte N.
  Chem Commun (Camb). 2017 Jan 16;53(5):905-908. doi: 10.1039/c6cc07553c. Epub 2016 Dec 23.
• Protective effects on the retina after ranibizumab treatment in an ischemia model.
  Renner M, Reinhard J, Theiss C, May C, Lohmann S, Reinehr S, Stute G, Faissner A, Marcus K, Dick HB.
  PLoS One. 2017 Aug 11;12(8):e0182407. doi: 10.1371/journal.pone.0182407. eCollection 2017.
• Coronal Transcranial Sonography and M-Mode Tremor Frequency Determination in Parkinson's Disease and Essential Tremor.
  Richter D, Woitalla D, Muhlack S, Gold R, Tönges L, Krogias C.
  J Neuroimaging. 2017 Sep;27(5):524-530. doi: 10.1111/jon.12441.
• Modulation of Microglial Activity by Rho-Kinase (ROCK) Inhibition as Therapeutic Strategy in Parkinson's Disease and Amyotrophic Lateral Sclerosis.
  Roser AE, Tönges L, Lingor P.
  Front Aging Neurosci. 2017 Apr 4;9:94. doi: 10.3389/fnagi.2017.00094. eCollection 2017.
• An ATR-FTIR Sensor Unraveling the Drug Intervention of Methylene Blue, Congo Red, and Berberine on Human Tau and Aβ.
  Schartner J, Nabers A, Budde B, Lange J, Hoeck N, Wiltfang J, Kötting C, Gerwert K.
  ACS Med Chem Lett. 2017 Jun 11;8(7):710-714. doi: 10.1021/acsmedchemlett.7b00079. eCollection 2017 Jul 13.
• Blood-based detection of RAS mutations to guide anti-EGFR therapy in colorectal cancer patients: concordance of results from circulating tumor DNA and tissue-based RAS testing. Schmiegel W, Scott R, Dooley S, Lewis W, Meldrum C, Pockney P, Draganic B, Smith S, Hewitt C, Philimore H, Lucas A, Shi E, Namdarian K, Chan T, Acosta D, Chang S, Tannapfel A, Reinacher-Schick A, Uhl W, Teschendorf C, Wolters H, Stern J, Viebahn R, Friess H, Janssen KP, Nitsche U, Slotta-Huspenina J, Pohl M, Vangala D, Baraniskin A, Dockhorn-Dworniczak B, Hegewisch-Becker S, Ronga P, Edelstein D, Jones F, Hahn S, and Fox S.
  Mol Oncol. 2017 Feb;11(2):208-219. doi: 10.1002/1878-0261.12023. Epub 2017 Jan 20.
• Omnisphero: a high-content image analysis (HCA) approach for phenotypic developmental neurotoxicity (DNT) screenings of organoid neurosphere cultures in vitro.
  Schmuck MR, Temme T, Dach K, de Boer D, Barenys M, Bendt F, Mosig A, Fritsche E.
  Arch Toxicol. 2017 Apr;91(4):2017-2028. doi: 10.1007/s00204-016-1852-2.
• Metabolic profiles by 1H-magnetic resonance spectroscopy in natalizumab-associated post-PML lesions of multiple sclerosis patients who survived progressive multifocal leukoencephalopathy (PML).
  Schneider R, Bellenberg B, Hoepner R, Kolb EM, Ellrichmann G, Haghikia A, Gold R, Lukas C.
  PLoS One. 2017 Apr 26;12(4):e0176415. doi: 10.1371/journal.pone.0176415. eCollection 2017.
• Lewy pathology in Parkinson's disease consists of a crowded organellar membranous medley
  40) Shahmoradian SH, Genoud C, Graff-Meyer A, Hench J, Moors T, Schweighauser G, Wang J, Goldie KN, Suetterlin R, Castano-Diez D, Perez-Navarro P, Huisman E, Ipsen S, Ingrassia A, de Gier Y, Rozemuller AJM, Da Paepe A, Erny J, Staempfli A, Hoernschemeyer J, Grosserueschkamp F, Niedieker D, El-Mashtoly SF, Quadri M, van Ijcken WFJ, Bonifati V, Gerwert K, Bohrmann B, Frank B, Britschgi M, Stahlberg H, van de Berg W, Lauer ME.
  bioRxiv, doi: https://doi.org/10.1101/137976
• Quantitative proteome analysis of plasma microparticles for the characterization of HCV-induced hepatic cirrhosis and hepatocellular carcinoma.
  Taleb RSZ, Moez P, Younan D, Eisenacher M, Tenbusch M, Sitek B, Bracht T.
  Proteomics Clin Appl. 2017 Jun 19. doi: 10.1002/prca.201700014.
• [Epidemiology of Parkinson's Disease and Current Concepts of Outpatient Care in Germany].
  Tönges L, Ehret R, Lorrain M, Riederer P, Müngersdorf M.
  Fortschr Neurol Psychiatr. 2017 Jun;85(6):329-335. doi: 10.1055/s-0043-103275.
• Distinct metabolomic signature in cerebrospinal fluid in early parkinson's disease.
  Trezzi JP, Galozzi S, Jaeger C, Barkovits K, Brockmann K, Maetzler W, Berg D, Marcus K, Betsou F, Hiller K, Mollenhauer B.
  Mov Disord. 2017 Oct;32(10):1401-1408. doi: 10.1002/mds.27132.
• Metabolic profiling of body fluids and multivariate data analysis.
  Trezzi JP, Jäger C, Galozzi S, Barkovits K, Marcus K, Mollenhauer B, Hiller K.
  MethodsX. 2017 Feb 20;4:95-103. doi: 10.1016/j.mex.2017.02.004. eCollection 2017.
• Clinical Application of Liquid Biopsy in Targeted Therapy of Metastatic Colorectal Cancer.
  Trojan J, Klein-Scory S, Koch C, Schmiegel W, Baraniskin A.
  Case Rep Oncol Med. 2017;2017:6139634. doi: 10.1155/2017/6139634.
• BioInfra.Prot: A comprehensive proteomics workflow including data standardization, protein inference, expression analysis and data publication.
  Turewicz M, Kohl M, Ahrens M, Mayer G, Uszkoreit J, Naboulsi W, Bracht T, Megger DA, Sitek B, Marcus K, Eisenacher M.
  J Biotechnol. 2017 Nov 10;261:116-125. doi: 10.1016/j.jbiotec.2017.06.005.
• The mzIdentML Data Standard Version 1.2, Supporting Advances in Proteome Informatics.
  Vizcaíno JA, Mayer G, Perkins S, Barsnes H, Vaudel M, Perez-Riverol Y, Ternent T, Uszkoreit J, Eisenacher M, Fischer L, Rappsilber J, Netz E, Walzer M, Kohlbacher O, Leitner A, Chalkley RJ, Ghali F, Martínez-Bartolomé S, Deutsch EW, Jones AR.
  Mol Cell Proteomics. 2017 Jul;16(7):1275-1285. doi: 10.1074/mcp.M117.068429.
• A community proposal to integrate proteomics activities in ELIXIR.
  Vizcaíno JA, Walzer M, Jiménez RC, Bittremieux W, Bouyssié D, Carapito C, Corrales F, Ferro M, Heck AJR, Horvatovich P, Hubalek M, Lane L, Laukens K, Levander F, Lisacek F, Novak P, Palmblad M, Piovesan D, Pühler A, Schwämmle V, Valkenborg D, van Rijswijk M, Vondrasek J, Eisenacher M, Martens L, Kohlbacher O.
  F1000Res. 2017 Jun 13;6. pii: ELIXIR-875. doi: 10.12688/f1000research.11751.1. eCollection 2017.
• Quantitative Secretome Analysis of Activated Jurkat Cells using Click Chemistry-Based Enrichment of Secreted Glycoproteins.
  Witzke K, Rosowski K, Müller C, Ahrens M, Eisenacher M, Megger DA, Knobloch J, Koch A, Bracht T, Sitek B.
  
• Noninvasive Diagnosis of High-Grade Urothelial Carcinoma in Urine by Raman Spectral Imaging. Yosef HK, Krauß SD, Lechtonen T, Jütte H, Tannapfel A, Käfferlein HU, Brüning T, Roghmann F, Noldus J, Mosig A, El-Mashtoly SF, Gerwert K.
  Anal Chem. 2017 Jun 20;89(12):6893-6899. doi: 10.1021/acs.analchem.7b01403. Epub 2017 Jun 5.

Publications 2016

• Histopathological regression after neoadjuvant docetaxel, oxaliplatin, fluorouracil, and leucovorin versus epirubicin, cisplatin, and fluorouracil or capecitabine in patients with resectable gastric or gastro-oesophageal junction adenocarcinoma (FLOT4-AIO): results from the phase 2 part of a multicentre, open-label, randomised phase 2/3 trial.
  Al-Batran SE, Hofheinz RD, Pauligk C, Kopp HG, Haag GM, Luley KB, Meiler J, Homann N, Lorenzen S, Schmalenberg H, Probst S, Koenigsmann M, Egger M, Prasnikar N, Caca K, Trojan J, Martens UM, Block A, Fischbach W, Mahlberg R, Clemens M, Illerhaus G, Zirlik K, Behringer DM, Schmiegel W, Pohl M, Heike M, Ronellenfitsch U, Schuler M, Bechstein WO, Königsrainer A, Gaiser T, Schirmacher P, Hozaeel W, Reichart A, Goetze TO, Sievert M, Jäger E, Mönig S, Tannapfel A.
  Lancet Oncol. 2016 Dec;17(12):1697-1708. doi: 10.1016/S1470-2045(16)30531-9. Epub 2016 Oct 22.
• In-depth analysis of protein inference algorithms using multiple search engines and well-defined metrics.
  Audain E, Uszkoreit J, Sachsenberg T, Pfeuffer J, Liang X, Hermjakob H, Sanchez A, Eisenacher M, Reinert K, Tabb DL, Kohlbacher O, Perez-Riverol Y.
  J Proteomics. 2017 Jan 6;150:170-182. doi: 10.1016/j.jprot.2016.08.002. Epub 2016 Aug 4.
• Circulating U2 small nuclear RNA fragments as a novel diagnostic biomarker for primary central nervous system lymphoma.
  Baraniskin A, Zaslavska E, Nöpel-Dünnebacke S, Ahle G, Seidel S, Schlegel U, Schmiegel W, Hahn S, Schroers R.
  Neuro Oncol. 2016 Mar;18(3):361-7. doi: 10.1093/neuonc/nov144. Epub 2015 Aug 6.
• [HER2 testing in gastric cancer : Results of a meeting of German experts]
  Baretton G, Dietel M, Gaiser T, Kirchner T, Kreipe HH, Quaas A, Röcken C, Rüschoff J, Tannapfel A, Lordick F, Al-Batran S, Hofheinz R, Lorenzen S, Moehler M, Thuss-Patience P.
  Pathologe. 2016 Jul;37(4):361-6. doi: 10.1007/s00292-016-0179-3. German.
• Occupational prestige, social mobility and the association with lung cancer in men.
  Behrens T, Groß I, Siemiatycki J, Conway DI, Olsson A, Stücker I, Guida F, Jöckel KH, Pohlabeln H, Ahrens W, Brüske I, Wichmann HE, Gustavsson P, Consonni D, Merletti F, Richiardi L, Simonato L, Fortes C, Parent ME, McLaughlin J, Demers P, Landi MT, Caporaso N, Zaridze D, Szeszenia-Dabrowska N, Rudnai P, Lissowska J, Fabianova E, Tardón A, Field JK, Dumitru RS, Bencko V, Foretova L, Janout V. Kromhout H, Vermeulen R, Boffetta P, Straif K, Schüz J, Hovanec J, Kendzia B, Pesch B, Brüning T.
  BMC Cancer 16: 395.
• The uncinate process first approach: a novel technique for laparoscopic right hemicolectomy with complete mesocolic excision.
  Benz S, Tam Y, Tannapfel A, Stricker I.
  Surg Endosc. 2016 May;30(5):1930-7. doi: 10.1007/s00464-015-4417-1.
• Novel immunohistochemical markers differentiate intrahepatic cholangiocarcinoma from benign bile duct lesions.
  Bertram S, Padden J, Kälsch J, Ahrens M, Pott L, Canbay A, Weber F, Fingas C, Hoffmann AC, Vietor A, Schlaak JF, Eisenacher M, Reis H, Sitek B, Baba HA.
  J Clin Pathol. 2016 Jan 4. pii: jclinpath-2015-203418. doi: 10.1136/jclinpath-2015-203418.
• Lung Cancer Among Firefighters: Smoking-Adjusted Risk Estimates in a Pooled Analysis of Case-Control Studies.
  Bigert C, Gustavsson P, Straif K, Taeger D, Pesch B, Kendzia B, Schüz J, Stücker I, Guida F, Brüske I, Wichmann HE, Pesatori AC, Landi MT, Caporaso N, Tse LA, Yu IT, Siemiatycki J, Lavoué J, Richiardi L, Mirabelli D, Simonato L, Jöckel KH, Ahrens W, Pohlabeln H, Tardón A, Zaridze D, Field JK, 't Mannetje A, Pearce N, McLaughlin J, Demers P, Szeszenia-Dabrowska N, Lissowska J, Rudnai P, Fabianova E, Stanescu Dumitru R, Bencko V, Foretova L, Janout V, Boffetta P, Peters S, Vermeulen R, Kromhout H, Brüning T, Olsson AC.
  J Occup Environ Med. 2016 Nov;58(11):1137-1143.
• Evaluation of the biomarker candidate MFAP4 for non-invasive assessment of hepatic fibrosis in hepatitis C patients.
  Bracht T, Mölleken C, Ahrens M, Poschmann G, Schlosser A, Eisenacher M, Stühler K, Meyer HE, Schmiegel WH, Holmskov U, Sorensen GL, Sitek B.
  J Transl Med 2016 Jul 4;14(1):201
• Membrane tethering of APP c-terminal fragments is a prerequisite for T668 phosphorylation preventing nuclear sphere generation.
  Bukhari H, Kolbe K, Leonhardt G, Loosse C, Schröder E, Knauer S, Marcus K, Müller T.
  Cell Signal. 2016 Nov;28(11):1725-34. doi: 10.1016/j.cellsig.2016.08.007. Epub 2016 Aug 14.
• Mitochondrial defects and neurodegeneration in mice overexpressing wild-type or G399S mutant HtrA2.
  Casadei N, Sood P, Ulrich T, Fallier-Becker P, Kieper N, Helling S, May C, Glaab E, Chen J, Nuber S, Marcus K, Rapaport D, Ott T, Riess O, Krüger R, Fitzgerald JC.
  Hum Mol Genet. 2016 Feb 1;25(3):459-71. doi: 10.1093/hmg/ddv485.
• Associations between former exposure to manganese and olfaction in an elderly population: Results from the Heinz Nixdorf Recall Study.
  Casjens S, Pesch B, Robens S, Kendzia B, Behrens T, Weiss T, Ulrich N, Arendt M, Eisele L, Pundt N, Marr A, van Thriel C, Van Gelder R, Aschner M, Moebus S, Dragano N, Jöckel KH, Brüning T.
  Neurotoxicology. 2017 Jan;58:58-65. doi: 10.1016/j.neuro.2016.11.005. Epub 2016 Nov 16.
• Validation of molecularly imprinted polymers for side chain selective phosphopeptide enrichment.
  Chen J, Shinde S, Subedi P, Wierzbicka C, Sellergren B, Helling S, Marcus K.
  J Chromatogr A. 2016 Nov 4;1471:45-50. doi: 10.1016/j.chroma.2016.10.018. Epub 2016 Oct 11.
• Cancer mortality in Itapúa--A rural province of Paraguay 2003-2012.
  Codas M, Pesch B, Adolphs M, Madrazo C, Matthias C, Heinze E, Taeger D, Behrens T, Chaux A, Brüning T.
  Cancer Epidemiol. 2016 Feb;40:1-6.
• Rab7 induces clearance of α-synuclein aggregates.
  Dinter E, Saridaki T, Nippold M, Plum S, Diederichs L, Komnig D, Fensky L, May C, Marcus K, Voigt A, Schulz JB and Falkenburger BH
  Journal of Neurochemistry, accepted 2016.
• Plasmapheresis and immunoadsorption in patients with steroid refractory multiple sclerosis relapses.
  Faissner S, Nikolayczik J, Chan A, Hellwig K, Gold R, Yoon MS, Haghikia A.
  J Neurol. 2016 Jun;263(6):1092-8. doi: 10.1007/s00415-016-8105-4. Epub 2016 Apr 2.
• Pretreatment oral hygiene habits and survival of head and neck squamous cell carcinoma (HNSCC) patients.
  Friemel J, Foraita R, Günther K, Heibeck M, Günther F, Pflueger M, Pohlabeln H, Behrens T, Bullerdiek J, Nimzyk R, Ahrens W.
  BMC Oral Health. 2016 Mar 11;16:33.
• Expression of PIWIL3 in primary and metastatic melanoma.
  Gambichler T, Kohsik C, Höh AK, Lang K, Käfferlein HU, Brüning T, Stockfleth E, Stücker M, Dreißigacker M, Sand M.
  J Cancer Res Clin Oncol. 2017 Mar;143(3):433-437. doi: 10.1007/s00432-016-2305-2. Epub 2016 Nov 17.
• Unraveling the phosphocholination mechanism of the Legionella pneumophila enzyme AnkX.
  Gavriljuk, K., Schartner, J., Seidel, H., Dickhut, C., Zahedi, R. P., Hedberg, C., Kötting, C., Gerwert, K.
  Biochemistry. 2016 Aug 9;55(31):4375-85. doi: 10.1021/acs.biochem.6b00524. Epub 2016 Jul 27.
• The stem cell factor HMGA2 is expressed in non-HPV associated head and neck squamous cell carcinoma and predicts patient survival of distinct subsites.
  Günther K, Foraita R, Friemel J, Günther F, Bullerdiek J, Nimzyk R, Markowski DN, Behrens T, Ahrens W.
  Cancer Epidemiol Biomarkers Prev. 2017 Feb;26(2):197-205. doi: 10.1158/1055-9965.EPI-16-0492. Epub 2016 Oct 14.
• Dietary Fatty Acids Directly Impact Central Nervous System Autoimmunity via the Small Intestine.
  Haghikia A, Jörg S, Duscha A, Berg J, Manzel A, Waschbisch A, Hammer A, Lee DH, May C, Wilck N, Balogh A, Ostermann AI, Schebb NH, Akkad DA, Grohme DA, Kleinewietfeld M, Kempa S, Thöne J, Demir S, Müller DN, Gold R, Linker RA.
  Immunity. 2016 Apr 19;44(4):951-953. doi: 10.1016/j.immuni.2016.04.006.
• Evaluation of the safety and efficacy of TRAIL and taurolidine use on human fibrosarcoma xenografts in vivo.
  Harati K, Emmelmann S, Behr B, Goertz O, Hirsch T, Kapalschinski N, Kolbenschlag J, Stricker I, Tannapfel A, Lehnhardt M, Daigeler A.
  Oncol Lett. 2016 Mar;11(3):1955-1961. Epub 2016 Jan 15.
• Thirty years of European Conference on Spectroscopy of Biological Molecules celebrated in Ruhr University Bochum.
  Haris, P.I., Gerwert, K.
  Biomedical Spectroscopy and Imaging, vol. 5, no. 2, pp. 99-100, 2016.
• A prognostic gene signature for UICC II colorectal cancer patients with a high risk of recurrence by next generation sequencing.
  Kasimir S, Liffers ST, Raulf AP, Munding J, Karp M, Uhl W, Mosig A, Reinacher-Schick A, Tannapfel A.
  Oncology research and treatment. 2016;39(1): 13-13
• Circulating U2 small nuclear RNA fragments as a diagnostic and prognostic biomarker in lung cancer patients.
  Köhler J, Schuler M, Gauler TC, Nöpel-Dünnebacke S, Ahrens M, Hoffmann AC, Kasper S, Nensa F, Gomez B, Hahnemann M, Breitenbuecher F, Cheufou D, Özkan F, Darwiche K, Hoiczyk M, Reis H, Welter S, Eberhardt WE, Eisenacher M, Teschler H, Stamatis G, Schmiegel W, Hahn SA, Baraniskin A.
  J Cancer Res Clin Oncol. 2016 Apr;142(4):795-805. doi: 10.1007/s00432-015-2095-y.
• A subset of metastatic pancreatic ductal adenocarcinomas depends quantitatively on oncogenic Kras/Mek/Erk-induced hyperactive mTOR signalling.
  Kong B, Wu W, Cheng T, Schlitter AM, Qian C, Bruns P, Jian Z, Jäger C, Regel I, Raulefs S, Behler N, Irmler M, Beckers J, Friess H, Erkan M, Siveke JT, Tannapfel A, Hahn SA, Theis FJ, Esposito I, Kleeff J, Michalski CW.
  Gut. 2016;65(4): 647-57
• Label-free classification of colon cancer grading using infrared spectral histopathology.
  Kuepper C, Großerueschkamp F, Kallenbach-Thieltges A, Mosig A, Tannapfel A, Gerwert K.
  Faraday Discuss. 2016 Apr 11.
• Incidence of malignant mesothelioma in Germany 2009-2013.
  Lehnert M, Kraywinkel K, Heinze E, Wiethege T, Johnen G, Fiebig J, Brüning T, Taeger D.
  Cancer Causes Control. 2016 Dec 27. doi: 10.1007/s10552-016-0838-y
• New insights into the protein aggregation pathology in myotilinopathy by combined proteomic and immunolocalization analyses.
  Maerkens A, Olivé M, Schreiner A, Feldkirchner S, Schessl J, Uszkoreit J, Barkovits K, Güttsches AK, Theis V, Eisenacher M, Tegenthoff M, Goldfarb LG, Schröder R, Schoser B, van der Ven PF, Fürst DO, Vorgerd M, Marcus K*& Kley RA*
  Acta Neuropathol Commun. 2016, 4(1), 8.
• Flow cytometric characterization of microglia in the offspring of PolyI:C treated mice.
  Manitz MP, Plümper J, Demir S, Ahrens M, Eßlinger M, Wachholz S, Eisenacher M, Juckel G, Friebe A.
  Brain Res. 2016 Apr 1;1636:172-82. doi: 10.1016/j.brainres.2016.02.004. Epub 2016 Feb 10.
• Mechanism of the intrinsic arginine finger in heterotrimeric G proteins.
  Mann, D., Teuber, C., Tennigkeit, S.A., Schröter, G., Gerwert, K., Kötting, C.
  Proc Natl Acad Sci U S A. 2016 Dec 13;113(50):E8041-E8050. Epub 2016 Nov 28.
• Multiple Sclerosis Patient-Specific Primary Neurons Differentiated from Urinary Renal Epithelial Cells via Induced Pluripotent Stem Cells.
  Massa MG, Gisevius B, Hirschberg S, Hinz L, Schmidt M, Gold R, Prochnow N, Haghikia A.
  PLoS One. 2016 May 9;11(5):e0155274. doi: 10.1371/journal.pone.0155274. eCollection 2016.
• Flow cytometric characterization of microglia in the offspring of PolyI:C treated mice.
  Manitz MP, Plümper J, Demir S, Ahrens M, Eßlinger M, Wachholz S, Eisenacher M, Juckel G, Friebe A.
  Brain Res. 2016 Apr 1;1636:172-82. doi: 10.1016/j.brainres.2016.02.004.
• Boolean modeling techniques for protein co-expression networks in systems medicine.
  Mayer G, Marcus K, Eisenacher M, Kohl M.
  Expert Rev Proteomics. 2016 Jun;13(6):555-69. doi: 10.1080/14789450.2016.1181546.
• Tissue-based quantitative proteome analysis of human hepatocellular carcinoma using tandem mass tags.
  Megger DA, Rosowski K, Ahrens M, Bracht T, Eisenacher M, Schlaak JF, Weber F, Hoffmann AC, Meyer HE, Baba HA, Sitek B.
  Biomarkers. 2017 Mar;22(2):113-122. doi: 10.1080/1354750X.2016.1210678. Epub 2016 Jul 28.
• Outcome according to KRAS-, NRAS- and BRAF-mutation as well as KRAS mutation variants: pooled analysis of five randomized trials in metastatic colorectal cancer by the AIO colorectal cancer study group.
  Modest DP, Ricard I, Heinemann V, Hegewisch-Becker S, Schmiegel W, Porschen R, Stintzing S, Graeven U, Arnold D, von Weikersthal LF, Giessen-Jung C, Stahler A, Schmoll HJ, Jung A, Kirchner T, Tannapfel A, Reinacher-Schick A.
  Ann Oncol. 2016 Sep;27(9):1746-53. doi: 10.1093/annonc/mdw261. Epub 2016 Jun 29.
• Criteria for Determining Malignancy in Pancreatic Intraductal Papillary Mucinous Neoplasm Based on Computed Tomography.
  Mönnings P, Belyaev O, Uhl W, Giese A, Tannapfel A, Köster O, Meier JJ.
  Digestion. 2016;94(4):230-239. doi: 10.1159/000452738. Epub 2016 Dec 29.
• Amyloid-β-Secondary Structure Distribution in Cerebrospinal Fluid and Blood Measured by an Immuno-Infrared-Sensor: A Biomarker Candidate for Alzheimer's Disease.
  Nabers A, Ollesch J, Schartner J, Kötting C, Genius J, Hafermann H, Klafki H, Gerwert K, Wiltfang J.
  Anal Chem. 2016 Mar 1;88(5):2755-62. doi: 10.1021/acs.analchem.5b04286. Epub 2016 Feb 16.
• An infrared sensor analysing label-free the secondary structure of the Abeta peptide in presence of complex fluids.
  Nabers, A., Ollesch, J., Schartner, J., Kötting, C., Genius, J., Haußmann, U., Klafki, H., Wiltfang, J., Gerwert, K.
  J Biophotonics. 2016 Mar;9(3):224-34. doi: 10.1002/jbio.201400145.
• Quantitative proteome analysis reveals the correlation between endocytosis-associated proteins and hepatocellular carcinoma dedifferentiation.
  Naboulsi W, Bracht T, Megger DA, Reis H, Ahrens M, Turewicz M, Eisenacher M, Tautges S, Canbay AE, Meyer HE, Weber F, Baba HA, Sitek B.
  Biochim Biophys Acta 2016 Nov;1864(11):1579-85.
• Quantitative Tissue Proteomics Analysis Reveals Versican as Potential Biomarker for Early-Stage Hepatocellular Carcinoma.
  Naboulsi W, Megger DA, Bracht T, Kohl M, Turewicz M, Eisenacher M, Voss DM, Schlaak JF, Hoffmann AC, Weber F, Baba HA, Meyer HE, Sitek B.
  J Proteome Res. 2016 Jan 4;15(1):38-47. doi: 10.1021/acs.jproteome.5b00420.
• An infrared spectroscopic blood test for non-small cell lung carcinoma and subtyping into pulmonary squamous cell carcinoma or adenocarcinoma.
  Ollesch, J., Theegarten, D., Altmayer M., Darwiche, K., Hager, T., Stamatis, G., Gerwert, K.
  Biomedical Spectroscopy and Imaging 5 (2016) 129–144.
• Immunohistochemical Markers Distinguishing Cholangiocellular Carcinoma (CCC) from Pancreatic Ductal Adenocarcinoma (PDAC) Discovered by Proteomic Analysis of Microdissected Cells.
  Padden J, Ahrens M, Kälsch J, Bertram S, Megger DA, Bracht T, Eisenacher M, Kocabayoglu P, Meyer HE, Sipos B, Baba HA, Sitek B.
  Mol Cell Proteomics. 2016 Mar;15(3):1072-82. doi: 10.1074/mcp.M115.054585.
• Statically Adsorbed Coatings for High Separation Efficiency and Resolution in CE-MS Peptide Analysis: Strategies and Implementation.
  Pattky M, Barkovits K, Marcus K, Weiergräber OH, Huhn C.
  Methods Mol Biol., 1483:53-75.
• PRIDE Inspector Toolsuite: Moving Toward a Universal Visualization Tool for Proteomics Data Standard Formats and Quality Assessment of ProteomeXchange Datasets.
  Perez-Riverol Y, Xu QW, Wang R, Uszkoreit J, Griss J, Sanchez A, Reisinger F, Csordas A, Ternent T, Del-Toro N, Dianes JA, Eisenacher M, Hermjakob H, Vizcaíno JA.
  Mol Cell Proteomics. 2016 Jan;15(1):305-17. doi: 10.1074/mcp.O115.050229.
• Proteomic characterization of neuromelanin granules isolated from human substantia nigra by laser-microdissection.
  Plum S, Steinbach S, Attems J, Keers S, Riederer P, Gerlach M, May C, Marcus K.
  Sci Rep. 2016 Nov 14;6:37139. doi: 10.1038/srep37139.
• Quality of life assessment in patients with metastatic colorectal cancer receiving maintenance therapy after first-line induction treatment: a preplanned analysis of the phase III AIO KRK 0207 trial.
  Quidde J, Hegewisch-Becker S, Graeven U, Lerchenmüller CA, Killing B, Depenbusch R, Steffens CC, Lange T, Dietrich G, Stoehlmacher J, Reinacher A, Tannapfel A, Trarbach T, Marschner N, Schmoll HJ, Hinke A, Al-Batran SE, Arnold D.
  Ann Oncol. 2016 Dec;27(12):2203-2210. doi: 10.1093/annonc/mdw425.
• Parkinson's disease and multiple sclerosis are not associated with autoantibodies against structural proteins of the dermal-epidermal junction.
  Recke A, Oei A, Hübner F, Fechner K, Graf J, Hagenah J, May C, Woitalla D, Salmen A, Zillikens D, Gold R, Schlumberger W, Schmidt E.
  Br J Dermatol. 2016 Mar 12. doi: 10.1111/bjd.14538.
• Dynamic changes of tumor gene expression during repeated pressurized intraperitoneal aerosol chemotherapy (PIPAC) in women with peritoneal cancer. BMC Cancer.
  Rezniczek GA, Jüngst F, Jütte H, Tannapfel A, Hilal Z, Hefler LA, Reymond MA, Tempfer CB.
  BMC Cancer. 2016 Aug 19;16:654. doi: 10.1186/s12885-016-2668-4.
• Altered Expression of Growth Associated Protein-43 and Rho Kinase in Human Patients with Parkinson's Disease.
  Saal KA, Galter D, Roeber S, Bähr M, Tönges L, Lingor P.
  Brain Pathol. 2017 Jan;27(1):13-25. doi: 10.1111/bpa.12346. Epub 2016 Feb 22.
• Replacing cystoscopy by urine markers in the follow-up of patients with low-risk non-muscle-invasive bladder cancer?-An International Bladder Cancer Network project.
  Schmitz-Dräger C, Bonberg N, Pesch B, Todenhöfer T, Sahin S, Behrens T, Brüning T, Schmitz-Dräger BJ.
  Urol Oncol. 2016 Jul 2. pii: S1078-1439(16)30118-1.
• Validity of mesothelin in occupational medicine practice.
  Taeger D, Gawrych K, Brüning T.
  Int J Occup Med Environ Health. 2016 Nov 18;29(6):879-880. doi: 10.13075/ijomeh.1896.01062. Epub 2016 Oct 27.
• [Meeting of the Gastroenteropathology Working Group on May 19, 2016 : 100th Annual Conference of the German Society of Pathology in Berlin].
  Tannapfel A.
  Pathologe. 2016 Nov;37(Suppl 2):231-232.
• Fasudil attenuates aggregation of α-synuclein in models of Parkinson's disease.
  Tatenhorst L, Eckermann K, Dambeck V, Fonseca-Ornelas L, Walle H, Lopes da Fonseca T, Koch JC, Becker S, Tönges L, Bähr M, Outeiro TF, Zweckstetter M, Lingor P.
  Acta Neuropathol Commun. 2016 Apr 22;4:39. doi: 10.1186/s40478-016-0310-y.
• PAA: an R/bioconductor package for biomarker discovery with protein microarrays.
  Turewicz M, Ahrens M, May C, Marcus K, Eisenacher M.
  Bioinformatics. 2016 May 15;32(10):1577-9. doi: 10.1093/bioinformatics/btw037.
• Histological changes in endocrine and exocrine pancreatic tissue from patients exposed to incretin-based therapies.
  Ueberberg S, Jütte H, Uhl W, Schmidt W, Nauck M, Montanya E, Tannapfel A, Meier J.
  Diabetes Obes Metab. 2016 Dec;18(12):1253-1262. doi: 10.1111/dom.12766. Epub 2016 Sep 26.
• Differential expression of cell-cycle regulators in human beta-cells derived from insulinoma tissue.
  Ueberberg S, Tannapfel A, Schenker P, Viebahn R, Uhl W, Schneider S, Meier JJ.
  Metabolism. 2016 May;65(5):736-46. doi: 10.1016/j.metabol.2016.02.007. Epub 2016 Feb 23.
• Mutant desmin substantially perturbs mitochondrial morphology, function and maintenance in skeletal muscle tissue.
  Winter L, Wittig I, Peeva, V, Eggers B, Heidler J, Chessevier F, Kley RA, Barkovits K, Strecker V, Berwanger C, Herrmann H, Marcus K, Kornblum C, Kunz WS, Schröder R, Clemen CS.
  Acta Neuropathol. 2016 Sep;132(3):453-73. doi: 10.1007/s00401-016-1592-7. Epub 2016 Jul 8.
• Quantitative Secretome Analysis of Activated Jurkat Cells using Click Chemistry-Based Enrichment of Secreted Glycoproteins.
  Witzke KE, Rosowski K, Müller C, Ahrens M, Eisenacher M, Megger DA, Knobloch J, Koch AR, Bracht T, Sitek B.
  J Proteome Res. 2017 Jan 6;16(1):137-146. doi: 10.1021/acs.jproteome.6b00575. Epub 2016 Oct 19.
• Fully automated registration of vibrational microspectroscopic images in histologically stained tissue sections.
  Yang C, Niedieker D, Grosserüschkamp F, Horn M, Tannapfel A, Kallenbach-Thieltges A, Gerwert K, Mosig A.
  BMC Bioinformatics. 2015 Nov 25;16:396. doi: 10.1186/s12859-015-0804-9.

Publications 2015

• Multiple sclerosis risk loci correlate with cervical cord atrophy and may explain the course of disability.
  Akkad DA, Bellenberg B, Esser S, Weiler F, Epplen JT, Gold R, Lukas C, Haghikia A.
  Neurogenetics. 2015 Jul;16(3):161-8. doi: 10.1007/s10048-015-0438-0. Epub 2015 Jan 27.
• Combinations of susceptibility genes are associated with higher risk for multiple sclerosis and imply disease course specificity.
  Akkad DA, Olischewsky A, Reiner F, Hellwig K, Esser S, Epplen JT, Curk T, Gold R, Haghikia A.
  PLoS One. 2015 May 26;10(5):e0127632. doi: 10.1371/journal.pone.0127632. eCollection 2015.
• Novel prognostic markers revealed by a proteomic approach separating benign from malignant insulinomas.
  Alkatout I, Friemel J, Sitek B, Anlauf M, Eisenach PA, Stühler K, Scarpa A, Perren A, Meyer HE, Knoefel WT, Klöppel G, Sipos B.
  Mod Pathol. 2015 Jan;28(1):69-79. doi: 10.1038/modpathol.2014.82. Epub 2014 Jun 20.
• MS-based methods for biomarkers of Parkinson's disease: what is the future?
  Barkovits K, Helling S, Marcus K.
  Bioanalysis. 2015;7(2):149-51. doi: 10.4155/bio.14.273.
• Tumormarkerforschung für die klinische Praxis - Epidemiologische Standards und Herausforderungen.
  Behrens T, Pesch B, Brüning T.
  Der Onkologe 2015;21:250-56
• Cervical cord area is associated with infratentorial grey and white matter volume predominantly in relapsing-remitting multiple sclerosis: A study using semi-automated cord volumetry and voxel-based morphometry.
  Bellenberg B, Schneider R, Weiler F, Suchan B, Haghikia A, Hoffjan S, Gold R, Köster O, Lukas C.
  Mult Scler Relat Disord. 2015 May;4(3):264-72. doi: 10.1016/j.msard.2015.04.003. Epub 2015 Apr 15.
• The uncinate process first approach: a novel technique for laparoscopic right hemicolectomy with complete mesocolic excision.
  Benz S, Tam Y, Tannapfel A, Stricker I.
  Surg Endosc. 2015 Jul 21. [Epub ahead of print]
• Novel immunohistochemical markers differentiate intrahepatic cholangiocarcinoma from benign bile duct lesions.
  Bertram S, Padden J, Kälsch J, Ahrens M, Pott L, Canbay A, Weber F, Fingas C, Hoffmann AC, Vietor A, Schlaak JF, Eisenacher M, Reis H, Sitek B, Baba HA.
  J Clin Pathol. 2016 Jan 4. pii: jclinpath-2015-203418. doi: 10.1136/jclinpath-2015-203418. [Epub ahead of print]
• Lung cancer risk among cooks when accounting for tobacco smoking: a pooled analysis of case-control studies from Europe, Canada, New Zealand, and China.
  Bigert C, Gustavsson P, Straif K, Pesch B, Brüning T, Kendzia B, Schüz J, Stücker I, Guida F, Brüske I, Wichmann HE, Pesatori AC, Landi MT, Caporaso N, Tse LA, Yu IT, Siemiatycki J, Pintos J, Merletti F, Mirabelli D, Simonato L, Jöckel KH, Ahrens W, Pohlabeln H, Tardón A, Zaridze D, Field J, 't Mannetje A, Pearce N, McLaughlin J, Demers P, Szeszenia-Dabrowska N, Lissowska J, Rudnai P, Fabianova E, Dumitru RS, Bencko V, Foretova L, Janout V, Boffetta P, Forastiere F, Bueno-de-Mesquita B, Peters S, Vermeulen R, Kromhout H, Olsson AC.
  J Occup Environ Med. 2015 Feb;57(2):202-9. doi: 10.1097/JOM.0000000000000337.
• Analysis of disease-associated protein expression using quantitative proteomics—fibulin-5 is expressed in association with hepatic fibrosis.
  Bracht T, Schweinsberg V, Trippler M, Kohl M, Ahrens M, Padden J, Naboulsi W, Barkovits K, Megger DA, Eisenacher M, Borchers CH, Schlaak JF, Hoffmann AC, Weber F, Baba HA, Meyer HE, Sitek B.
  J Proteome Res. 2015 May 1;14(5):2278-86. doi: 10.1021/acs.jproteome.5b00053. Epub 2015 Apr 6.
• Isolating peripheral lymphocytes by density gradient centrifugation and magnetic cell sorting.
  Brosseron F, Marcus K, May C.
  Methods Mol Biol. 2015;1295:33-42. doi: 10.1007/978-1-4939-2550-6_3.
• Low-bias phosphopeptide enrichment from scarce samples using plastic antibodies.
  Chen J, Shinde S, Koch MH, Eisenacher M, Galozzi S, Lerari T, Barkovits K, Subedi P, Krüger R, Kuhlmann K, Sellergren B, Helling S, Marcus K.
  Sci Rep. 2015 Jul 1;5:11438. doi: 10.1038/srep11438.
• Myofibrillar instability exacerbated by acute exercise in filaminopathy.
  Chevessier F, Schuld J, Orfanos Z, Plank AC, Wolf L, Maerkens A, Unger A, Schlötzer-Schrehardt U, Kley RA, von Hörsten S, Marcus K, Linke WA, Vorgerd M, van der Ven PF, Fürst DO, Schröder R.
  Hum Mol Genet. 2015 Dec 20;24(25):7207-20. doi: 10.1093/hmg/ddv421. Epub 2015 Oct 15.
• The miR-17-92 cluster counteracts quiescence and chemoresistance in a distinct subpopulation of pancreatic cancer stem cells.
  Cioffi M, Trabulo SM, Sanchez-Ripoll Y, Miranda-Lorenzo I, Lonardo E, Dorado J, Reis Vieira C, Ramirez JC, Hidalgo M, Aicher A, Hahn S, Sainz B Jr, Heeschen C.
  Gut. 2015 Dec;64(12):1936-48. doi: 10.1136/gutjnl-2014-308470. Epub 2015 Apr 17.
• MiR-93 Controls Adiposity via Inhibition of Sirt7 and Tbx3.
  Cioffi M, Vallespinos-Serrano M, Trabulo SM, Fernandez-Marcos PJ, Firment AN, Vazquez BN, Vieira CR, Mulero F, Camara JA, Cronin UP, Perez M, Soriano J, G Galvez B, Castells-Garcia A, Haage V, Raj D, Megias D, Hahn S, Serrano L, Moon A, Aicher A, Heeschen C.
  Cell Rep. 2015 Sep 8;12(10):1594-605. doi: 10.1016/j.celrep.2015.08.006. Epub 2015 Aug 28.
• Cancer mortality in Itapúa-A rural province of Paraguay 2003-2012.
  Codas M, Pesch B, Adolphs M, Madrazo C, Matthias C, Heinze E, Taeger D, Behrens T, Chaux A, Brüning T.
  Cancer Epidemiol. 2016 Feb;40:1-6. doi: 10.1016/j.canep.2015.11.005. Epub 2015 Nov 18.
• Lung cancer risk among bricklayers in a pooled analysis of case-control studies.
  Consonni D1, De Matteis S, Pesatori AC, Bertazzi PA, Olsson AC, Kromhout H, Peters S, Vermeulen RC, Pesch B, Brüning T, Kendzia B, Behrens T, Stücker I, Guida F, Wichmann HE, Brüske I, Landi MT, Caporaso NE, Gustavsson P, Plato N, Tse LA, Yu IT, Jöckel KH, Ahrens W, Pohlabeln H, Merletti F, Richiardi L, Simonato L, Forastiere F, Siemiatycki J, Parent MÉ, Tardón A, Boffetta P, Zaridze D, Chen Y, Field JK, 't Mannetje A, Pearce N, McLaughlin J, Demers P, Lissowska J, Szeszenia-Dabrowska N, Bencko V, Foretova L, Janout V, Rudnai P, Fabiánová E, Stanescu Dumitru R, Bueno-de-Mesquita HB, Schüz J, Straif K.
  Int J Cancer. 2015 Jan 15;136(2):360-71. doi: 10.1002/ijc.28986. Epub 2014 Jun 3.
• Development of data representation standards by the human proteome organization proteomics standards initiative.
  Deutsch EW, Albar JP, Binz PA, Eisenacher M, Jones AR, Mayer G, Omenn GS, Orchard S, Vizcaíno JA, Hermjakob H.
  J Am Med Inform Assoc. 2015 May;22(3):495-506. doi: 10.1093/jamia/ocv001. Epub 2015 Feb 28.
• Therapeutic potential of antiviral drugs targeting chemorefractory colorectal adenocarcinoma cells overexpressing endogenous retroviral elements.
  Díaz-Carballo D, Acikelli AH, Klein J, Jastrow H, Dammann P, Wyganowski T, Guemues C, Gustmann S, Bardenheuer W, Malak S, Tefett NS, Khosrawipour V, Giger-Pabst U, Tannapfel A, Strumberg D.
  J Exp Clin Cancer Res. 2015 Aug 12;34:81. doi: 10.1186/s13046-015-0199-5.
• The challenge of on-tissue digestion for MALDI MSI- a comparison of different protocols to improve imaging experiments.
  Diehl HC, Beine B, Elm J, Trede D, Ahrens M, Eisenacher M, Marcus K, Meyer HE, Henkel C.
  Anal Bioanal Chem. 2015 Mar;407(8):2223-43. doi: 10.1007/s00216-014-8345-z. Epub 2015 Feb 17.
• Label-free Raman spectroscopic imaging monitors the integral phys-iologically relevant drug responses in cancer cells.
  El-Mashtoly SF, Yosef HK, Petersen D, Mavarani L, Maghnouj A, Hahn SA, Kötting C, Gerwert K.
  Anal Chem. 2015 Jun 15. [Epub ahead of print]
• Amyloid-β as a biomarker for Alzheimer's disease: quantification methods in body fluids.
  Galozzi S, Marcus K, Barkovits K.
  Expert Rev Proteomics. 2015 Aug;12(4):343-54. doi: 10.1586/14789450.2015.1065183. Epub 2015 Jul 8.
• Marker-free automated histopathological annotation of lung tumour subtypes by FTIR imaging.
  Großerueschkamp F, Kallenbach-Thieltges A, Behrens T, Brüning T, Altmayer M, Stamatis G, Theegarten D, Gerwert K.
  Analyst. 2015 Apr 7;140(7):2114-20. doi: 10.1039/c4an01978d.
• Dietary Fatty Acids Directly Impact Central Nervous System Autoimmunity via the Small Intestine.
  Haghikia A, Jörg S, Duscha A, Berg J, Manzel A, Waschbisch A, Hammer A, Lee DH, May C, Wilck N, Balogh A, Ostermann AI, Schebb NH, Akkad DA, Grohme DA, Kleinewietfeld M, Kempa S, Thöne J, Demir S, Müller DN, Gold R, Linker RA.
  Immunity. 2015 Oct 20;43(4):817-29. doi: 10.1016/j.immuni.2015.09.007.
• Serum and cerebrospinal fluid concentrations of homoarginine, arginine, asymmetric and symmetric dimethylarginine, nitrite and nitrate in patients with multiple sclerosis and neuromyelitis optica.
  Haghikia A, Kayacelebi AA, Beckmann B, Hanff E, Gold R, Haghikia A, Tsikas D.
  Amino Acids. 2015 Sep;47(9):1837-45. doi: 10.1007/s00726-015-2015-0. Epub 2015 Jun 9.
• Capillary isoelectric focusing immunoassay as a new nanoscale approach for the detection of oligoclonal bands.
  Halbgebauer S, Haußmann U, Klafki H, Tumani H, Wiltfang J, Otto M.
  Electrophoresis. 2015 Jan;36(2):355-62. doi: 10.1002/elps.201400339.
• Maintenance strategies after first-line oxaliplatin plus fluoropyrimidine plus bevacizumab for patients with metastatic colorectal cancer (AIO 0207): a randomised, non-inferiority, open-label, phase 3 trial.
  Hegewisch-Becker S, Graeven U, Lerchenmüller CA, Killing B, Depenbusch R, Steffens CC, Al-Batran SE, Lange T, Dietrich G, Stoehlmacher J, Tannapfel A, Reinacher-Schick A, Quidde J, Trarbach T, Hinke A, Schmoll HJ, Arnold D.
  Lancet Oncol. 2015 Oct;16(13):1355-69. doi: 10.1016/S1470-2045(15)00042-X. Epub 2015 Sep 8.
• Circulating U2 small nuclear RNA fragments as a diagnostic and prognostic biomarker in lung cancer patients.
  Köhler J, Schuler M, Gauler TC, Nöpel-Dünnebacke S, Ahrens M, Hoffmann AC, Kasper S, Nensa F, Gomez B, Hahnemann M, Breitenbuecher F, Cheufou D, Özkan F, Darwiche K, Hoiczyk M, Reis H, Welter S, Eberhardt WE, Eisenacher M, Teschler H, Stamatis G, Schmiegel W, Hahn SA, Baraniskin A.
  J Cancer Res Clin Oncol. 2015 Dec 19. [Epub ahead of print]
• [Current aspects of therapy conversion for multiple sclerosis].
  Kolber P, Luessi F, Meuth SG, Klotz L, Korn T, Trebst C, Tackenberg B, Kieseier B, Kümpfel T, Fleischer V, Tumani H, Wildemann B, Lang M, Flachenecker P, Meier U, Brück W, Limmroth V, Haghikia A, Hartung HP, Stangel M, Hohlfeld R, Hemmer B, Gold R, Wiendl H, Zipp F.
  Nervenarzt. 2015 Oct;86(10):1236-47. doi: 10.1007/s00115-015-4368-8.
• A subset of metastatic pancreatic ductal adenocarcinomas depends quantitatively on oncogenic Kras/Mek/Erk-induced hyperactive mTOR signalling.
  Kong B, Wu W, Cheng T, Schlitter AM, Qian C, Bruns P, Jian Z, Jäger C, Regel I, Raulefs S, Behler N, Irmler M, Beckers J, Friess H, Erkan M, Siveke JT, Tannapfel A, Hahn SA, Theis FJ, Esposito I, Kleeff J, Michalski CW.
  Gut. 2015 Jan 19. pii: gutjnl-2014-307616. doi: 10.1136/gutjnl-2014-307616. [Epub ahead of print]
• Detection and Differentiation of Threonine- and Tyrosine-Monophosphorylated Forms of ERK1/2 by Capillary Isoelectric Focusing-Immunoassay.
  Kraus I, Besong Agbo D, Otto M, Wiltfang J, Klafki H.
  Sci Rep. 2015 Aug 3;5:12767. doi: 10.1038/srep12767.
• Colocalization of fluorescence and Raman microscopic images for the identification of subcellular compartments: a validation study.
  Krauß SD, Petersen D, Niedieker D, Fricke I, Freier E, El-Mashtoly SF, Gerwert K, Mosig A.
  Analyst. 2015 Apr 7;140(7):2360-8. doi: 10.1039/c4an02153c.
• Direct infusion-SIM as fast and robust method for absolute protein quantification in complex samples
  Loosse C, Galozzia S, Deborb L, Julsingb MK, Bühlerb B, Schmid A, Barkovits K, Müller T, Marcus K.
  EuPA Open Proteomics, 2015, 7:20-26
• Nuclear spheres modulate the expression of BEST1 and GADD45G Cell Signal.
  Loosse C, Pawlas M, Bukhari HS, Maghnouj A, Hahn S, Marcus K, Müller T.
  Cell Signal. 2016 Jan;28(1):100-9. doi: 10.1016/j.cellsig.2015.10.019. Epub 2015 Oct 28.
• ProCon - PROteomics CONversion tool.
  Mayer G, Stephan C, Meyer HE, Kohl M, Marcus K, Eisenacher M.
  J Proteomics. 2015 Jul 13. pii: S1874-3919(15)30053-1. doi: 10.1016/j.jprot.2015.06.015. [Epub ahead of print]
• Combined inhibition of BET family proteins and histone deacetylases as a potential epigenetics-based therapy for pancreatic ductal adenocarcinoma.
  Mazur PK, Herner A, Mello SS, Wirth M, Hausmann S, Sánchez-Rivera FJ, Lofgren SM, Kuschma T, Hahn SA, Vangala D, Trajkovic-Arsic M, Gupta A, Heid I, Noël PB, Braren R, Erkan M, Kleeff J, Sipos B, Sayles LC, Heikenwalder M, Heßmann E, Ellenrieder V, Esposito I, Jacks T, Bradner JE, Khatri P, Sweet-Cordero EA, Attardi LD, Schmid RM, Schneider G, Sage J, Siveke JT.
  Nat Med. 2015 Oct;21(10):1163-71. doi: 10.1038/nm.3952. Epub 2015 Sep 21.
• Enrichment of single neurons and defined brain regions from human brain tissue samples for subsequent proteome analysis.
  Molina M, Steinbach S, Park YM, Yun SY, Di Lorenzo Alho AT, Heinsen H, Grinberg LT, Marcus K, Leite RE, May C.
  J Neural Transm (Vienna). 2015 Jul;122(7):993-1005. doi: 10.1007/s00702-015-1414-4. Epub 2015 Jun 30.
• Primary Central Nervous System (CNS) Lymphoma B Cell Receptors Recognize CNS Proteins.
  Montesinos-Rongen M, Purschke FG, Brunn A, May C, Nordhoff E, Marcus K, Deckert M.
  J Immunol. 2015 Aug 1;195(3):1312-9. doi: 10.4049/jimmunol.1402341. Epub 2015 Jun 26.
• An infrared sensor analysing label-free the secondary structure of the Abeta peptide in presence of complex fluids.
  Nabers A, Ollesch J, Schartner J, Kötting C, Genius J, Haußmann U, Klafki H, Wiltfang J, Gerwert K.
  J Biophotonics. 2015 Mar 23;9999(9999). doi: 10.1002/jbio.201400145. [Epub ahead of print]
• Quantitative Tissue Proteomics Analysis Reveals Versican as Potential Biomarker for Early-Stage Hepatocellular Carcinoma.
  Naboulsi W, Megger DA, Bracht T, Kohl M, Turewicz M, Eisenacher M, Voss DM, Schlaak JF, Hoffmann AC, Weber F, Baba HA, Meyer HE, Sitek B.
  J Proteome Res. 2016 Jan 4;15(1):38-47. doi: 10.1021/acs.jproteome.5b00420. Epub 2015 Dec 18.
• Immunohistochemical Markers Distinguishing Cholangiocellular Carcinoma from Pancreatic Ductal Adenocarcinoma Discovered by Proteomic Analysis of Microdissected Cells.
  Padden J, Ahrens M, Kälsch J, Bertram S, Megger DA, Bracht T, Eisenacher M, Kocabayoglu P, Meyer HE, Sipos B, Baba HA, Sitek B.
  Mol Cell Proteomics. 2015 Dec 7. pii: mcp.M115.054585. [Epub ahead of print]
• The Canonical Immediate Early 3 Gene Product pIE611 of Mouse Cytomegalovirus Is Dispensable for Viral Replication but Mediates Transcriptional and Posttranscriptional Regulation of Viral Gene Products.
  Rattay S, Trilling M, Megger DA, Sitek B, Meyer HE, Hengel H, Le-Trilling VT.
  J Virol. 2015 Aug;89(16):8590-8. doi: 10.1128/JVI.01234-15. Epub 2015 Jun 10.
• Differential proteomic and tissue expression analyses identify valuable diagnostic biomarkers of hepatocellular differentiation and hepatoid adenocarcinomas.
  Reis H, Padden J, Ahrens M, Pütter C, Bertram S, Pott LL, Reis AC, Weber F, Juntermanns B, Hoffmann AC, Eisenacher M, Schlaak JF, Canbay A, Meyer HE, Sitek B, Baba HA.
  Pathology. 2015 Oct;47(6):543-50. doi: 10.1097/PAT.0000000000000298.
• Oxaliplatin added to fluorouracil-based preoperative chemoradiotherapy and postoperative chemotherapy of locally advanced rectal cancer (the German CAO/ARO/AIO-04 study): final results of the multicentre, open-label, randomised, phase 3 trial.
  Rödel C, Graeven U, Fietkau R, Hohenberger W, Hothorn T, Arnold D, Hofheinz RD, Ghadimi M, Wolff HA, Lang-Welzenbach M, Raab HR, Wittekind C, Ströbel P, Staib L, Wilhelm M, Grabenbauer GG, Hoffmanns H, Lindemann F, Schlenska-Lange A, Folprecht G, Sauer R, Liersch T; German Rectal Cancer Study Group.
  Lancet Oncol. 2015 Aug;16(8):979-89. doi: 10.1016/S1470-2045(15)00159-X. Epub 2015 Jul 15.
• Chemical Functionalization of Germanium with Dextran-Brushes for Immobilization of Proteins Revealed by ATR-FTIR Difference Spectroscopy.
  Schartner J, Hoeck N, Güldenhaupt J, Mavarani L, Nabers A, Gerwert K, Kötting C.
  Anal Chem. 2015 Jun 23. [Epub ahead of print]
• Improved preparation of nasal lavage fluid (NLF) as a noninvasive sample for proteomic biomarker discovery.
  Schoenebeck B, May C, Güldner C, Respondek G, Mollenhauer B, Hoeglinger G, Meyer HE, Marcus K.
  Biochim Biophys Acta. 2015 Jul;1854(7):741-5. doi: 10.1016/j.bbapap.2015.01.015. Epub 2015 Feb 10.
• Lung cancer among coal miners, ore miners and quarrymen: smoking-adjusted risk estimates from the synergy pooled analysis of case-control studies.
  Taeger D, Pesch B, Kendzia B, Behrens T, Jöckel KH, Dahmann D, Siemiatycki J, Kromhout H, Vermeulen R, Peters S, Olsson A, Brüske I, Wichmann HE, Stücker I, Guida F, Tardón A, Merletti F, Mirabelli D, Richiardi L, Pohlabeln H, Ahrens W, Landi MT, Caporaso N, Pesatori AC, Mukeriya A, Szeszenia-Dabrowska N, Lissowska J, Gustavsson P, Field J, Marcus MW, Fabianova E, 't Mannetje A, Pearce N, Rudnai P, Bencko V, Janout V, Dumitru RS, Foretova L, Forastiere F, McLaughlin J, Paul Demers PD, Bueno-de-Mesquita B, Schüz J, Straif K, Brüning T.
  Scand J Work Environ Health. 2015 Sep 1;41(5):467-77. doi: 10.5271/sjweh.3513. Epub 2015 Jul 8.
• [Report from the working group on gastroenteropathology].
  Tannapfel A.
  Pathologe. 2015 Nov;36 Suppl 2:217-8. doi: 10.1007/s00292-015-0061-8.
• PIA: An Intuitive Protein Inference Engine with a Web-Based User Interface. Uszkoreit J, Maerkens A, Perez-Riverol Y, Meyer HE, Marcus K, Stephan C, Kohlbacher O, Eisenacher M. J Proteome Res. 2015 Jul 2;14(7):2988-97. doi: 10.1021/acs.jproteome.5b00121. Epub 2015 Jun 10.
• Fully automated registration of vibrational microspectroscopic images in histologically stained tissue sections.
  Yang C, Niedieker D, Großerüschkamp F, Horn M, Tannapfel A, Kallenbach-Thieltges A, Gerwert K, Mosig A.
  BMC Bioinformatics. 2015 Nov 25;16(1):396. doi: 10.1186/s12859-015-0804-9.
• In vitro prediction of the efficacy of molecularly targeted cancer therapy by Raman spectral imaging. Yosef HK, Mavarani L, Maghnouj A, Hahn S, El-Mashtoly SF, Gerwert K.
  Anal Bioanal Chem. 2015 Jul 14. [Epub ahead of print]

Publications 2014

• Autoimmune profiling with protein microarrays in clinical applications.
  Abel L, Kutschki S, Turewicz M, Eisenacher M, Stoutjesdijk J, Meyer HE, Woitalla D, May C.
  Biochim Biophys Acta. 2014 May;1844(5):977-87. doi: 10.1016/j.bbapap.2014.02.023. Epub 2014 Mar 7.
• Analysis of U2 small nuclear RNA fragments in the bile differentiates cholangiocarcinoma from primary sclerosing cholangitis and other benign biliary disorders.
  Baraniskin A, Nöpel-Dünnebacke S, Schumacher B, Gerges C, Bracht T, Sitek B, Meyer HE, Gerken G, Dechene A, Schlaak JF, Schroers R, Pox C, Schmiegel W, Hahn SA.
  Dig Dis Sci. 2014 Jan 31. [Epub ahead of print]
• Modern cerebrospinal fluid analyses for the diagnosis of diffuse large B-cell lymphoma of the CNS.
  Baraniskin A1, Schroers R.
  CNS Oncol. 2014 Jan;3(1):77-85. doi: 10.2217/cns.13.63.
• Numerical and structural chromosomal anomalies in undifferentiated pleomorphic sarcoma.
  Becerikli M, Wieczorek S, Stricker I, Nambiar S, Rittig A, Epplen JT, Tannapfel A, Lehnhardt M, Steinstraesser L, Jacobsen F.
  Anticancer Res. 2014 Dec;34(12):7119-27.
• A practical guide to epidemiological practice and standards in the identification and validation of diagnostic markers using a bladder cancer example.
  Behrens T, Bonberg N, Casjens S, Pesch B, Brüning T.
  Biochim Biophys Acta. 2014 Jan;1844(1 Pt A):145-55. doi: 10.1016/j.bbapap.2013.07.018. Epub 2013 Aug 9.
• Factors influencing false-positive results for nuclear matrix protein 22.
  Behrens T, Stenzl A, Brüning T.
  Eur Urol. 2014 Nov;66(5):970-2. doi: 10.1016/j.eururo.2014.06.014. Epub 2014 Jun 26.
• Chromosomal alterations in exfoliated urothelial cells from bladder cancer cases and healthy men: a prospective screening study.
  Bonberg N, Pesch B, Behrens T, Johnen G, Taeger D, Gawrych K, Schwentner C, Wellhäußer H, Kluckert M, Leng G, Nasterlack M, Oberlinner C, Stenzl A, Brüning T.
  BMC Cancer. 2014 Nov 20;14:854. doi: 10.1186/1471-2407-14-854.
• Proteome analysis of a hepatocyte-specific BIRC5 (survivin)-knockout mouse model during liver regeneration.
  Bracht T, Hagemann S, Loscha M, Megger DA, Padden J, Eisenacher M, Kuhlmann K, Meyer HE, Baba HA, Sitek B.
  J Proteome Res. 2014 Jun 6;13(6):2771-82. doi: 10.1021/pr401188r. Epub 2014 May 27.
• A microRNA-based test improves endoscopic ultrasound-guided cytologic diagnosis of pancreatic cancer.
  Brand RE, Adai AT, Centeno BA, Lee LS, Rateb G, Vignesh S, Menard C, Wiechowska-Kozłowska A, Bołdys H, Hartleb M, Sanders MK, Munding JB, Tannapfel A, Hahn SA, Stefańczyk L, Tsongalis GJ, Whitcomb DC, Conwell DL, Morisset JA, Gardner TB, Gordon SR, Suriawinata AA, Lloyd MB, Wylie D, Labourier E, Andruss BF, Szafranska-Schwarzbach AE.
  Clin Gastroenterol Hepatol. 2014 Oct;12(10):1717-23. doi: 10.1016/j.cgh.2014.02.038. Epub 2014 Mar 21.
• Role of pretherapeutic biomarkers in lung cancer with special regards to bronchoscopic procedures.
  Darwiche K, Ozkan F, Ting S, Johnen G, Brüning T, Soltermann A, Huber LC, Christoph DC, Freitag L, Franzen D.
  Pneumologie. 2014 Nov;68(11):719-26. doi: 10.1055/s-0034-1377299. Epub 2014 Jul 8.
• Automated identification of subcellular organelles by coherent anti-stokes Raman scattering.
  El-Mashtoly SF, Niedieker D, Petersen D, Krauss SD, Freier E, Maghnouj A, Mosig A, Hahn S, Kötting C, Gerwert K.
  Biophys J. 2014 May 6;106(9):1910-20. doi: 10.1016/j.bpj.2014.03.025.
• Label-free imaging of drug distribution and metabolism in colon cancer cells by Raman microscopy.
  El-Mashtoly SF, Petersen D, Yosef HK, Mosig A, Reinacher-Schick A, Kötting C, Gerwert K.
  Analyst. 2014 Mar 7;139(5):1155-61. doi: 10.1039/c3an01993d. Epub 2014 Jan 15.
• Vibrational spectroscopy for label-free cancer detection
  Gerwert K, Großerüschkamp F, Ollesch J.
  SPIE Newsroom. 7 January 2014, DOI: 10.1117/2.1201312.005297
• Prognostic factors for 60-day mortality in first-line treatment of metastatic colorectal cancer (mCRC): individual patient analysis of four randomised, controlled trials by the AIO colorectal cancer study group.
  Giessen C, Graeven U, Laubender RP, Modest DP, Schulz C, Porschen R, Schmiegel W, Reinacher-Schick A, Hegewisch-Becker S, Stintzing S, Heinemann V.
  Ann Oncol. 2013 Dec;24(12):3051-5. doi: 10.1093/annonc/mdt402. Epub 2013 Oct 14.
• Diagnosis, treatment and survival of 65 patients with malignant peripheral nerve sheath tumors.
  Goertz O, Langer S, Uthoff D, Ring A, Stricker I, Tannapfel A, Steinau HU.
  Anticancer Res. 2014 Feb;34(2):777-83.
• Marker-free automated histopathological annotation of lung tumour subtypes by FTIR imaging.
  Großerueschkamp F, Kallenbach-Thieltges A, Behrens T, Brüning T, Altmayer M, Stamatis G, Theegarten D, Gerwert K.
  Analyst. 2015 Apr 7;140(7):2114-20. doi: 10.1039/c4an01978d.
• Capillary isoelectric focusing immunoassay as a new nanoscale approach for the detection of oligoclonal bands.
  Halbgebauer S, Haußmann U, Klafki H, Tumani H, Wiltfang J, Otto M.
  Electrophoresis. 2015 Jan;36(2):355-62. doi: 10.1002/elps.201400339. Epub 2014 Dec 17.
• Considerations on the use of urine markers in the management of patients with high-grade non-muscle-invasive bladder cancer.
  Kamat AM, Vlahou A, Taylor JA, Hudson ML, Pesch B, Ingersoll MA, Todenhöfer T, van Rhijn B, Kassouf W, Barton Grossman H, Behrens T, Chandra A, Goebell PJ, Palou J, Sanchez-Carbayo M, Schmitz-Dräger BJ.
  Urol Oncol. 2014 Oct;32(7):1069-77. doi: 10.1016/j.urolonc.2014.06.017. Epub 2014 Oct 11.
• New insights in the composition of extracellular vesicles from pancreatic cancer cells: implications for biomarkers and functions.
  Klein-Scory S, Tehrani MM, Eilert-Micus C, Adamczyk KA, Wojtalewicz N, Schnölzer M, Hahn SA, Schmiegel W, Schwarte-Waldhoff I.
  Proteome Sci. 2014 Nov 18;12(1):50. doi: 10.1186/s12953-014-0050-5. eCollection 2014.
• Identification of a specific and sensitive urinary DNA hypermethylation signature for bladder cancer diagnosis. 23. Biennial Congress of the European Association of Cancer Research
  Köhler CU, Ahrens M, Behrens T, Eisenacher M, Braun K, Jöckel KH, Erbel R, Tannapfel A, Brüning T, Käfferlein HU.
  23. Biennial Congress of the European Association of Cancer Research, München, 05.07.-08.07.2014; Eur J Cancer 2014a; 50(S5): S105.
• Automated quantification of FISH signals in urinary cells enables the assessment of chromosomal aberration patterns characteristic for bladder cancer.
  Köhler CU, Martin L, Bonberg N, Behrens T, Deix T, Braun K, Noldus J, Jöckel KH, Erbel R, Sommerer F, Tannapfel A, Harth V, Käfferlein HU, Brüning T.
  Biochem Biophys Res Commun. 2014 Jun 13;448(4):467-72. doi: 10.1016/j.bbrc.2014.04.137. Epub 2014 May 4.
• Colocalization of fluorescence and Raman microscopic images for the identification of subcellular compartments: a validation study.
  Krauß SD, Petersen D, Niedieker D, Fricke I, Freier E, El-Mashtoly SF, Gerwert K, Mosig A.
  Analyst. 2015 Apr 7;140(7):2360-8. doi: 10.1039/c4an02153c.
• Circulating u2 small nuclear RNA fragments as a novel diagnostic tool for patients with epithelial ovarian cancer.
  Kuhlmann JD, Baraniskin A, Hahn SA, Mosel F, Bredemeier M, Wimberger P, Kimmig R, Kasimir-Bauer S.
  Clin Chem. 2014 Jan;60(1):206-13. doi: 10.1373/clinchem.2013.213066. Epub 2013 Nov 8.
• The Membrane Proteome of Sensory Cilia to the Depth of Olfactory Receptors.
  Kuhlmann K, Tschapek A, Wiese H, Eisenacher M, Meyer HE, Hatt HH, Oeljeklaus S, Warscheid B.
  Mol Cell Proteomics. 2014 Jul;13(7):1828-43. doi: 10.1074/mcp.M113.035378. Epub 2014 Apr 18.
• BetaIGH3 in urine as biomarker for high grade bladder cancer diagnostics.
  Lang K, Robens S, Braun K, Sommerer F, Behrens T, Noldus J, Tannapfel A, Jöckel KH, Erbel R, Brüning T, Käfferlein HU.
  6th European Multidisciplinarity Meeting on Urological Cancers (EMUC), Lissabon, 13.11.-16.11.2014; Eur Urol Suppl 2014; 13(5):148.
• A modified infrared spectrometer with high time resolution and its application for investigating fast conformational changes of the GTPase Ras.
  Lin J, Gerwert K, Kötting C.
  Appl Spectrosc. 2014;68(5):531-5. doi: 10.1366/13-07320.
• Highly immunoreactive IgG antibodies directed against a set of twenty human proteins in the sera of patients with amyotrophic lateral sclerosis identified by protein array.
  May C, Nordhoff E, Casjens S, Turewicz M, Eisenacher M, Gold R, Brüning T, Pesch B, Stephan C, Woitalla D, Penke B, Janáky T, Virók D, Siklós L, Engelhardt J, Meyer HE.
  PLoS One. 2014 Feb 26;9(2):e89596. doi: 10.1371/journal.pone.0089596. eCollection 2014.
• Influence of tumor volume on survival in patients with oral squamous cell carcinoma.
  Mücke T, Mitchell DA, Ritschl LM, Tannapfel A, Wolff KD, Kesting MR, Loeffelbein DJ, Kanatas A.
  J Cancer Res Clin Oncol. 2015 Jun;141(6):1007-11. doi: 10.1007/s00432-014-1881-2. Epub 2014 Nov 26.
• Effect of neoadjuvant treatment in the management of osteosarcomas of the head and neck.
  Mücke T, Mitchell DA, Tannapfel A, Wolff KD, Loeffelbein DJ, Kanatas A.
  J Cancer Res Clin Oncol. 2014 Jan;140(1):127-31. doi: 10.1007/s00432-013-1550-x. Epub 2013 Nov 26.
• An infrared sensor analysing label-free the secondary structure of the Abeta peptide in presence of complex fluids.
  Nabers A1, Ollesch J, Schartner J, Kötting C, Genius J, Haußmann U, Klafki H, Wiltfang J, Gerwert K.
  J Biophotonics. 2015 Mar 23;9999(9999). doi: 10.1002/jbio.201400145. [Epub ahead of print]
• IGFBP1 in epithelial circulating tumor cells as a potential response marker to selective internal radiation therapy in hepatocellular carcinoma.
  Nel I, Baba HA, Weber F, Sitek B, Eisenacher M, Meyer HE, Schlaak JF, Hoffmann AC.
  Biomark Med. 2014;8(5):687-98. doi: 10.2217/bmm.14.23.
• Amyloid Beta A4 Precursor Protein-binding Family B Member 1 (FE65) Interactomics Revealed Synaptic Vesicle Glycoprotein 2A (SV2A) and Sarcoplasmic / Endoplasmic Reticulum Calcium ATPase 2 (SERCA2) as New Binding Proteins in the Human Brain.
  Nensa FM, Neumann MH, Schrötter A, Przyborski A, Mastalski T, Susdalzew S, Looβe C, Helling S, El Magraoui F, Erdmann R, Meyer HE, Uszkoreit J, Eisenacher M, Suh J, Guénette SY, Röhner N, Kögel D, Theiss C, Marcus K, Müller T.
  Mol Cell Proteomics. 2014 Feb;13(2):475-88. doi: 10.1074/mcp.M113.029280. Epub 2013 Nov 27.
• Prognostic value of microsatellite instability and p53expression in metastatic colorectal cancer treated with oxaliplatin and fluoropyrimidine-based chemotherapy.
  Nöpel-Dünnebacke S, Schulmann K, Reinacher-Schick A, Porschen R, Schmiegel W, Tannapfel A, Graeven U.
  Z Gastroenterol. 2014 Dec;52(12):1394-401. doi: 10.1055/s-0034-1366781. Epub 2014 Dec 4.
• It's in your blood: spectral biomarker candidates for urinary bladder cancer from automated FTIR spectroscopy.
  Ollesch J, Heinze M, Heise HM, Behrens T, Brüning T, Gerwert K.
  J Biophotonics. 2014 Jan 7. doi: 10.1002/jbio.201300163. [Epub ahead of print]
• Identification of Novel Biomarker Candidates for the Immunohistochemical Diagnosis of Cholangiocellular Carcinoma.
  Padden J, Megger DA, Bracht T, Reis H, Ahrens M, Kohl M, Eisenacher M, Schlaak JF, Canbay AE, Weber F, Hoffmann AC, Kuhlmann K, Meyer HE, Baba HA, Sitek B.
  Mol Cell Proteomics. 2014 Oct;13(10):2661-72. doi: 10.1074/mcp.M113.034942. Epub 2014 Jul 17.
• Biomarker research with prospective study designs for the early detection of cancer.
  Pesch B, Brüning T, Johnen G, Casjens S, Bonberg N, Taeger D, Müller A, Weber DG, Behrens T.
  Biochim Biophys Acta. 2014 May;1844(5):874-83. doi: 10.1016/j.bbapap.2013.12.007. Epub 2013 Dec 17.
• Screening for bladder cancer with urinary tumor markers in chemical workers with exposure to aromatic amines.
  Pesch B, Taeger D, Johnen G, Gawrych K, Bonberg N, Schwentner C, Wellhäusser H, Kluckert M, Leng G, Nasterlack M, Lotan Y, Stenzl A, Brüning T; UroScreen Study Group.
  Int Arch Occup Environ Health. 2014;87(7):715-24. doi: 10.1007/s00420-013-0916-3. Epub 2013 Oct 16.
• 'Proteomics in Neurodegenerative Diseases: Methods for Obtaining a Closer Look at the Neuronal Proteome.
  Plum S, Steinbach S, Abel L, Marcus K, Helling S, May C.
  Proteomics Clin Appl. 2014 Sep 5. doi: 10.1002/prca.201400030. [Epub ahead of print]
• High-fat diet induced isoform changes of the Parkinson's disease protein DJ-1.
  Poschmann G, Seyfarth K, Besong Agbo D, Klafki HW, Rozman J, Wurst W, Wiltfang J, Meyer HE, Klingenspor M, Stühler K.
  J Proteome Res. 2014 May 2;13(5):2339-51. doi: 10.1021/pr401157k. Epub 2014 Mar 28.
• A structured proteomic approach identifies 14-3-3Sigma as a novel and reliable protein biomarker in panel based differential diagnostics of liver tumors.
  Reis H, Pütter C, Megger DA, Bracht T, Weber F, Hoffmann AC, Bertram S, Wohlschläger J, Hagemann S, Eisenacher M, Scherag A, Schlaak JF, Canbay A, Meyer HE, Sitek B, Baba HA.
  Biochim Biophys Acta. 2015 Jun;1854(6):641-50. doi: 10.1016/j.bbapap.2014.10.024. Epub 2014 Nov 5.
• Immobilization of proteins in their physiological active state at functionalized thiol monolayers on ATR-germanium crystals.
  Schartner J, Gavriljuk K, Nabers A, Weide P, Muhler M, Gerwert K, Kötting C.
  Chembiochem. 2014 Nov 24;15(17):2529-34. doi: 10.1002/cbic.201402478. Epub 2014 Sep 24.
• Considerations on the use of urine markers in the management of patients with low-/intermediate-risk non-muscle invasive bladder cancer.
  Schmitz-Dräger BJ, Todenhöfer T, van Rhijn B, Pesch B, Hudson MA, Chandra A, Ingersoll MA, Kassouf W, Palou J, Taylor J, Vlahou A, Behrens T, Critelli R, Grossman HB, Sanchez-Carbayo M, Kamat A.
  Urol Oncol. 2014 Jan 9. pii: S1078-1439(13)00450-X. doi: 10.1016/j.urolonc.2013.10.010. [Epub ahead of print]
• Colorectal Carcinoma with Suspected Lynch Syndrome: A Multidisciplinary Algorithm.
  Schneider R, Schneider C, Büttner R, Reinacher-Schick A, Tannapfel A, Fürst A, Rüschoff J, Jakobeit C, Royer-Pokora B, Möslein G.
  Colorectal Carcinoma with Suspected Lynch Syndrome: A Multidisciplinary Algorithm. Zentralbl Chir. 2014 Nov 5. [Epub ahead of print]
• A standardized framing for reporting protein identifications in mzIdentML 1.2.
  Seymour SL, Farrah T, Binz PA, Chalkley RJ, Cottrell JS, Searle BC, Tabb DL, Vizcaíno JA, Prieto G, Uszkoreit J, Eisenacher M, Martínez-Bartolomé S, Ghali F, Jones AR.
  Proteomics. 2014 Nov;14(21-22):2389-99. doi: 10.1002/pmic.201400080. Epub 2014 Sep 23.
• http://www.ncbi.nlm.nih.gov/pubmed/24727771 Vizcaíno JA, Deutsch EW, Wang R, Csordas A, Reisinger F, Ríos D, Dianes JA, Sun Z, Farrah T, Bandeira N, Binz PA, Xenarios I, Eisenacher M, Mayer G, Gatto L, Campos A, Chalkley RJ, Kraus HJ, Albar JP, Martinez-Bartolomé S, Apweiler R, Omenn GS, Martens L, Jones AR, Hermjakob H.
  Nat Biotechnol. 2014 Mar;32(3):223-6. doi: 10.1038/nbt.2839.
• Combination of miR-103a-3p and mesothelin improves the biomarker performance of malignant mesothelioma diagnosis.
  Weber DG, Casjens S, Johnen G, Bryk O, Raiko I, Pesch B, Kollmeier J, Bauer TT, Brüning T.
  PLoS One. 2014 Dec 3;9(12):e114483. doi: 10.1371/journal.pone.0114483. eCollection 2014.
• Comparison of alternative MS/MS and bioinformatics approaches for confident phosphorylation site localization. Wiese H, Kuhlmann K, Wiese S, Stoepel NS, Pawlas M, Meyer HE, Stephan C, Eisenacher M, Drepper F, Warscheid B.
  J Proteome Res. 2014 Feb 7;13(2):1128-37. doi: 10.1021/pr400402s. Epub 2014 Jan 3.
• A soluble form of the giant cadherin Fat1 is released from pancreatic cancer cells by ADAM10 mediated ectodomain shedding. Wojtalewicz N, Sadeqzadeh E, Weiß JV, Tehrani MM, Klein-Scory S, Hahn S, Schmiegel W, Warnken U, Schnölzer M, de Bock CE, Thorne RF, Schwarte-Waldhoff I.
  PLoS One. 2014 Mar 13;9(3):e90461. doi: 10.1371/journal.pone.0090461. eCollection 2014.

Publications 2013

• Detection of patient subgroups with differential expression in omics data: a comprehensive comparison of univariate measures.
  Ahrens M, Turewicz M, Casjens S, May C, Pesch B, Stephan C, Woitalla D, Gold R, Brüning T, Meyer HE, Rahnenführer J, Eisenacher M.
  PLoS One. 2013 Nov 22;8(11):e79380. doi: 10.1371/journal.pone.0079380.
• Deoxyhypusine hydroxylase from Plasmodium vivax, the neglected human malaria parasite: molecular cloning, expression and specific inhibition by the 5-LOX inhibitor zileuton.
  Atemnkeng VA, Pink M, Schmitz-Spanke S, Wu XJ, Dong LL, Zhao KH, May C, Laufer S, Langer B, Kaiser A.
  PLoS One. 2013;8(3):e58318. doi: 10.1371/journal.pone.0058318. Epub 2013 Mar 7.
• Prospective evaluation of fluorescence-in situ-hybridization to detect bladder cancer: Results from the UroScreen-Study.
  Banek S, Schwentner C, Täger D, Pesch B, Nasterlack M, Leng G, Gawrych K, Bonberg N, Johnen G, Kluckert M, Gakis G, Todenhöfer T, Hennenlotter J, Brüning T, Stenzl A; UroScreen Study Group.
  Urol Oncol. 2012 May 22. [Epub ahead of print]
• Circulating U2 small nuclear RNA fragments as a novel diagnostic biomarker for pancreatic and colorectal adenocarcinoma.
  Baraniskin A, Nöpel-Dünnebacke S, Ahrens M, Jensen SG, Zöllner H, Maghnouj A, Wos A, Mayerle J, Munding J, Kost D, Reinacher-Schick A, Liffers S, Schroers R, Chromik AM, Meyer HE, Uhl W, Klein-Scory S, Weiss FU, Stephan C, Schwarte-Waldhoff I, Lerch MM, Tannapfel A, Schmiegel W, Andersen CL, Hahn SA.
  Int J Cancer. 2013 Jan 15;132(2):E48-57. doi: 10.1002/ijc.27791.
• Impact of Pre-Hospital Antithrombotic Medication on the Outcome of Chronic and Acute Subdural Hematoma.
  Baraniskin A, Steffens C, Harders A, Schmiegel W, Schroers R, Spangenberg P.
  J Neurol Surg A Cent Eur Neurosurg. 2013 Feb 20. [Epub ahead of print]
• Growth rate of late passage sarcoma cells is independent of epigenetic events but dependent on the amount of chromosomal aberrations.
  Becerikli M, Jacobsen F, Rittig A, Köhne W, Nambiar S, Mirmohammadsadegh A, Stricker I, Tannapfel A, Wieczorek S, Epplen JT, Tilkorn D, Steinstraesser L.
  Exp Cell Res. 2013 Jul 15;319(12):1724-31. doi: 10.1016/j.yexcr.2013.03.023. Epub 2013 Mar 25.
• A practical guide to epidemiological practice and standards in the identification and validation of diagnostic markers using a bladder cancer example.
  Behrens T, Bonberg N, Casjens S, Pesch B, Brüning T.
  Biochim Biophys Acta. 2014 Jan;1844(1 Pt A):145-55. doi: 10.1016/j.bbapap.2013.07.018. Epub 2013 Aug 9.
• Lung cancer risk among bakers, pastry cooks and confectionary makers: the SYNERGY study.
  Behrens T, Kendzia B, ... , Jöckel KH, ... , Pesch B, Brüning T.
  Occup Environ Med. 2013 Nov;70(11):810-4. doi: 10.1136/oemed-2013-101469. Epub 2013 Aug 2.
• Effects of intra-arterial octreotide on pancreatic texture: a randomized controlled trial.
  Belyaev O, Polle C, Herzog T, Munding J, Chromik AM, Meurer K, Tannapfel A, Bergmann U, Müller CA, Uhl W.
  Scand J Surg. 2013 Sep 1;102(3):164-70. doi: 10.1177/1457496913490457.
• Exploring the association between geneticvariation in the SUMO isopeptidase gene USPL1 and breast cancer through integration of data from the population-based GENICA study and external genetic databases.
  Bermejo JL, Kabisch M, Dünnebier T, Schnaidt S, Melchior F, Fischer HP, Harth V, Rabstein S, Pesch B, Brüning T, Justenhoven C, Brauch H, Baisch C, Ko YD, Hamann U.
  Int J Cancer. 2013 Jan 22. doi: 10.1002/ijc.28040. [Epub ahead of print]
• Development of a capillary isoelectric focusing immunoassay to measure DJ-1 isoforms in biological samples.
  Besong Agbo D, Klafki H, Poschmann G, Seyfarth K, Genius J, Janßen C, Stühler K, Wurst W, Meyer HE, Klingenspor M, Wiltfang J.
  Anal Biochem. 2013 Dec 15;443(2):197-204. doi: 10.1016/j.ab.2013.09.013. Epub 2013 Sep 17.
• Keratin23 (KRT23) knockdown decreases proliferation and affects the DNA damage response of colon cancer cells.
  Birkenkamp-Demtröder K, Hahn SA, Mansilla F, Thorsen K, Maghnouj A, Christensen R, Øster B, Ørntoft TF.
  PLoS One. 2013 Sep 9;8(9):e73593. doi: 10.1371/journal.pone.0073593. eCollection 2013.
• Chromosomal instability and bladder cancer: the UroVysion(TM) test in the UroScreen study.
  Bonberg N, Taeger D, Gawrych K, Johnen G, Banek S, Schwentner C, Sievert KD, Wellhäußer H, Kluckert M, Leng G, Nasterlack M, Stenzl A, Behrens T, Brüning T, Pesch B; The UroScreen Study Group.
  BJU Int. 2013 Jan 25. doi: 10.1111/j.1464-410X.2012.11666.x. [Epub ahead of print]
• ß-catenin, Cox-2 and p53 immunostaining in colorectal adenomas to predict recurrence after endoscopic polypectomy.
  Brand L, Munding J, Pox CP, Ziebarth W, Reiser M, Hüppe D, Schmiegel W, Reinacher-Schick A, Tannapfel A.
  Int J Colorectal Dis. 2013 Aug;28(8):1091-8. doi: 10.1007/s00384-013-1667-z. Epub 2013 Mar 21.
• Diagnostic value of the impairment of olfaction in Parkinson's disease.
  Casjens S, Eckert A, Woitalla D, Ellrichmann G, Turewicz M, Stephan C, Eisenacher M, May C, Meyer HE, Brüning T, Pesch B.
  PLoS One. 2013 May 16;8(5):e64735. doi: 10.1371/journal.pone.0064735. Print 2013.
• N-Acetyl-4-aminophenol (paracetamol), N-acetyl-2-aminophenol and acetanilide in urine samples from the general population, individuals exposed to aniline and paracetamol users.
  Dierkes G, Weiss T, Modick H, Käfferlein HU, Brüning T, Koch HM.
  Int J Hyg Environ Health. 2013 Dec 6. pii: S1438-4639(13)00155-7. doi: 10.1016/j.ijheh.2013.11.005. [Epub ahead of print]
• Distinct ubiquitination cascades act on the peroxisomal targeting signal type 2 co-receptor Pex18p.
  El Magraoui F, Brinkmeier R, Schrötter A, Girzalsky W, Müller T, Marcus K, Meyer HE, Erdmann R, Platta HW.
  Traffic. 2013 Dec;14(12):1290-301. doi: 10.1111/tra.12120. Epub 2013 Oct 7.
• Membrane extraction of Rab proteins by GDP dissociation inhibitor characterized using attenuated total reflection infrared spectroscopy
  Gavriljuk K, Itzen A, Goody RS, Gerwert K, Kötting C.
  Proc Natl Acad Sci U S A. 2013 Aug 13;110(33):13380-5. doi: 10.1073/pnas.1307655110. Epub 2013 Jul 29.
• Krebs einfacher diagnostizieren - Welche Rolle spielen Proteine bei der Krebsentstehung?
  Gerwert, K.
  Rubin, Ausgabe: Frühjahr (2013)
• The role of protein-bound water molecules in microbial rhodopsins.
  Gerwert K, Freier E, Wolf S.
  Biochim Biophys Acta. 2013 Sep 17. pii: S0005-2728(13)00162-X. doi: 10.1016/j.bbabio.2013.09.006. [Epub ahead of print]
• Prognostic factors for 60-day mortality in first-line treatment of metastatic colorectal cancer (mCRC): individual patient analysis of four randomised, controlled trials by the AIO colorectal cancer study group.
  Giessen C, Graeven U, Laubender RP, Modest DP, Schulz C, Porschen R, Schmiegel W, Reinacher-Schick A, Hegewisch-Becker S, Stintzing S, Heinemann V.
  Ann Oncol. 2013 Dec;24(12):3051-5. doi: 10.1093/annonc/mdt402. Epub 2013 Oct 14.
• Challenges in modern biomarker discovery--17th HUPO BPP workshop: May 24-25, 2012, Sao Paulo, Brazil.
  Gröttrup B, Esselmann H, May C, Schrötter A, Woitalla D, Heinsen H, Marcus K, Wiltfang J, Meyer HE, Grinberg LT, Park YM.
  Proteomics. 2013 Jan;13(2):210-6. doi: 10.1002/pmic.201370025.
• Progresses in neuroproteomics of neurodegenerative diseases--18th HUPO BPP workshop: September 12, 2012, Boston, USA.
  Gröttrup B, May C, Meyer HE, Grinberg LT, Park YM.
  Proteomics. 2013 Jan;13(2):217-8. doi: 10.1002/pmic.201370024.
• Analysis of amino-terminal variants of amyloid-β peptides by capillary isoelectric focusing immunoassay.
  Haußmann U, Jahn O, Linning P, Janßen C, Liepold T, Portelius E, Zetterberg H, Bauer C, Schuchhardt J, Knölker HJ, Klafki H, Wiltfang J.
  Anal Chem. 2013 Sep 3;85(17):8142-9. doi: 10.1021/ac401055y. Epub 2013 Aug 14.
• Multimodal Treatment Eliminates Cancer Stem Cells and Leads to Long-Term Survival in Primary Human Pancreatic Cancer Tissue Xenografts.
  Hermann PC, Trabulo SM, Sainz B Jr, Balic A, Garcia E, Hahn SA, Vandana M, Sahoo SK, Tunici P, Bakker A, Hidalgo M, Heeschen C.
  PLoS One. 2013 Jun 18;8(6):e66371. Print 2013.
• Influence of MRE11, RAD50 and NIBRIN protein expression on survival in pancreatic carcinoma after curative resection.
  Horst K, Ganzera S, Kaisers W, Munding J, Flott-Rahmel B, Tannapfel A, Zirngibl H.
  Pathol Res Pract. 2013 Oct;209(10):635-9. doi: 10.1016/j.prp.2013.07.003. Epub 2013 Jul 26.
• Früherkennung von Harnblasenkrebs - Automatisierte Fluoreszenzanalyse chromosomaler Aberrationen im Urin.
  Käfferlein HU, Köhler CU, Martin L, Bonberg N, Behrens T, Brüning T.
  IPA-Journal 2013; 2:16-18
• Immunohistochemistry, histopathology and infrared spectral histopathology of colon cancer tissue sections.
  Kallenbach-Thieltges A, Großerüschkamp F, Mosig A, Diem M, Tannapfel A, Gerwert K.
  J Biophotonics. 2013 Jan;6(1):88-100. doi: 10.1002/jbio.201200132.
• Welding and lung cancer in a pooled analysis of case-control studies.
  Kendzia B, Behrens T, Jöckel KH, ... , Straif K, Pesch B, Brüning T.
  Am J Epidemiol. 2013 Nov 15;178(10):1513-25. doi: 10.1093/aje/kwt201. Epub 2013 Sep 19.
• A combined laser microdissection and mass spectrometry approach reveals new disease relevant proteins accumulating in aggregates of filaminopathy patients.
  Kley RA, Maerkens A, Leber Y, Theis V, Schreiner A, van der Ven PF, Uszkoreit J, Stephan C, Eulitz S, Euler N, Kirschner J, Müller K, Meyer HE, Tegenthoff M, Fürst DO, Vorgerd M, Müller T, Marcus K.
  Mol Cell Proteomics. 2013 Jan;12(1):215-27. doi: 10.1074/mcp.M112.023176.
• Analyses in human urothelial cells identify methylation of miR-152, miR-200b and miR-10a genes as candidate bladder cancer biomarkers.
  Köhler CU, Bryk O, Meier S, Lang K, Rozynek P, Brüning T, Käfferlein HU.
  Biochem Biophys Res Commun. 2013 Aug 16;438(1):48-53. doi: 10.1016/j.bbrc.2013.07.021. Epub 2013 Jul 16.
• The dynamics of the catalytic site in small GTPases, variations on a common motif
  Kötting C, Gerwert K.
  FEBS Lett. 2013 Jun 27;587(13):2025-7. doi: 10.1016/j.febslet.2013.05.021. Epub 2013 May 16.
• A practical data processing workflow for multi-OMICS projects.
  Kohl M, Megger DA, Trippler M, Meckel H, Ahrens M, Bracht T, Weber F, Hoffmann AC, Baba HA, Sitek B, Schlaak JF, Meyer HE, Stephan C, Eisenacher M.
  Biochim Biophys Acta. 2014 Jan;1844(1 Pt A):52-62. doi: 10.1016/j.bbapap.2013.02.029. Epub 2013 Mar 15.
• Effects of coagulation on the autofluorescence pattern of ARPE-19 cells: an in vitro study.
  Koutsonas A, Carstesen D, Henkel C, Walter P, Thumann G, Weinberger AW.
  Ophthalmic Res. 2013;49(1):11-9. doi: 10.1159/000341740.
• Proteomic profiling in Lipocalin 2 deficient mice under normal and inflammatory conditions.
  Labbus K, Henning M, Borkham-Kamphorst E, Geisler C, Berger T, Mak TW, Knüchel R, Meyer HE, Weiskirchen R, Henkel C.
  J Proteomics. 2013 Jan 14;78:188-96. doi: 10.1016/j.jprot.2012.11.021. Epub 2012 Dec 3.
• Salinomycin increases chemosensitivity to the effects of doxorubicin in soft tissue sarcomas.
  Liffers ST, Tilkorn DJ, Stricker I, Junge CG, Al-Benna S, Vogt M, Verdoodt B, Steinau HU, Tannapfel A, Tischoff I, Mirmohammadsadegh A.
  BMC Cancer. 2013 Oct 21;13(1):490. [Epub ahead of print]
• Differential proteomic analysis of abnormal intramyoplasmic aggregates in desminopathy.
  Maerkens A, Kley RA, Olivé M, Theis V, van der Ven PF, Reimann J, Milting H, Schreiner A, Uszkoreit J, Eisenacher M, Barkovits K, Güttsches AK, Tonillo J, Kuhlmann K, Meyer HE, Schröder R, Tegenthoff M, Fürst DO, Müller T, Goldfarb LG, Vorgerd M, Marcus K.
  J Proteomics. 2013 Sep 2;90:14-27. doi: 10.1016/j.jprot.2013.04.026. Epub 2013 Apr 30.
• Spectral histopathology of colon cancer tissue sections by Raman imaging with 532 nm excitation provides label free annotation of lymphocytes, erythrocytes and proliferating nuclei of cancer cells.
  Mavarani L, Petersen D, El-Mashtoly SF, Mosig A, Tannapfel A, Kötting C, Gerwert K.
  Analyst. 2013 Jul 21;138(14):4035-9. doi: 10.1039/c3an00370a. Epub 2013 Jun 4.
• Controlled vocabularies and ontologies in proteomics: Overview, principles and practice.
  Mayer G, Jones AR, Binz PA, Deutsch EW, Orchard S, Montecchi-Palazzi L, Vizcaíno JA, Hermjakob H, Oveillero D, Julian R, Stephan C, Meyer HE, Eisenacher M.
  Biochim Biophys Acta. 2014 Jan;1844(1 Pt A):98-107. doi: 10.1016/j.bbapap.2013.02.017. Epub 2013 Feb 19.
• The HUPO proteomics standards initiative- mass spectrometry controlled vocabulary.
  Mayer G, Montecchi-Palazzi L, Ovelleiro D, Jones AR, Binz PA, Deutsch EW, Chambers M, Kallhardt M, Levander F, Shofstahl J, Orchard S, Vizcaíno JA, Hermjakob H, Stephan C, Meyer HE, Eisenacher M; HUPO-PSI Group.
  Database (Oxford). 2013 Mar 12;2013:bat009. doi: 10.1093/database/bat009. Print 2013.
• The amino acid's backup bone - Storage solutions for proteomics facilities.
  Meckel H, Stephan C, Bunse C, Krafzik M, Reher C, Kohl M, Meyer HE, Eisenacher M.
  Biochim Biophys Acta. 2014 Jan;1844(1 Pt A):2-11. doi: 10.1016/j.bbapap.2013.05.018. Epub 2013 May 27.
• Proteomic differences between hepatocellular carcinoma and nontumorous liver tissue investigated by a combined gel-based and label-free quantitative proteomics study.
  Megger DA, Bracht T, Kohl M, Ahrens M, Naboulsi W, Weber F, Hoffmann AC, Stephan C, Kuhlmann K, Eisenacher M, Schlaak JF, Baba HA, Meyer HE, Sitek B.
  Mol Cell Proteomics. 2013 Jul;12(7):2006-20. doi: 10.1074/mcp.M113.028027. Epub 2013 Mar 5.
• Label-free quantification in clinical proteomics.
  Megger DA, Bracht T, Meyer HE, Sitek B.
  Biochim Biophys Acta. 2013 Aug;1834(8):1581-90. doi: 10.1016/j.bbapap.2013.04.001. Epub 2013 Apr 6.
• Comparison of label-free and label-based strategies for proteome analysis of hepatoma cell lines.
  Megger DA, Pott LL, Ahrens M, Padden J, Bracht T, Kuhlmann K, Eisenacher M, Meyer HE, Sitek B.
  Biochim Biophys Acta. 2013 Aug 14. pii: S1570-9639(13)00289-6. doi: 10.1016/j.bbapap.2013.07.017. [Epub ahead of print]
• Effect of neoadjuvant treatment in the management of osteosarcomas of the head and neck.
  Mücke T, Mitchell DA, Tannapfel A, Wolff KD, Loeffelbein DJ, Kanatas A.
  J Cancer Res Clin Oncol. 2014 Jan;140(1):127-31. doi: 10.1007/s00432-013-1550-x. Epub 2013 Nov 26.
• Individual profiling of circulating tumor cell composition and therapeutic outcome in patients with hepatocellular carcinoma.
  Nel I, Baba HA, Ertle J, Weber F, Sitek B, Eisenacher M, Meyer HE, Schlaak JF, Hoffmann AC.
  Transl Oncol. 2013 Aug 1;6(4):420-8. Print 2013 Aug.
• FE65 interactomics revealed SV2A and SERCA2 as new binding proteins in the human brain.
  Nensa FM, Neumann MH, Schroetter A, Przyborski A, Mastalski T, Susdalzew S, Loosse C, Helling S, El Magraoui F, Erdmann R, Meyer HE, Uszkoreit J, Eisenacher M, Suh J, Guenette SY, Roehner N, Koegel D, Theiss C, Marcus K, Mueller T.
  Mol Cell Proteomics. 2013 Nov 27. [Epub ahead of print]
• Malignant pleural mesothelioma: incidence, etiology, diagnosis, treatment, and occupational health.
  Neumann V, Löseke S, Nowak D, Herth FJ, Tannapfel A.
  Dtsch Arztebl Int. 2013 May;110(18):319-26. doi: 10.3238/arztebl.2013.0319. Epub 2013 May 3.
• FTIR spectroscopy of biofluids revisited: an automated approach to spectral biomarker identification.
  Ollesch J, Drees SL, Heise HM, Behrens T, Brüning T, Gerwert K.
  Analyst. 2013 Jul 21;138(14):4092-102. doi: 10.1039/c3an00337j. Epub 2013 May 28.
• Lung cancer risk among hairdressers: a pooled analysis of case-control studies conducted between 1985 and 2010.
  Olsson AC, ... , Behrens T, Pesch B, Brüning T, Straif K.
  Am J Epidemiol. 2013 Nov 1;178(9):1355-65. doi: 10.1093/aje/kwt119. Epub 2013 Sep 25.
• Biomarker research with prospective study designs for the early detection of cancer.
  Pesch B, Brüning T, Johnen G, Casjens S, Bonberg N, Taeger D, Müller A, Weber DG, Behrens T.
  Biochim Biophys Acta. 2013 Dec 17. pii: S1570-9639(13)00429-9. doi: 10.1016/j.bbapap.2013.12.007. [Epub ahead of print]
• Screening for bladder cancer with urinary tumor markers in chemical workers with exposure to aromatic amines.
  Pesch B, Taeger D, Johnen G, Gawrych K, Bonberg N, Schwentner C, Wellhäußer H, Kluckert M, Leng G, Nasterlack M, Lotan Y, Stenzl A, Brüning T; the UroScreen Study Group.
  Int Arch Occup Environ Health. 2013 Oct 16. [Epub ahead of print]
• Combined enrichment of neuromelanin granules and synaptosomes from human substantia nigra pars compacta tissue for proteomic analysis.
  Plum S, Helling S, Theiss C, Leite RE, May C, Jacob-Filho W, Eisenacher M, Kuhlmann K, Meyer HE, Riederer P, Grinberg LT, Gerlach M, Marcus K.
  J Proteomics. 2013 Dec 6;94:202-6. doi: 10.1016/j.jprot.2013.07.015. Epub 2013 Aug 3.
• A combination of two electrophoretical approaches for detailed proteome-based characterization of SCLC subtypes.
  Poschmann G, Lendzian A, Uszkoreit J, Eisenacher M, Borght AV, Ramaekers FC, Meyer HE, Stühler K.
  Arch Physiol Biochem. 2013 Jul;119(3):114-25. doi: 10.3109/13813455.2013.789529. Epub 2013 May 8.
• Comparative microarray analysis of microRNA expression profiles in primary cutaneous malignant melanoma, cutaneous malignant melanoma metastases, and benign melanocytic nevi.
  Sand M, Skrygan M, Sand D, Georgas D, Gambichler T, Hahn SA, Altmeyer P, Bechara FG.
  Cell Tissue Res. 2013 Jan;351(1):85-98. doi: 10.1007/s00441-012-1514-5. Epub 2012 Oct 31.
• Universal method for protein immobilization on chemically functionalized germanium investigated by ATR-FTIR difference spectroscopy. Schartner J, Güldenhaupt J, Mei B, Rögner M, Muhler M, Gerwert K, Kötting C.
  J Am Chem Soc. 2013 Mar 13;135(10):4079-87. doi: 10.1021/ja400253p. Epub 2013 Mar 4.
• Capecitabine/irinotecan or capecitabine/oxaliplatin in combination with bevacizumab is effective and safe as first-line therapy for metastatic colorectal cancer: a randomized phase II study of the AIO colorectal study group.
  Schmiegel W, Reinacher-Schick A, Arnold D, Kubicka S, Freier W, Dietrich G, Geißler M, Hegewisch-Becker S, Tannapfel A, Pohl M, Hinke A, Schmoll HJ, Graeven U.
  Ann Oncol. 2013 Jun;24(6):1580-7. doi: 10.1093/annonc/mdt028. Epub 2013 Mar 4.
• Early diagnosis of neurodegenerative diseases - the long awaited Holy Grail and bottleneck of modern brain research - 19th HUPO BPP workshop: May 22-24, 2013, Dortmund, Germany.
  Schrötter A, Magraoui FE, Gröttrup B, Wiltfang J, Heinsen H, Marcus K, Meyer HE, Grinberg LT, Park YM.
  Proteomics. 2013 Oct;13(20):2938-41. doi: 10.1002/pmic.201370164.
• FE65 regulates and interacts with the Bloom syndrome protein in dynamic nuclear spheres - potential relevance to Alzheimer's disease.
  Schrötter A, Mastalski T, Nensa FM, Neumann M, Loosse C, Pfeiffer K, Magraoui FE, Platta HW, Erdmann R, Theiss C, Uszkoreit J, Eisenacher M, Meyer HE, Marcus K, Müller T.
  J Cell Sci. 2013 Jun 1;126(Pt 11):2480-92. doi: 10.1242/jcs.121004. Epub 2013 Apr 9.
• Biological responses to PDGF-AA versus PDGF-CC in renal fibroblasts.
  Seikrit C, Henkel C, van Roeyen CR, Bokemeyer D, Eitner F, Martin IV, Boor P, Knüchel R, Meyer HE, Müller-Newen G, Eriksson U, Floege J, Ostendorf T.
  Nephrol Dial Transplant. 2013 Apr;28(4):889-900. doi: 10.1093/ndt/gfs509. Epub 2012 Dec 9.
• Norepinephrine inhibits the migratory activity of pancreatic cancer cells.
  Stock AM, Powe DG, Hahn SA, Troost G, Niggemann B, Zänker KS, Entschladen F.
  Exp Cell Res. 2013 Jul 15;319(12):1744-58. doi: 10.1016/j.yexcr.2013.04.015. Epub 2013 Apr 29.
• Improving the default data analysis workflow for large autoimmune biomarker discovery studies with ProtoArrays. Turewicz M, May C, Ahrens M, Woitalla D, Gold R, Casjens S, Pesch B, Brüning T, Meyer HE, Nordhoff E, Böckmann M, Stephan C, Eisenacher M.
  Proteomics. 2013 Jul;13(14):2083-7. doi: 10.1002/pmic.201200518. Epub 2013 Jun 20.
• MicroRNA-205, a novel regulator of the anti-apoptotic protein Bcl2, is downregulated in prostate cancer.
  Verdoodt B, Neid M, Vogt M, Kuhn V, Liffers ST, Palisaar RJ, Noldus J, Tannapfel A, Mirmohammadsadegh A.
  Int J Oncol. 2013 Jul;43(1):307-14. doi: 10.3892/ijo.2013.1915. Epub 2013 Apr 23.
• Effect Modification of the Association of Cumulative Exposure and Cancer Risk by Intensity of Exposure and Time Since Exposure Cessation: A Flexible Method Applied to Cigarette Smoking and Lung Cancer in the SYNERGY Study.
  Vlaanderen J, ... Pesch B, ... Jöckel KH, ... Brüning T, Kromhout H, Straif K, Vermeulen R.
  Am J Epidemiol. 2013 Dec 18. [Epub ahead of print]
• The fate of b-ions in the two worlds of collision-induced dissociation.
  Waldera-Lupa DM, Stefanski A, Meyer HE, Stühler K.
  Biochim Biophys Acta. 2013 Dec;1834(12):2843-8. doi: 10.1016/j.bbapap.2013.08.007. Epub 2013 Aug 28.
• The mzQuantML data standard for mass spectrometry-based quantitative studies in proteomics.
  Walzer M, Qi D, Mayer G, Uszkoreit J, Eisenacher M, Sachsenberg T, Gonzalez-Galarza FF, Fan J, Bessant C, Deutsch EW, Reisinger F, Vizcaíno JA, Medina-Aunon JA, Albar JP, Kohlbacher O, Jones AR.
  Mol Cell Proteomics. 2013 Aug;12(8):2332-40. doi: 10.1074/mcp.O113.028506. Epub 2013 Apr 18.
• Evaluation of long noncoding RNA MALAT1 as a candidate blood-based biomarker for the diagnosis of non-small cell lung cancer.
  Weber DG, Johnen G, Casjens S, Bryk O, Pesch B, Jöckel KH, Kollmeier J, Brüning T.
  BMC Res Notes. 2013 Dec 6;6:518. doi: 10.1186/1756-0500-6-518.
• Long-term incubation with mifepristone (MLTI) increases the spine density in developing Purkinje cells: new insights into progesterone receptor mechanisms.
  Wessel L, Balakrishnan-Renuka A, Henkel C, Meyer HE, Meller K, Brand-Saberi B, Theiss C.
  Cell Mol Life Sci. 2013 Aug 28. [Epub ahead of print]
• Comparison of Alternative MS/MS and Bioinformatics Approaches for Confident Phosphorylation Site Localization.
  Wiese H, Kuhlmann K, Wiese S, Stoepel NS, Pawlas M, Meyer HE, Stephan C, Eisenacher M, Drepper F, Warscheid B.
  J Proteome Res. 2013 Dec 23. [Epub ahead of print]
• Reduced hemopexin levels in peritoneal fluid of patients with endometriosis.
  Wölfler MM, Meinhold-Heerlein IM, Henkel C, Rath W, Neulen J, Maass N, Bräutigam K.
  Fertil Steril. 2013 Sep;100(3):777-81. doi: 10.1016/j.fertnstert.2013.05.010. Epub 2013 Jun 10.
• Similarity maps and hierarchical clustering for annotating FT-IR spectral images. Zhong Q, Yang C, Großerüschkamp F, Kallenbach-Thieltges A, Serocka P, Gerwert K, Mosig A.
  BMC Bioinformatics. 2013 Nov 20;14(1):333. doi: 10.1186/1471-2105-14-333.
• Small molecule inhibition of the KRAS-PDEδ interaction impairs oncogenic KRAS signalling.
  Zimmermann G, Papke B, Ismail S, Vartak N, Chandra A, Hoffmann M, Hahn SA, Triola G, Wittinghofer A, Bastiaens PI, Waldmann H.
  Nature. 2013 May 30;497(7451):638-42. doi: 10.1038/nature12205. Epub 2013 May 22.

Publications 2012

• MiR-30a-5p suppresses tumor growth in colon carcinoma by targeting DTL.
  Baraniskin A, Birkenkamp-Demtroder K, Maghnouj A, Zöllner H, Munding J, Klein-Scory S, Reinacher-Schick A, Schwarte-Waldhoff I, Schmiegel W, Hahn SA.
  Carcinogenesis. 2012 Apr;33(4):732-9. Epub 2012 Jan 27.
• Identification of microRNAs in the cerebrospinal fluid as biomarker for the diagnosis of glioma.
  Baraniskin A, Kuhnhenn J, Schlegel U, Maghnouj A, Zöllner H, Schmiegel W, Hahn S, Schroers R.
  Neuro Oncol. 2012 Jan;14(1):29-33. doi: 10.1093/neuonc/nor169. Epub 2011 Sep 21.
• Neurochemical biomarkers in Alzheimer's disease and related disorders.
  Bibl M, Esselmann H, Wiltfang J.
  Ther Adv Neurol Disord. 2012 Nov;5(6):335-48. doi: 10.1177/1756285612455367.
• Aminoterminally truncated and oxidized amyloid-β peptides in the cerebrospinal fluid of Alzheimer's disease patients.
  Bibl M, Gallus M, Welge V, Esselmann H, Wiltfang J.
  J Alzheimers Dis. 2012;29(4):809-16. doi: 10.3233/JAD-2012-111796.
• Cerebrospinal fluid amyloid-β 2-42 is decreased in Alzheimer's, but not in frontotemporal dementia. Bibl M, Gallus M, Welge V, Esselmann H, Wolf S, Rüther E, Wiltfang J.
  J Neural Transm. 2012 Jul;119(7):805-13. doi: 10.1007/s00702-012-0801-3. Epub 2012 Apr 19.
• Characterization of cerebrospinal fluid aminoterminally truncated and oxidized amyloid-β peptides. Bibl M, Gallus M, Welge V, Lehmann S, Sparbier K, Esselmann H, Wiltfang J.
  Proteomics Clin Appl. 2012 Apr;6(3-4):163-9. doi: 10.1002/prca.201100082.
• Stability of amyloid-β peptides in plasma and serum. Bibl M, Welge V, Esselmann H, Wiltfang J.
  Electrophoresis. 2012 Feb;33(3):445-50. doi: 10.1002/elps.201100455.
• Stepwise isolation of human peripheral erythrocytes, T lymphocytes, and monocytes for blood cell proteomics. Brosseron F, May C, Schoenebeck B, Tippler B, Woitalla D, Kauth M, Brockmann K, Meyer HE, Berg D, Bufe A, Marcus K.
  Proteomics Clin Appl. 2012 Oct;6(9-10):497-501. doi: 10.1002/prca.201200032. Epub 2012 Sep 24.
• The mechanism of γ-Secretase dysfunction in familial Alzheimer
  Chávez-Gutiérrez L, Bammens L, Benilova I, Vandersteen A, Benurwar M, Borgers M, Lismont S, Zhou L, Van Cleynenbreugel S, Esselmann H, Wiltfang J, Serneels L, Karran E, Gijsen H, Schymkowitz J, Rousseau F, Broersen K, De Strooper B.
  EMBO J. 2012 Apr 13;31(10):2261-74. doi: 10.1038/emboj.2012.79.
• Nanoscale distinction of membrane patches--a TERS study of Halobacterium salinarum.
  Deckert-Gaudig T, Böhme R, Freier E, Sebesta A, Merkendorf T, Popp J, Gerwert K, Deckert V.
  J Biophotonics. 2012 Jul;5(7):582-91. doi: 10.1002/jbio.201100131. Epub 2012 Feb 27.
• TFAP2E-DKK4 and chemoresistance in colorectal cancer.
  Ebert MP, Tänzer M, Balluff B, Burgermeister E, Kretzschmar AK, Hughes DJ, Tetzner R, Lofton-Day C, Rosenberg R, Reinacher-Schick AC, Schulmann K, Tannapfel A, Hofheinz R, Röcken C, Keller G, Langer R, Specht K, Porschen R, Stöhlmacher-Williams J, Schuster T, Ströbel P, Schmid RM.
  N Engl J Med. 2012 Jan 5;366(1):44-53.
• Search and decoy: the automatic identification of mass spectra.
  Eisenacher M, Kohl M, Turewicz M, Koch MH, Uszkoreit J, Stephan C.
  Methods Mol Biol. 2012;893:445-88. doi: 10.1007/978-1-61779-885-6_28.
• Find pairs: the module for protein quantification of the PeakQuant software suite.
  Eisenacher M, Kohl M, Wiese S, Hebeler R, Meyer HE, Warscheid B, Stephan C.
  OMICS. 2012 Sep;16(9):457-67. doi: 10.1089/omi.2011.0140. Epub 2012 Aug 21.
• In channelrhodopsin-2 Glu-90 is crucial for ion selectivity and is deprotonated during the photocycle.
  Eisenhauer K, Kuhne J, Ritter E, Berndt A, Wolf S, Freier E, Bartl F, Hegemann P, Gerwert K.
  J Biol Chem. 2012 Feb 24;287(9):6904-11. doi: 10.1074/jbc.M111.327700. Epub 2012 Jan 4.
• Catalytic mechanism of a mammalian Rab{middle dot}RabGAP complex in atomic detail.
  Gavriljuk K, Gazdag EM, Itzen A, Kötting C, Goody RS, Gerwert K.
  Proc Natl Acad Sci U S A. 2012 Dec 26;109(52):21348-53. doi: 10.1073/pnas.1214431110. Epub 2012 Dec 12.
• Dynamic changes of the Caenorhabditis elegans proteome during ontogenesis assessed by quantitative analysis with ¹⁵N metabolic labeling.
  Geillinger KE, Kuhlmann K, Eisenacher M, Meyer HE, Daniel H, Spanier B.
  J Proteome Res. 2012 Sep 7;11(9):4594-604. doi: 10.1021/pr300385v. Epub 2012 Aug 24.
• Prediction of a ligand-binding niche within a human olfactory receptor by combining site-directed mutagenesis with dynamic homology modeling.
  Gelis L, Wolf S, Hatt H, Neuhaus EM, Gerwert K.
  Angew Chem Int Ed Engl. 2012 Jan 27;51(5):1274-8. doi: 10.1002/anie.201103980. Epub 2011 Dec 5.
• N-Ras Forms Dimers at POPC Membranes.
  Güldenhaupt J, Rudack T, Bachler P, Mann D, Triola G, Waldmann H, Kötting C, Gerwert K.
  Biophys J. 2012 Oct 3;103(7):1585-93. doi: 10.1016/j.bpj.2012.08.043. Epub 2012 Oct 2.
• Nuclear matrix protein-22: a prospective evaluation in a population at risk for bladder cancer. Results from the UroScreen study.
  Huber S, Schwentner C, Taeger D, Pesch B, Nasterlack M, Leng G, Mayer T, Gawrych K, Bonberg N, Pelster M, Johnen G, Bontrup H, Wellhäusser H, Bierfreund HG, Wiens C, Bayer C, Eberle F, Scheuermann B, Kluckert M, Feil G, Brüning T, Stenzl A; UroScreen Study Group.
  BJU Int. 2012 Sep;110(5):699-708. doi: 10.1111/j.1464-410X.2011.10883.x. Epub 2012 Feb 7.
• Performance of survivin mRNA as a biomarker for bladder cancer in the prospective study UroScreen.
  Johnen G, Gawrych K, Bontrup H, Pesch B, Taeger D, Banek S, Kluckert M, Wellhäußer H, Eberle F, Nasterlack M, Leng G, Stenzl A, Brüning T; UroScreen Study Group.
  PLoS One. 2012;7(4):e35363. doi: 10.1371/journal.pone.0035363. Epub 2012 Apr 16.
• The mzIdentML data standard for mass spectrometry-based proteomics results.
  Jones AR, Eisenacher M, Mayer G, Kohlbacher O, Siepen J, Hubbard SJ, Selley JN, Searle BC, Shofstahl J, Seymour SL, Julian R, Binz PA, Deutsch EW, Hermjakob H, Reisinger F, Griss J, Vizcaíno JA, Chambers M, Pizarro A, Creasy D.
  Mol Cell Proteomics. 2012 Jul;11(7):M111.014381. doi: 10.1074/mcp.M111.014381. Epub 2012 Feb 27.
• Presenilin-1 L166P mutant human pluripotent stem cell-derived neurons exhibit partial loss of γ-secretase activity in endogenous amyloid-β generation.
  Koch P, Tamboli IY, Mertens J, Wunderlich P, Ladewig J, Stüber K, Esselmann H, Wiltfang J, Brüstle O, Walter J.
  Am J Pathol. 2012 Jun;180(6):2404-16. Epub 2012 Apr 14.
• Time-resolved FTIR spectroscopy for monitoring protein dynamics exemplified by functional studies of Ras protein bound to a lipid bilayer
  Kötting C, Güldenhaupt J, Gerwert K.
  Chemical Physics, Volume 396, 2 March 2012, Pages 72–83
• Effects of coagulation on the autofluorescence pattern of ARPE-19 cells: an in vitro study.
  Koutsonas A, Carstesen D, Henkel C, Walter P, Thumann G, Weinberger AW.
  Ophthalmic Res. 2013;49(1):11-9. doi: 10.1159/000341740. Epub 2012 Sep 5.
• Proteomic profiling in Lipocalin 2 deficient mice under normal and inflammatory conditions.
  Labbus K, Henning M, Borkham-Kamphorst E, Geisler C, Berger T, Mak TW, Knüchel R, Meyer HE, Weiskirchen R, Henkel C.
  J Proteomics. 2013 Jan 14;78:188-96. doi: 10.1016/j.jprot.2012.11.021. Epub 2012 Dec 3.
• New malignancies following cancer of the urinary bladder: analysis of German cancer registry data.
  Lehnert M, Kraywinkel K, Pesch B, Holleczek B, Brüning T.
  Eur J Cancer Care (Engl). 2012 May;21(3):398-402. doi: 10.1111/j.1365-2354.2011.01315.x. Epub 2011 Dec 8.
• Exploring the Multidimensional Free Energy Surface of Phosphoester Hydrolysis with Constrained QM/MM Dynamics
  Li, W., Rudack, T., Gerwert, K., Gräter, F. and Schlitter, J.
  J. Chem. Theory Comput., 2012, 8 (10), pp 3596–3604
• Optimisation of BACE1 inhibition of tripartite structures by modification of membrane anchors, spacers and pharmacophores - development of potential agents for the treatment of Alzheimer's disease.
  Linning P, Haussmann U, Beyer I, Weidlich S, Schieb H, Wiltfang J, Klafki HW, Knölker HJ.
  Org Biomol Chem. 2012 Oct 3;10(41):8216-35. doi: 10.1039/c2ob26103k.
• The influence of 5-aminosalicylic acid on the progression of colorectal adenomas via the β-catenin signaling pathway.
  Munding J, Ziebarth W, Pox CP, Ladigan S, Reiser M, Hüppe D, Brand L, Schmiegel W, Tannapfel A, Reinacher-Schick AC.
  Carcinogenesis. 2012 Mar;33(3):637-43. doi: 10.1093/carcin/bgr306. Epub 2011 Dec 22.
• Proteomic tissue profiling for the improvement of grading of noninvasive papillary urothelial neoplasia.
  Oezdemir RF, Gaisa NT, Lindemann-Docter K, Gostek S, Weiskirchen R, Ahrens M, Schwamborn K, Stephan C, Pfister D, Heidenreich A, Knuechel R, Henkel C.
  Clin Biochem. 2012 Jan;45(1-2):7-11. doi: 10.1016/j.clinbiochem.2011.09.013. Epub 2011 Oct 2.
• Occupational exposure to organic dust increases lung cancer risk in the general population.
  Peters S, Kromhout H, Olsson AC, Wichmann HE, Brüske I, Consonni D, Landi MT, Caporaso N, Siemiatycki J, Richiardi L, Mirabelli D, Simonato L, Gustavsson P, Plato N, Jöckel KH, Ahrens W, Pohlabeln H, Boffetta P, Brennan P, Zaridze D, Cassidy A, Lissowska J, Szeszenia-Dabrowska N, Rudnai P, Fabianova E, Forastiere F, Bencko V, Foretova L, Janout V, Stücker I, Dumitru RS, Benhamou S, Bueno-de-Mesquita B, Kendzia B, Pesch B, Straif K, Brüning T, Vermeulen R.
  Thorax. 2012 Feb;67(2):111-6. doi: 10.1136/thoraxjnl-2011-200716. Epub 2011 Aug 19.
• NOTCH1, HIF1A and other cancer-related proteins in lung tissue from uranium miners--variation by occupational exposure and subtype of lung cancer.
  Pesch B, Casjens S, Stricker I, Westerwick D, Taeger D, Rabstein S, Wiethege T, Tannapfel A, Brüning T, Johnen G.
  PLoS One. 2012;7(9):e45305. doi: 10.1371/journal.pone.0045305. Epub 2012 Sep 17.
• Cigarette smoking and lung cancer--relative risk estimates for the major histological types from a pooled analysis of case-control studies.
  Pesch B, Kendzia B, Gustavsson P, Jöckel KH, Johnen G, Pohlabeln H, Olsson A, Ahrens W, Gross IM, Brüske I, Wichmann HE, Merletti F, Richiardi L, Simonato L, Fortes C, Siemiatycki J, Parent ME, Consonni D, Landi MT, Caporaso N, Zaridze D, Cassidy A, Szeszenia-Dabrowska N, Rudnai P, Lissowska J, Stücker I, Fabianova E, Dumitru RS, Bencko V, Foretova L, Janout V, Rudin CM, Brennan P, Boffetta P, Straif K, Brüning T.
  Int J Cancer. 2012 Sep 1;131(5):1210-9. doi: 10.1002/ijc.27339. Epub 2011 Dec 14.
• Surface-attached polyhistidine-tag proteins characterized by FTIR difference spectroscopy.
  Pinkerneil P, Güldenhaupt J, Gerwert K, Kötting C.
  Chemphyschem. 2012 Aug 6;13(11):2649-53. doi: 10.1002/cphc.201200358. Epub 2012 Jun 15.
• Efficacy of a nationwide screening colonoscopy program for colorectal cancer.
  Pox CP, Altenhofen L, Brenner H, Theilmeier A, Von Stillfried D, Schmiegel W.
  Gastroenterology. 2012 Jun;142(7):1460-7.e2. doi: 10.1053/j.gastro.2012.03.022. Epub 2012 Mar 21.
• Effect of KRAS codon13 mutations in patients with advanced colorectal cancer (advanced CRC) under oxaliplatin containing chemotherapy. Results from a translational study of the AIO colorectal study group.
  Reinacher-Schick A, Schulmann K, Modest DP, Bruns N, Graeven U, Jaworska M, Greil R, Porschen R, Arnold D, Schmiegel W, Tannapfel A.
  BMC Cancer. 2012 Aug 9;12:349. doi: 10.1186/1471-2407-12-349.
• Proteomic analysis of alterations induced by perinatal hypoxic-ischemic brain injury.
  Rosenkranz K, May C, Meier C, Marcus K.
  J Proteome Res. 2012 Dec 7;11(12):5794-803. doi: 10.1021/pr3005869. Epub 2012 Nov 27.
• Ras and GTPase-activating protein (GAP) drive GTP into a precatalytic state as revealed by combining FTIR and biomolecular simulations.
  Rudack T, Xia F, Schlitter J, Kötting C, Gerwert K.
  Proc Natl Acad Sci U S A. 2012 Sep 18;109(38):15295-300. Epub 2012 Sep 4.
• The role of magnesium for geometry and charge in GTP hydrolysis, revealed by quantum mechanics/molecular mechanics simulations.
  Rudack T, Xia F, Schlitter J, Kötting C, Gerwert K.
  Biophys J. 2012 Jul 18;103(2):293-302. doi: 10.1016/j.bpj.2012.06.015. Epub 2012 Jul 17.
• The amyloid precursor protein (APP) family members are key players in S-adenosylmethionine formation by MAT2A and modify BACE1 and PSEN1 gene expression-relevance for Alzheimer's disease.
  Schrötter A, Pfeiffer K, El Magraoui F, Platta HW, Erdmann R, Meyer HE, Egensperger R, Marcus K, Müller T.
  Mol Cell Proteomics. 2012 Nov;11(11):1274-88. doi: 10.1074/mcp.M112.019364. Epub 2012 Aug 9.
• Biological responses to PDGF-AA versus PDGF-CC in renal fibroblasts.
  Seikrit C, Henkel C, van Roeyen CR, Bokemeyer D, Eitner F, Martin IV, Boor P, Knüchel R, Meyer HE, Müller-Newen G, Eriksson U, Floege J, Ostendorf T.
  Nephrol Dial Transplant. 2012 Dec 9. [Epub ahead of print]
• Quantitative relationship between silica exposure and lung cancer mortality in German uranium miners, 1946-2003.
  Sogl M, Taeger D, Pallapies D, Brüning T, Dufey F, Schnelzer M, Straif K, Walsh L, Kreuzer M.
  Br J Cancer. 2012 Sep 25;107(7):1188-94. doi: 10.1038/bjc.2012.374. Epub 2012 Aug 28.
• Site- and grade-specific diversity of LINE1 methylation pattern in gastroenteropancreatic neuroendocrine tumours.
  Stricker I, Tzivras D, Nambiar S, Wulf J, Liffers ST, Vogt M, Verdoodt B, Tannapfel A, Mirmohammadsadegh A.
  Anticancer Res. 2012 Sep;32(9):3699-706.
• Time-resolved Fourier transform infrared spectroscopy of the nucleotide-binding domain from the ATP-binding Cassette transporter MsbA: ATP hydrolysis is the rate-limiting step in the catalytic cycle.
  Syberg F, Suveyzdis Y, Kötting C, Gerwert K, Hofmann E.
  J Biol Chem. 2012 Jul 6;287(28):23923-31. doi: 10.1074/jbc.M112.359208. Epub 2012 May 16.
• Salinomycin induces autophagy in colon and breast cancer cells with concomitant generation of reactive oxygen species.
  Verdoodt B, Vogt M, Schmitz I, Liffers ST, Tannapfel A, Mirmohammadsadegh A.
  PLoS One. 2012;7(9):e44132. doi: 10.1371/journal.pone.0044132. Epub 2012 Sep 19.
• Identification of miRNA-103 in the cellular fraction of human peripheral blood as a potential biomarker for malignant mesothelioma--a pilot study.
  Weber DG, Johnen G, Bryk O, Jöckel KH, Brüning T.
  PLoS One. 2012;7(1):e30221. doi: 10.1371/journal.pone.0030221. Epub 2012 Jan 11.
• Detailed structure of the H2PO4(-)-guanosine diphosphate intermediate in Ras-GAP decoded from FTIR experiments by biomolecular simulations.
  Xia F, Rudack T, Cui Q, Kötting C, Gerwert K.
  J Am Chem Soc. 2012 Dec 12;134(49):20041-4. doi: 10.1021/ja310496e. Epub 2012 Dec 3.

Publications 2011

• Current strategies in the diagnosis of diffuse large B-cell lymphoma of the central nervous system.
  Baraniskin A, Deckert M, Schulte-Altedorneburg G, Schlegel U, Schroers R.
  Br J Haematol. 2012 Feb;156(4):421-32. doi: 10.1111/j.1365-2141.2011.08928.x. Epub 2011 Nov 11.
• Identification of microRNAs in the cerebrospinal fluid as marker for primary diffuse large B-cell lymphoma of the central nervous system.
  Baraniskin A, Kuhnhenn J, Schlegel U, Chan A, Deckert M, Gold R, Maghnouj A, Zöllner H, Reinacher-Schick A, Schmiegel W, Hahn SA, Schroers R.
  Blood. 2011 Mar 17;117(11):3140-6. Epub 2011 Jan 3.

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• mzIdentML: an open community-built standard format for the results of proteomics spectrum identification algorithms.
  Eisenacher M.
  Methods Mol Biol. 2011;696:161-77.
• Quality meets quantity - quality control, data standards and repositories.
  Eisenacher M, Schnabel A, Stephan C.
  Proteomics. 2011 Mar;11(6):1031-6. doi: 10.1002/pmic.201000441. Epub 2011 Feb 7.
• The specific vibrational modes of GTP in solution and bound to Ras: a detailed theoretical analysis by QM/MM simulations.
  Xia F, Rudack T, Kötting C, Schlitter J, Gerwert K.
  Phys Chem Chem Phys. 2011 Dec 28;13(48):21451-60. doi: 10.1039/c1cp22741f. Epub 2011 Nov 2.
• Proton transfer via a transient linear water-molecule chain in a membrane protein.
  Freier E, Wolf S, Gerwert K.
  Proc Natl Acad Sci U S A. 2011 Jul 12;108(28):11435-9. Epub 2011 Jun 27.

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• Translational proteomics in neurodegenerative diseases--16th HUPO BPP workshop September 5, 2011 Geneva, Switzerland.
  Gröttrup B, Böckmann M, Stephan C, Marcus K, Grinberg LT, Meyer HE, Park YM.
  Proteomics. 2012 Feb;12(3):356-8. doi: 10.1002/pmic.201290017.
• Performance of biomarkers SMRP, CA125, and CYFRA 21-1 as potential tumor markers for malignant mesothelioma and lung cancer in a cohort of workers formerly exposed to asbestos.
  Gube M, Taeger D, Weber DG, Pesch B, Brand P, Johnen G, Müller-Lux A, Gross IM, Wiethege T, Weber A, Raithel HJ, Kraus T, Brüning T.
  Arch Toxicol. 2011 Mar;85(3):185-92. doi: 10.1007/s00204-010-0580-2. Epub 2010 Aug 25.
• Inter-lab proteomics: data mining in collaborative projects on the basis of the HUPO brain proteome project's pilot studies.
  Hamacher M, Gröttrup B, Eisenacher M, Marcus K, Park YM, Meyer HE, Kwon KH, Stephan C.
  Methods Mol Biol. 2011;696:235-46.
• MicroRNA-148a is down-regulated in human pancreatic ductal adenocarcinomas and regulates cell survival by targeting CDC25B.
  Liffers ST, Munding JB, Vogt M, Kuhlmann JD, Verdoodt B, Nambiar S, Maghnouj A, Mirmohammadsadegh A, Hahn SA, Tannapfel A.
  Lab Invest. 2011 Oct;91(10):1472-9. doi: 10.1038/labinvest.2011.99. Epub 2011 Jun 27.
• Sense and nonsense of pathway analysis software in proteomics.
  Müller T, Schrötter A, Loosse C, Helling S, Stephan C, Ahrens M, Uszkoreit J, Eisenacher M, Meyer HE, Marcus K.
  J Proteome Res. 2011 Dec 2;10(12):5398-408. Epub 2011 Nov 14.
• The influence of 5-aminosalicylic acid on the progression of colorectal adenomas via the β-catenin signaling pathway.
  Munding J, Ziebarth W, Pox CP, Ladigan S, Reiser M, Hüppe D, Brand L, Schmiegel W, Tannapfel A, Reinacher-Schick AC.
  Carcinogenesis. 2012 Mar;33(3):637-43. Epub 2011 Dec 22.
• Exposure to diesel motor exhaust and lung cancer risk in a pooled analysis from case-control studies in Europe and Canada.
  Olsson AC, Gustavsson P, Kromhout H, Peters S, Vermeulen R, Brüske I, Pesch B, Siemiatycki J, Pintos J, Brüning T, Cassidy A, Wichmann HE, Consonni D, Landi MT, Caporaso N, Plato N, Merletti F, Mirabelli D, Richiardi L, Jöckel KH, Ahrens W, Pohlabeln H, Lissowska J, Szeszenia-Dabrowska N, Zaridze D, Stücker I, Benhamou S, Bencko V, Foretova L, Janout V, Rudnai P, Fabianova E, Dumitru RS, Gross IM, Kendzia B, Forastiere F, Bueno-de-Mesquita B, Brennan P, Boffetta P, Straif K.
  Am J Respir Crit Care Med. 2011 Apr 1;183(7):941-8. doi: 10.1164/rccm.201006-0940OC. Epub 2010 Oct 29.
• Enabling BioSharing - a report on the Annual Spring Workshop of the HUPO-PSI April 11-13, 2011, EMBL-Heidelberg, Germany.
  Orchard S, Albar JP, Deutsch EW, Eisenacher M, Vizcaíno JA, Hermjakob H.
  Proteomics. 2011 Nov;11(22):4284-90. doi: 10.1002/pmic.201190117.
• The role of haematuria in bladder cancer screening among men with former occupational exposure to aromatic amines.
  Pesch B, Nasterlack M, Eberle F, Bonberg N, Taeger D, Leng G, Feil G, Johnen G, Ickstadt K, Kluckert M, Wellhäusser H, Stenzl A, Brüning T; UroScreen Group.
  BJU Int. 2011 Aug;108(4):546-52. doi: 10.1111/j.1464-410X.2010.09971.x. Epub 2011 Jan 11.
• Beta-amyloid peptide variants in brains and cerebrospinal fluid from amyloid precursor protein (APP) transgenic mice: comparison with human Alzheimer amyloid.
  Schieb H, Kratzin H, Jahn O, Möbius W, Rabe S, Staufenbiel M, Wiltfang J, Klafki HW.
  J Biol Chem. 2011 Sep 30;286(39):33747-58. Epub 2011 Jul 27.
• The structure of active opsin as a basis for identification of GPCR agonists by dynamic homology modelling and virtual screening assays.
  Schneider M, Wolf S, Schlitter J, Gerwert K.
  FEBS Lett. 2011 Nov 16;585(22):3587-92. doi: 10.1016/j.febslet.2011.10.027. Epub 2011 Oct 21.
• Evidence for Elevated Cerebrospinal Fluid ERK1/2 Levels in Alzheimer Dementia.
  Spitzer P, Schieb H, Kamrowski-Kruck H, Otto M, Chiasserini D, Parnetti L, Herukka SK, Schuchhardt J, Wiltfang J, Klafki HW.
  Int J Alzheimers Dis. 2011;2011:739847. doi: 10.4061/2011/739847. Epub 2011 Nov 24.
• Structural basis of slow activation gating in the cardiac I Ks channel complex.
  Strutz-Seebohm N, Pusch M, Wolf S, Stoll R, Tapken D, Gerwert K, Attali B, Seebohm G.
  Cell Physiol Biochem. 2011;27(5):443-52. doi: 10.1159/000329965. Epub 2011 Jun 15.
• Association between lymph node silicosis and lung silicosis in 4,384 German uranium miners with lung cancer.
  Taeger D, Brüning T, Pesch B, Müller KM, Wiethege T, Johnen G, Wesch H, Dahmann D, Hoffmann W.
  Arch Environ Occup Health. 2011;66(1):34-42. doi: 10.1080/19338244.2010.506494.
• Inverse association of p16 INK4a and p14 ARF methylation of the CDKN2a locus in different Gleason scores of prostate cancer.
  Verdoodt B, Sommerer F, Palisaar RJ, Noldus J, Vogt M, Nambiar S, Tannapfel A, Mirmohammadsadegh A, Neid M.
  Prostate Cancer Prostatic Dis. 2011 Dec;14(4):295-301. doi: 10.1038/pcan.2011.45. Epub 2011 Sep 13.

Publications 2010

• Tyr39 of ran preserves the Ran.GTP gradient by inhibiting GTP hydrolysis.
  Brucker S, Gerwert K, Kötting C.
  J Mol Biol. 2010 Aug 6;401(1):1-6. doi: 10.1016/j.jmb.2010.05.068. Epub 2010 Jun 2.
• Fourier Transform Infrared (FTIR) Spectroscopy
  Gerwert K,Kötting C.
  Encyclopedia of Life Sciences (ELS). John Wiley & Sons, Ltd: Chichester DOI: 10.1002/9780470015902.a0003112.pub2
• Clinical experience with survivin as a biomarker for urothelial bladder cancer.
  Horstmann M, Bontrup H, Hennenlotter J, Taeger D, Weber A, Pesch B, Feil G, Patschan O, Johnen G, Stenzl A, Brüning T.
  World J Urol. 2010 Jun;28(3):399-404. doi: 10.1007/s00345-010-0538-2. Epub 2010 Mar 23.
• Label-free screening of drug-protein interactions by time-resolved Fourier transform infrared spectroscopic assays exemplified by Ras interactions.
  Kötting C, Suveyzdis Y, Bojja RS, Metzler-Nolte N, Gerwert K.
  Appl Spectrosc. 2010 Sep;64(9):967-72.

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• Histidine is involved in coupling proton uptake to electron transfer in photosynthetic proteins.
  Onidas D, Stachnik JM, Brucker S, Krätzig S, Gerwert K.
  Eur J Cell Biol. 2010 Dec;89(12):983-9. doi: 10.1016/j.ejcb.2010.08.007. Epub 2010 Oct 8.
• Cancer mortality in a surveillance cohort of German males formerly exposed to asbestos.
  Pesch B, Taeger D, Johnen G, Gross IM, Weber DG, Gube M, Müller-Lux A, Heinze E, Wiethege T, Neumann V, Tannapfel A, Raithel HJ, Brüning T, Kraus T.
  Int J Hyg Environ Health. 2010 Jan;213(1):44-51. doi: 10.1016/j.ijheh.2009.09.001. Epub 2009 Sep 26.
• Development of an enzyme-linked immunosorbent assay for the detection of human calretinin in plasma and serum of mesothelioma patients.
  Raiko I, Sander I, Weber DG, Raulf-Heimsoth M, Gillissen A, Kollmeier J, Scherpereel A, Brüning T, Johnen G.
  BMC Cancer. 2010 May 28;10:242. doi: 10.1186/1471-2407-10-242.
• A method to prevent cross contamination during 2-DE by β-amyloid peptides.
  Schieb H, Spitzer P, Riess V, Wiltfang J, Klafki HW.
  Proteomics. 2010 Oct;10(19):3539-43.
• Structural design, solid-phase synthesis and activity of membrane-anchored β-secretase inhibitors on Aβ generation from wild-type and Swedish-mutant APP.
  Schieb H, Weidlich S, Schlechtingen G, Linning P, Jennings G, Gruner M, Wiltfang J, Klafki HW, Knölker HJ.
  Chemistry. 2010 Dec 27;16(48):14412-23.
• Unravelling the mechanism of dual-specificity GAPs.
  Sot B, Kötting C, Deaconescu D, Suveyzdis Y, Gerwert K, Wittinghofer A.
  EMBO J. 2010 Apr 7;29(7):1205-14. Epub 2010 Feb 25.
• Assessment of mRNA and microRNA Stabilization in Peripheral Human Blood for Multicenter Studies and Biobanks.
  Weber DG, Casjens S, Rozynek P, Lehnert M, Zilch-Schöneweis S, Bryk O, Taeger D, Gomolka M, Kreuzer M, Otten H, Pesch B, Johnen G, Brüning T.
  Biomark Insights. 2010 Sep 22;5:95-102.
• Assessment of Confounding Factors Affecting the Tumor Markers SMRP, CA125, and CYFRA21-1 in Serum.
  Weber DG, Johnen G, Taeger D, Weber A, Gross IM, Pesch B, Kraus T, Brüning T, Gube M.
  Biomark Insights. 2010 Jan 28;5:1-8.
• Directional proton transfer in membrane proteins achieved through protonated protein-bound water molecules: a proton diode.
  Wolf S, Freier E, Potschies M, Hofmann E, Gerwert K.
  Angew Chem Int Ed Engl. 2010 Sep 10;49(38):6889-93. doi: 10.1002/anie.201001243.

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