Christian Koehler

• Koehler, Christian & Thiede, Bernd (2019). Predominant cleavage of proteins N-terminal to serines and threonines using scandium(III) triflate. Journal of Biological Inorganic Chemistry.  ISSN 0949-8257.  25, s 61- 66 . doi: 10.1007/s00775-019-01733-7 Fulltekst i vitenarkiv.
• Bollineni, Ravi Chand; Koehler, Christian; Gislefoss, Randi Elin; Anonsen, Jan Haug & Thiede, Bernd (2018). Large-scale intact glycopeptide identification by Mascot database search. Scientific Reports.  ISSN 2045-2322.  8 . doi: 10.1038/s41598-018-20331-2 Fulltekst i vitenarkiv.
• Dugarte, Maria Eugenia Chollet; Andersen, Elisabeth; Skarpen, Ellen; Myklebust, Christiane Filion; Koehler, Christian; Morth, Jens Preben; Chuansumrit, Ampaiwan; Pinotti, Mirko; Bernardi, Francesco; Thiede, Bernd; Sandset, Per Morten & Skretting, Grethe (2018). Factor VII deficiency: Unveiling the cellular and molecular mechanisms underlying Three model alterations of the enzyme catalytic domain. Biochimica et Biophysica Acta - Molecular Basis of Disease.  ISSN 0925-4439.  1864(3), s 660- 667 . doi: 10.1016/j.bbadis.2017.12.016
• Tran, Trung; Bollineni, Ravi Chand; Koehler, Christian & Thiede, Bernd (2018). Absolute two-point quantification of proteins using dimethylated proteotypic peptides. The Analyst.  ISSN 0003-2654.  143(18), s 4359- 4365 . doi: 10.1039/c8an01081a
• Koehler, Christian; Bollineni, Ravi Chand & Thiede, Bernd (2017). Application of the half decimal place rule to increase the peptide identification rate. Rapid Communications in Mass Spectrometry.  ISSN 0951-4198.  31(2), s 227- 233 . doi: 10.1002/rcm.7780 Fulltekst i vitenarkiv.
• Tran, Trung; Bollineni, Ravi Chand; Strozynski, Margarita Anna; Koehler, Christian & Thiede, Bernd (2017). Identification of Alternative Splice Variants Using Unique Tryptic Peptide Sequences for Database Searches. Journal of Proteome Research.  ISSN 1535-3893.  16(7), s 2571- 2578 . doi: 10.1021/acs.jproteome.7b00126
• Arntzen, Magnus Øverlie; Boddie, Paul; Frick, Rahel; Koehler, Christian & Thiede, Bernd (2015). Consolidation of proteomics data in the Cancer proteomics database. Proteomics.  ISSN 1615-9853.  15(22), s 3765- 3771 . doi: 10.1002/pmic.201500144
• Chymkowitch, Pierre; Nguéa P, Aurélie; Aanes, Håvard; Koehler, Christian; Thiede, Bernd; Lorenz, Susanne; Meza, Leonardo Zepeda; Klungland, Arne & Enserink, Jorrit (2015). Sumoylation of Rap1 mediates the recruitment of TFIID to promote transcription of ribosomal protein genes. Genome Research.  ISSN 1088-9051.  25(6), s 897- 906 . doi: 10.1101/gr.185793.114
• Koehler, Christian; Arntzen, Magnus Øverlie & Thiede, Bernd (2015). The impact of carbon-13 and deuterium on relative quantification of proteins using stable isotope diethyl labeling. Rapid Communications in Mass Spectrometry.  ISSN 0951-4198.  29(9), s 830- 836 . doi: 10.1002/rcm.7170
• Øverbye, Anders; Skotland, Tore; Koehler, Christian; Thiede, Bernd; Seierstad, Therese; Berge, Viktor; Sandvig, Kirsten & Llorente, Alicia (2015). Identification of prostate cancer biomarkers in urinary exosomes. OncoTarget.  ISSN 1949-2553.  6(30), s 30357- 30376 . doi: 10.18632/oncotarget.4851
• Koehler, Christian; Arntzen, Magnus; De Souza, Gustavo Antonio & Thiede, Bernd (2013). An Approach for Triplex-Isobaric Peptide Termini Labeling (Triplex-IPTL). Analytical Chemistry.  ISSN 0003-2700.  85(4), s 2478- 2485 . doi: 10.1021/ac3035508
• Størvold, Gro Leite; Landskron, Johannes; Strozynski, Margarita Anna; Arntzen, Magnus; Koehler, Christian; Kalland, Maria Elisabeth; Tasken, Kjetil & Thiede, Bernd (2013). Quantitative profiling of tyrosine phosphorylation revealed changes in the activity of the T cell receptor signaling pathway upon cisplatin-induced apoptosis. Journal of Proteomics.  ISSN 1874-3919.  91, s 344- 357 . doi: 10.1016/j.jprot.2013.07.019
• Thiede, Bernd; Koehler, Christian; Strozynski, Margarita Anna; Treumann, Achim; Stein, Robert; Zimny-Arndt, Ursula; Schmid, Monika & Jungblut, Peter R. (2013). High Resolution Quantitative Proteomics of HeLa Cells Protein Species Using Stable Isotope Labeling with Amino Acids in Cell Culture(SILAC), Two-Dimensional Gel Electrophoresis(2DE) and Nano-Liquid Chromatograpohy Coupled to an LTQ-OrbitrapMass Spectrometer. Molecular & Cellular Proteomics.  ISSN 1535-9476.  12(2), s 529- 538 . doi: 10.1074/mcp.M112.019372
• Koehler, Christian; Arntzen, Magnus; Treumann, Achim & Thiede, Bernd (2012). A Rapid Approach for Isobaric Peptide Termini Labeling. Methods in molecular biology.  ISSN 1064-3745.  893, s 129- 141 . doi: 10.1007/978-1-61779-885-6_10
• Koehler, Christian; Arntzen, Magnus; Treumann, Achim & Thiede, Bernd (2012). Comparison of data analysis parameters and MS/MS fragmentation techniques for quantitative proteome analysis using isobaric peptide termini labeling (IPTL). Analytical and Bioanalytical Chemistry.  ISSN 1618-2642.  404(4), s 1103- 1114 . doi: 10.1007/s00216-012-5949-z
• Arntzen, Magnus; Koehler, Christian; Barsnes, Harald; Berven, Frode; Treumann, Achim & Thiede, Bernd (2011). IsobariQ: Software for Isobaric Quantitative Proteomics using IPTL, iTRAQ, and TMT. Journal of Proteome Research.  ISSN 1535-3893.  10(2), s 913- 920 . doi: 10.1021/pr1009977
• Arntzen, Magnus; Koehler, Christian; Treumann, Achim & Thiede, Bernd (2011). Quantitative proteome analysis using isobaric peptide termini labeling (IPTL). Methods in molecular biology.  ISSN 1064-3745.  753, s 65- 76 . doi: 10.1007/978-1-61779-148-2_5
• Koehler, Christian; Arntzen, Magnus; Strozynski, Margarita Anna; Treumann, Achim & Thiede, Bernd (2011). Isobaric Peptide Termini Labeling Utilizing Site-Specific N-Terminal Succinylation. Analytical Chemistry.  ISSN 0003-2700.  83(12), s 4775- 4781 . doi: 10.1021/ac200229w
• Kozielski, Frank; Riaz, Tahira; DeBonis, Salvatore; Koehler, Christian; Panse, Isabel; Strozynski, Margarita Anna; Donaldson, Ian Matthew; Thiede, Bernd & Kroening, Mario (2011). Proteome analysis of microtubule-associated proteins and their interacting partners from mammalian brain. Amino Acids.  ISSN 0939-4451.  41(2), s 363- 385 . doi: 10.1007/s00726-010-0649-5
• Schmidt, Frank; Dahlmann, Burkhardt; Hustoft, Hanne Kolsrud; Koehler, Christian; Strozynski, Margarita Anna; Kloss, Alexander; Zimny-Arndt, Ursula; Jungblut, Peter R. & Thiede, Bernd (2011). Quantitative proteome analysis of the 20S proteasome of apoptotic Jurkat T cells. Amino Acids.  ISSN 0939-4451.  41(2), s 351- 361 . doi: 10.1007/s00726-010-0575-6
• Dørum, Siri; Arntzen, Magnus; Qiao, Shuo Wang; Holm, Anders; Koehler, Christian; Thiede, Bernd; Sollid, Ludvig Magne & Fleckenstein, Burkhard (2010). The Preferred Substrates for Transglutaminase 2 in a Complex Wheat Gluten Digest Are Peptide Fragments Harboring Celiac Disease T-Cell Epitopes. PLOS ONE.  ISSN 1932-6203.  5(11) . doi: 10.1371/journal.pone.0014056 Vis sammendrag

  Conclusion: TG2 as well as gastrointestinal proteolysis play important roles in the selection of gluten T-cell epitopes in celiac disease.

• Kozielski, Frank; Riaz, Tahira; DeBonis, Salvatore; Koehler, Christian; Kröning, Mario; Panse, Isabel; Strozynski, Margarita Anna; Donaldson, Ian M & Thiede, Bernd (2010). Proteome analysis of microtubule-associated proteins and their interacting partners from mammalian brain. Amino Acids.  ISSN 0939-4451. . doi: 10.1007/s00726-010-0649-5
• De Souza, Gustavo; Fortuin, Suereta; Aguilar, Diana; Pando, Rogelio Hernandez; McEvoy, Christopher R.E.; van Helden, Paul D.; Koehler, Christian J; Thiede, Bernd; Warren, Robin M & Wiker, Harald G (2010). Using a Label-free Proteomics Method to Identify Differentially Abundant Proteins in Closely Related Hypo- and Hypervirulent Clinical Mycobacterium tuberculosis Beijing Isolates. Molecular & Cellular Proteomics.  ISSN 1535-9476.  9(11), s 2414- 2423 . doi: 10.1074/mcp.M900422-MCP200 Vis sammendrag

  While the genome of the M. tuberculosis H37Rv lab strain has been available for over 10 years, it is only recently that genomic information from clinical isolates has been used to generate the hypothesis of virulence differences between different strains. In addition, the relationship between strains displaying differing virulence in an epidemiological setting and their behavior in animal models has received little attention. The potential causes for variation in virulence between strains, as determined by differential protein expression, have similarly been a neglected area of investigation. In this study, we used a label-free quantitative proteomic approach to estimate differences in protein abundance between two closely related Beijing genotypes that have been shown to be hyper- and hypo-virulent on the basis of both epidemiological and mouse model studies. We were able to identify a total of 1670 proteins from both samples, and protein abundance calculations revealed that 48 proteins were over-represented in the hypo-virulent isolate, while 53 were over-represented in the hyper-virulent. Functional classification of these results shows that molecules of cell wall organization and DNA transcription regulatory proteins may have a critical influence in defining the level of virulence. The reduction in the presence of ESAT-6, other Esx-like proteins, and fbpD (MPT51) in the hyper-virulent strain indicates that changes in the repertoire of highly immunogenic proteins can be a defensive process undertaken by the virulent cell. In addition, most of the previously well characterized gene targets related to virulence were found to be similarly expressed in our model. Our data supports the use of proteomics as a complementary tool for genomic comparisons in order to understand the biology of M. tuberculosis virulence.

• Saunders, Threrese Solstad; Bjørgo, Elisa; Koehler, Christian; Strozynski, Margarita Anna; Torgersen, Knut Martin; Tasken, Kjetil & Thiede, Bernd (2010). Quantitative proteome analysis of detergent-resistant membranes identifies the differential regulation of protein kinase C isoforms in apoptotic T cells. Proteomics.  ISSN 1615-9853.  10(15), s 2758- 2768 . doi: 10.1002/pmic.201000164
• Schmidt, Frank; Dahlmann, Burkhardt; Hustoft, Hanne Kolsrud; Koehler, Christian; Strozynski, Margarita Anna; Klof, Alexander; Zimmy-Arndt, Ursula; Jungblut, Peter R. & Thiede, Bernd (2010). Quantitative proteome analysis of the 20S proteasome of apoptotic Jurkat T cells. Amino Acids.  ISSN 0939-4451. . doi: 10.1007/s00726-010-0575-6
• Tomazella, Gisele Guiqardi; daSilva, Idalete; Thomé, Carolina H.; Greene, Lewis J; Koehler, Christian J; Thiede, Bernd; Wiker, Harald G & De Souza, Gustavo (2010). Analysis of detergent-insoluble and whole cell lysate fractions of resting neutrophils using high-resolution mass spectrometry. Journal of Proteome Research.  ISSN 1535-3893.  9(4), s 2030- 2036 . doi: 10.1021/pr1000253 Vis sammendrag

  Neutrophilic granulocytes play a major role in the initiation and resolution of the inflammatory response, and demonstrate significant transcriptional and translational activity. Although much was known about neutrophils prior to the introduction of proteomics, the use of MS-based methodologies has provided an unprecedented tool to confirm and extend previous findings. In the present study, we performed a Gel-LC-MS/MS analysis of neutrophil detergent insoluble and whole cell lysate fractions of resting neutrophils. We achieved a set of identifications through the use of high-resolution mass spectrometry and validation of its data. We identified a total of 1249 proteins with a wide range of intensities from both detergent-insoluble and whole cell lysate fractions, allowing a mapping of proteins such as those involved in intracellular transport (Rab and Sec family proteins) and cell signaling (S100 proteins). These results represent the most comprehensive proteomic characterization of resting human neutrophils to date, and provide important information relevant for further studies of the immune system in health and disease. The methods applied here can be employed to help us understand how neutrophils respond to various physiologic and pathophysiologic conditions and could be extended to protein quantitation after cell activation.

• de Souza, GA; De Souza, Gustavo; Søfteland, Tina; Softeland, T; Koehler, Christian J; Thiede, Bernd & Wiker, Harald G (2009). Validating divergent ORF annotation of the Mycobacterium leprae genome through a full translation dataset and peptide identification by tandem mass spectrometry. Proteomics.  ISSN 1615-9853.  9(12), s 3233- 3243 . doi: 10.1002/pmic.200800955 Vis sammendrag

  Mycobacterium leprae has undergone extensive degenerative evolution, with a large number of pseudogenes. It is also the organism with the greatest divergence between gene annotations from independent institutes. Therefore, M. leprae is a good model to verify the currently predicted coding sequence regions between different annotations, to identify new ones and to investigate the expression of pseudogenes. We submitted a total extract of the bacteria isolated from Armadillo to Gel-LC-MS/MS using a LTQ-Orbitrap mass spectrometer. Spectra were analyzed using the Leproma (1614 genes and 1133 pseudogenes) and TIGR (5446 genes) databases and a database containing the full genome translation. We identified a total of 1046 proteins, including 5 proteins encoded by previously predicted pseudogenes, which upon closer inspection appeared to be proper genes. Only 11 of the additional annotations by TIGR were verified. We also identified 6 tryptic peptides from 5 proteins from regions not considered to be coding sequences, plus peptides from 2 unannotated gene candidates that overlap with other genes. Our data show that the Leproma annotation of M. leprae is quite accurate, and there were no peptide observations corresponding to true pseudogenes, except for a new gene candidate, overlapping with an essential enolase on the complementary strand.

• Koehler, Christian; Strozynski, Margarita Anna; Kozielski, F; Treumann, A & Thiede, Bernd (2009). Isobaric Peptide Termini Labeling for MS/MS-Based Quantitative Proteomics. Journal of Proteome Research.  ISSN 1535-3893.  8(9), s 4333- 4341 . doi: 10.1021/pr900425n

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• Bollineni, Ravi Chand; Koehler, Christian; Gislefoss, Randi Elin; Anonsen, Jan Haug & Thiede, Bernd (2018). Author Correction: Large-scale intact glycopeptide identification by Mascot database search. Scientific Reports.  ISSN 2045-2322.  8 . doi: 10.1038/s41598-018-28147-w
• Thiede, Bernd; Koehler, Christian; Strozynski, Margarita Anna; Treumann, A; Stein, Robert; Zimny-Amdt, Ursula; Schmid, Monika & Jungblut, Peter R. (2012). Protein species high resolution quantitative proteomics of HeLa cells using SILAC-2-DE-nanoLC/LTQ-Orbitrap mass spectrometry. Molecular & Cellular Proteomics.  ISSN 1535-9476. . doi: 10.1074/mcp.M112.019372
• Arntzen, Magnus; Koehler, Christian; Barsnes, Harald; Berven, Frode; Treumann, Achim & Thiede, Bernd (2011). IsobariQ: Software for isobaric quantitative proteomics using IPTL, iTRAQ and TMT.
• De Souza, Gustavo; Fortuin, Suereta; McEvoy, Christopher R; Pando, Rogelio Hernandez; Koehler, Christian J; Thiede, Bernd; Warren, Robin M & Wiker, Harald G (2009). A label-free method identified differentially abundant proteins in related M.tuberculosis Beijing strains.

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