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Journal Article (107)

  1. 1.
    Journal Article
    Meier, F.; Brunner, A.-D.; Koch, S.; Koch, H.; Lubeck, M.; Krause, M.; Goedecke, N.; Decker, J.; Kosinski, T.; Park, M. A. et al.; Bache, N.; Hoerning, O.; Cox, J.; Raether, O.; Mann, M.: Online Parallel Accumulation Serial Fragmentation (PASEF) with a Novel Trapped on Mobility Mass Spectrometer. Molecular and Cellular Proteomics 17 (12), UNSP TIR118.000900, pp. 2533 - 2545 (2018)
  2. 2.
    Journal Article
    Overmyer, K. A.; Tyanova, S.; Hebert, A. S.; Westphall, M. S.; Cox, J.; Coon, J. J.: Multiplexed proteome analysis with neutron-encoded stable isotope labeling in cells and mice. Nature Protocols 13 (2), pp. 293 - 306 (2018)
  3. 3.
    Journal Article
    Iglesias-Gato, D.; Thysell, E.; Tyanova, S.; Crnalic, S.; Santos, A.; Lima, T. S.; Geiger, T.; Cox, J.; Widmark, A.; Bergh, A. et al.; Mann, M.; Flores-Morales, A.; Wikstrom, P.: The Proteome of Prostate Cancer Bone Metastasis Reveals Heterogeneity with Prognostic Implications. Clinical Cancer Research 24 (21), pp. 5433 - 5444 (2018)
  4. 4.
    Journal Article
    Krahmer, N.; Najafi, B.; Schueder, F.; Quagliarini, F.; Steger, M.; Seitz, S.; Kasper, R.; Salinas, F.; Cox, J.; Uhlenhaut, N. H. et al.; Walther, T. C.; Jungmann, R.; Zeigerer, A.; Borner, G. H. H.; Mann, M.: Organellar Proteomics and Phospho-Proteomics Reveal Subcellular Reorganization in Diet-Induced Hepatic Steatosis. Developmental Cell 47 (2), pp. 205 - 221.e7 (2018)
  5. 5.
    Journal Article
    Meier, F.; Geyer, P. E.; Winter, S. V.; Cox, J.; Mann, M.: BoxCar acquisition method enables single-shot proteomics at a depth of 10,000 proteins in 100 minutes. Nature methods 15 (6), pp. 440 - 448 (2018)
  6. 6.
    Journal Article
    Shurtleffn, M. J.; Itzhak, D. N.; Hussmann, J. A.; Oakdale, N. T. S.; Costa, E. A.; Jonikas, M.; Weibezahn, J.; Popova, K. D.; Jan, C. H.; Sinitcyn, P. et al.; Vembar, S. S.; Hernandez, H.; Cox, J.; Burlingame, A. L.; Brodsky, J.; Frost, A.; Borner, G. H. H.; Weissman, J. S.: The ER membrane protein complex interacts cotranslationally to enable biogenesis of multipass membrane proteins. eLife 7, e37018 (2018)
  7. 7.
    Journal Article
    Sinitcyn, P.; Tiwary, S.; Rudolph, J.; Gutenbrunner, P.; Wichmann, C.; Yilmaz, S.; Hamzeiy, H.; Salinas, F.; Cox, J.: MaxQuant goes Linux. Nature methods 15 (6), p. 401 - 401 (2018)
  8. 8.
    Journal Article
    Virreira Winter, S.; Meier, F.; Wichmann, C.; Cox, J.; Mann, M.; Meissner, F.: EASI-tag enables accurate multiplexed and interference-free MS2-based proteome quantification. Nature methods 15 (7), pp. 527 - 530 (2018)
  9. 9.
    Journal Article
    Hosp, F.; Gutiérrez-Ángel, S.; Schaefer, M. H.; Cox, J.; Meissner, F.; Hipp, M. S.; Hartl, F. U.; Klein, R.; Dudanova, I.; Mann, M.: Spatiotemporal Proteomic Profiling of Huntington’s Disease Inclusions Reveals Widespread Loss of Protein Function. Cell Reports 21 (8), pp. 2291 - 2303 (2017)
  10. 10.
    Journal Article
    Hartl, M.; Fuessl, M.; Boersema, P. J.; Jost, J.-O.; Kramer, K.; Bakirbas, A.; Sindlinger, J.; Ploechinger, M.; Leister, D.; Uhrig, G. et al.; Moorhead, G. B. G.; Cox, J.; Salvucci, M. E.; Schwarzer, D.; Mann, M.; Mann, M.; Finkemeier, I.: Lysine acetylome profiling uncovers novel histone deacetylase substrate proteins in Arabidopsis. Molecular Systems Biology 13 (10), 949 (2017)
  11. 11.
    Journal Article
    Hamzeiy, H.; Cox, J.: What computational non-targeted mass spectrometry-based metabolomics can gain from shotgun proteomics. Current Opinion in Biotechnology 43, pp. 141 - 146 (2017)
  12. 12.
    Journal Article
    Hughes, M. E.; Abruzzi, K. C.; Allada, R.; Anafi, R.; Arpat, A. B.; Asher, G.; Baldi, P.; de Bekker, C.; Bell-Pedersen, D.; Blau, J. et al.; Brown, S.; Ceriani, M. F.; Chen, Z.; Chiu, J. C.; Cox, J.; Crowell, A. M.; DeBruyne, J. P.; Dijk, D.-J.; DiTacchio, L.; Doyle, F. J.; Duffield, G. E.; Dunlap, J. C.; Eckel-Mahan, K.; Esser, K. A.; FitzGerald, G. A.; Forger, D. B.; Francey, L. J.; Fu, Y.-H.; Gachon, F.; Gatfield, D.; de Goede, P.; Golden, S. S.; Green, C.; Harer, J.; Harmer, S.; Haspel, J.; Hastings, M. H.; Herzel, H.; Herzog, E. D.; Hoffmann, C.; Hong, C.; Hughey, J. J.; Hurley, J. M.; de la Iglesia, H. O.; Johnson, C.; Kay, S. A.; Koike, N.; Kornacker, K.; Kramer, A.; Lamia, K.; Leise, T.; Lewis, S. A.; Li, J.; Li, X.; Liu, A. C.; Loros, J. J.; Martino, T. A.; Menet, J. S.; Merrow, M.; Millar, A. J.; Mockler, T.; Naef, F.; Nagoshi, E.; Nitabach, M. N.; Olmedo, M.; Nusinow, D. A.; Ptacek, L. J.; Rand, D.; Reddy, A. B.; Robles, M. S.; Roenneberg, T.; Rosbash, M.; Ruben, M. D.; Rund, S. S. C.; Sancar, A.; Sassone-Corsi, P.; Sehgal, A.; Sherrill-Mix, S.; Skene, D. J.; Storch, K.-F.; Takahashi, J. S.; Ueda, H. R.; Wang, H.; Weitz, C.; Westermark, P. O.; Wijnen, H.; Xu, Y.; Wu, G.; Yoo, S.-H.; Young, M.; Zhang, E. E.; Zielinski, T.; Hogenesch, J. B.: Guidelines for Genome-Scale Analysis of Biological Rhythms. Journal of Biological Rhythms 32 (5), pp. 380 - 393 (2017)
  13. 13.
    Journal Article
    Itzhak, D. N.; Davies, C.; Tyanova, S.; Mishra, A.; Williamson, J.; Antrobus, R.; Cox, J.; Weekes, M. P.; Borner, G. H. H.: A Mass Spectrometry-Based Approach for Mapping Protein Subcellular Localization Reveals the Spatial Proteome of Mouse Primary Neurons. Cell Reports 20 (11), pp. 2706 - 2718 (2017)
  14. 14.
    Journal Article
    Bassani-Sternberg, M.; Braunlein, E.; Klar, R.; Engleitner, T.; Sinitcyn, P.; Audehm, S.; Straub, M.; Weber, J.; Slotta-Huspenina, J.; Specht, K. et al.; Martignoni, M. E.; Werner, A.; Hein, R.; Busch, D. H.; Peschel, C.; Rad, R.; Cox, J.; Mann, M.; Krackhardt, A. M.: Direct identification of clinically relevant neoepitopes presented on native human melanoma tissue by mass spectrometry. Nature Communications 7, 13404 (2016)
  15. 15.
    Journal Article
    Sacco, F.; Humphrey, S. J.; Cox, J.; Mischnik, M.; Schulte, A.; Klabunde, T.; Schaefer, M.; Mann, M.: Glucose-regulated and drug-perturbed phosphoproteome reveals molecular mechanisms controlling insulin secretion. Nature Communications 7, 13250 (2016)
  16. 16.
    Journal Article
    Chen, Z. A.; Fischer, L.; Cox, J.; Rappsilber, J.: Quantitative Cross-linking/Mass Spectrometry Using Isotope-labeled Cross-linkers and MaxQuant. Molecular and Cellular Proteomics 15 (8), pp. 2769 - 2778 (2016)
  17. 17.
    Journal Article
    Itzhak, D. N.; Tyanova, S.; Cox, J.; Borner, G. H. H.: Global, quantitative and dynamic mapping of protein subcellular localization. eLife 5, e16950 (2016)
  18. 18.
    Journal Article
    Grassl, N.; Kulak, N. A.; Pichler, G.; Geyer, P. E.; Jung, J.; Schubert, S.; Sinitcyn, P.; Cox, J.; Mann, M.: Ultra-deep and quantitative saliva proteome reveals dynamics of the oral microbiome. GENOME MEDICINE 8, 44 (2016)
  19. 19.
    Journal Article
    Iglesias-Gato, D.; Wikström, P.; Tyanova, S.; Lavallee, C.; Thysell, E.; Carlsson, J.; Hägglöf, C.; Cox, J.; Andren, O.; Stattin, P. et al.; Egevad, L.; Widmark, A.; Bjartell, A.; Collins, C. C.; Bergh, A.; Geiger, T.; Mann, M.; Flores-Morales, A.: The Proteome of Primary Prostate Cancer. EUROPEAN UROLOGY 69 (5), pp. 942 - 952 (2016)
  20. 20.
    Journal Article
    Mischnik, M.; Sacco, F.; Cox, J.; Schneider, H.-C.; Schäfer, M.; Hendlich, M.; Crowther, D.; Mann, M.; Klabunde, T.: IKAP: A heuristic framework for inference of kinase activities from Phosphoproteomics data. BIOINFORMATICS 32 (3), pp. 424 - 431 (2016)
 
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