Publications of J. Cox

Cox, J.; Mann, M.: MaxQuant enables high peptide identification rates, individualized p.p.b.-range mass accuracies and proteome-wide protein quantification. Nature Biotechnology 26 (12), pp. 1367 - 1372 (2008)

Zanivan, S.; Gnad, F.; Wickström, S. A.; Geiger, T.; Macek, B.; Cox, J.; Fässler, R.; Mann, M.: Solid Tumor Proteome and Phosphoproteome Analysis by High Resolution Mass Spectrometry. Journal of Proteome Research 7 (12), pp. 5314 - 5326 (2008)

Schimmel, J.; Larsen, K. M.; Matic, I.; van Hagen, M.; Cox, J.; Mann, M.; Andersen, J. S.; Vertegaal, A. C. O.: The Ubiquitin-Proteasome System Is a Key Component of the SUMO-2/3 Cycle. Molecular & Cellular Proteomics 7 (11), pp. 2107 - 2122 (2008)

de Godoy, L. M. F.; Olsen, J. V.; Cox, J.; Nielsen, M. L.; Hubner, N. C.; Fröhlich, F.; Walther, T. C.; Mann, M.: Comprehensive mass-spectrometry-based proteome quantification of haploid versus diploid yeast. Nature 455 (7217), pp. 1251 - 1254 (2008)

Bonaldi, T.; Straub, T.; Cox, J.; Kumar, C.; Becker, P. B.; Mann, M.: Combined use of RNAi and quantitative proteomics to study gene function in Drosophila. Molecular Cell 31 (5), pp. 762 - 772 (2008)

Waanders, L. F.; Almeida, R.; Prosser, S.; Cox, J.; Eikel, D.; Allen, M. H.; Schultz, G. A.; Mann, M.: A novel chromatographic method allows on-line reanalysis of the proteome. Molecular & Cellular Proteomics 7 (8), pp. 1452 - 1459 (2008)

Nielsen, M. L.; Vermeulen, M.; Bonaldi, T.; Cox, J.; Moroder, L.; Mann, M.: Iodoacetamide-induced artifact mimics ubiquitination in mass spectrometry. Nature Methods 5 (6), pp. 459 - 460 (2008)

Olsen, J. V.; Butter, F.; Hubner, N.; Cox, J.; Hyman, A.; Mann, M.: SILAC based quantitative proteomics to determine specific protein-protein and protein-DNA interactions. FEBS Journal 275 (Suppl. Suppl. 1), p. 29 - 29 (2008)

Graumann, J.; Hubner, N. C.; Kim, J.B.; Ko, K.; Moser, M.; Kumar, C.; Cox, J.; Schöler, H.; Mann, M.: SILAC-labeling and proteome quantitation of mouse embryonic stem cells to a depth of 5111 proteins. Special Issue: 8th International Symposium On Mass Spectrometry In The Life Sciences, pp. 672 - 683 (2008)

Graumann, J.; Hubner, N. C.; Kim, J. B.; Ko, K.; Moser, M.; Kumar, C.; Cox, J.; Schöler, H.; Mann, M.: Stable Isotope Labeling by Amino Acids in Cell Culture (SILAC) and proteome quantitation of mouse embryonic stem cells to a depth of 5,111 proteins. Molecular & Cellular Proteomics 7 (4), pp. 672 - 683 (2008)

Lu, A.; Waanders, L. F.; Almeida, R.; Li, G. Q.; Allen, M.; Cox, J.; Olsen, J. V.; Bonaldi, T.; Mann, M.: Nanoelectrospray peptide mapping revisited: Composite survey spectra allow high dynamic range protein characterization without LCMS on an orbitrap mass spectrometer. International Journal of Mass Spectrometry 268 (2-3), pp. 158 - 167 (2007)

Cox, J.; Mann, M.: Is proteomics the new genomics? Cell 130 (3), pp. 395 - 398 (2007)

de Godoy, L.; Cox, J.; Olsen, J.; Bonaldi, T.; Kumar, C.; Hubner, N.; Macek, B.; Mann, M.: Expression proteomics at last; the determination of Proteome wide protein abundance changes by SILAC and high resolution mass Spectrometry. Molecular & Cellular Proteomics 6 (8 (Supplement)), 1.1, p. 18 - 18 (2007)

Shi, R.; Kumar, C.; Zougman, A.; Zhang, Y.; Podtelejnikov, A.; Cox, J.; Wisniewski, J. R.; Mann, M.: Analysis of the mouse liver proteome using advanced mass spectrometry. Journal of Proteome Research 6 (8), pp. 2963 - 2972 (2007)

Smialowski, P.; Martin-Galiano, A. J.; Cox, J.; Frishman, D.: Predicting experimental properties of proteins from sequence by machine learning techniques. Current Protein & Peptide Science 8 (2), pp. 121 - 133 (2007)

Gnad, F.; Ren, S. B.; Cox, J.; Olsen, J. V.; Macek, B.; Oroshi, M.; Mann, M.: PHOSIDA (phosphorylation site database): management, structural and evolutionary investigation, and prediction of phosphosites. Genome Biology 8 (11), R250 (2007)

Pfleghaar, K.; Heubes, S.; Cox, J.; Stemmann, O.; Speicher, M. R.: Securin is not required for chromosomal stability in human cells. PLoS Biology 3 (12), e416, pp. 2127 - 2134 (2005)

Pfleghaar, K.; Heubes, S.; Cox, J.; Stemmann, O.; Speicher, M. R.: Securin Is Not Required for Chromosomal Stability in Human Cells. PLoS Biology 3 (12), e416 (2005)

Tyanova, S.; Cox, J.: Perseus: A Bioinformatics Platform for Integrative Analysis of Proteomics Data in Cancer Research. In: Cancer Systems Biology, pp. 133 - 148 (Ed. von Stechow, L.). Humana Press, New York, NY (2018)

Tyanova, S.; Mann, M.; Cox, J.: MaxQuant for In-Depth Analysis of Large SILAC Datasets. In: Methods in Molecular Biology; Vol. 1188, pp. 351 - 364. HUMANA PRESS INC, 999 RIVERVIEW DR, STE 208, TOTOWA, NJ 07512-1165 USA (2014)