| MaxQuant enables high peptide identification rates, individualized ppb-range mass accuracies and proteome-wide protein quantification J Cox, M Mann Nature biotechnology 26 (12), 1367, 2008 | 7290 | 2008 |
| Andromeda: a peptide search engine integrated into the MaxQuant environment J Cox, N Neuhauser, A Michalski, RA Scheltema, JV Olsen, M Mann Journal of proteome research 10 (4), 1794-1805, 2011 | 2855 | 2011 |
| Accurate proteome-wide label-free quantification by delayed normalization and maximal peptide ratio extraction, termed MaxLFQ J Cox, MY Hein, CA Luber, I Paron, N Nagaraj, M Mann Molecular & cellular proteomics 13 (9), 2513-2526, 2014 | 1680 | 2014 |
| The Perseus computational platform for comprehensive analysis of (prote) omics data S Tyanova, T Temu, P Sinitcyn, A Carlson, MY Hein, T Geiger, M Mann, ... Nature methods 13 (9), 731, 2016 | 1435 | 2016 |
| Quantitative phosphoproteomics reveals widespread full phosphorylation site occupancy during mitosis JV Olsen, M Vermeulen, A Santamaria, C Kumar, ML Miller, LJ Jensen, ... Sci. Signal. 3 (104), ra3-ra3, 2010 | 1227 | 2010 |
| Comprehensive mass-spectrometry-based proteome quantification of haploid versus diploid yeast LMF De Godoy, JV Olsen, J Cox, ML Nielsen, NC Hubner, F Fröhlich, ... Nature 455 (7217), 1251, 2008 | 921 | 2008 |
| Deep proteome and transcriptome mapping of a human cancer cell line N Nagaraj, JR Wisniewski, T Geiger, J Cox, M Kircher, J Kelso, S Pääbo, ... Molecular systems biology 7 (1), 2011 | 842 | 2011 |
| Mass spectrometry-based proteomics using Q Exactive, a high-performance benchtop quadrupole Orbitrap mass spectrometer A Michalski, E Damoc, JP Hauschild, O Lange, A Wieghaus, A Makarov, ... Molecular & Cellular Proteomics 10 (9), M111. 011015, 2011 | 727 | 2011 |
| A practical guide to the MaxQuant computational platform for SILAC-based quantitative proteomics J Cox, I Matic, M Hilger, N Nagaraj, M Selbach, JV Olsen, M Mann Nature protocols 4 (5), 698, 2009 | 706 | 2009 |
| A proteome-wide, quantitative survey of in vivo ubiquitylation sites reveals widespread regulatory roles SA Wagner, P Beli, BT Weinert, ML Nielsen, J Cox, M Mann, C Choudhary Molecular & Cellular Proteomics 10 (10), M111. 013284, 2011 | 674 | 2011 |
| Quantitative, high-resolution proteomics for data-driven systems biology J Cox, M Mann Annual review of biochemistry 80, 273-299, 2011 | 621 | 2011 |
| Comparative proteomic analysis of eleven common cell lines reveals ubiquitous but varying expression of most proteins T Geiger, A Wehner, C Schaab, J Cox, M Mann Molecular & Cellular Proteomics 11 (3), M111. 014050, 2012 | 591 | 2012 |
| The MaxQuant computational platform for mass spectrometry-based shotgun proteomics S Tyanova, T Temu, J Cox Nature protocols 11 (12), 2301, 2016 | 590 | 2016 |
| A human interactome in three quantitative dimensions organized by stoichiometries and abundances MY Hein, NC Hubner, I Poser, J Cox, N Nagaraj, Y Toyoda, IA Gak, ... Cell 163 (3), 712-723, 2015 | 536 | 2015 |
| More than 100,000 detectable peptide species elute in single shotgun proteomics runs but the majority is inaccessible to data-dependent LC− MS/MS A Michalski, J Cox, M Mann Journal of proteome research 10 (4), 1785-1793, 2011 | 524 | 2011 |
| Super-SILAC mix for quantitative proteomics of human tumor tissue T Geiger, J Cox, P Ostasiewicz, JR Wisniewski, M Mann Nature methods 7 (5), 383, 2010 | 522 | 2010 |
| Ultradeep human phosphoproteome reveals a distinct regulatory nature of Tyr and Ser/Thr-based signaling K Sharma, RCJ D’Souza, S Tyanova, C Schaab, JR Wiśniewski, J Cox, ... Cell reports 8 (5), 1583-1594, 2014 | 493 | 2014 |
| PHOSIDA (phosphorylation site database): management, structural and evolutionary investigation, and prediction of phosphosites F Gnad, S Ren, J Cox, JV Olsen, B Macek, M Oroshi, M Mann Genome biology 8 (11), R250, 2007 | 477 | 2007 |
| Quantitative proteomics reveals subset-specific viral recognition in dendritic cells CA Luber, J Cox, H Lauterbach, B Fancke, M Selbach, J Tschopp, S Akira, ... Immunity 32 (2), 279-289, 2010 | 465 | 2010 |
| Is proteomics the new genomics? J Cox, M Mann Cell 130 (3), 395-398, 2007 | 448 | 2007 |
