| DTASelect and Contrast: tools for assembling and comparing protein identifications from shotgun proteomics DL Tabb, WH McDonald, JR Yates Journal of proteome research 1 (1), 21-26, 2002 | 1536 | 2002 |
| Role of Rpn11 Metalloprotease in Deubiquitination and Degradation by the 26S Proteasome R Verma, L Aravind, R Oania, WH McDonald, JR Yates III, EV Koonin, ... Science 298 (5593), 611-615, 2002 | 1298 | 2002 |
| Phytophthora genome sequences uncover evolutionary origins and mechanisms of pathogenesis BM Tyler, S Tripathy, X Zhang, P Dehal, RHY Jiang, A Aerts, ... Science 313 (5791), 1261-1266, 2006 | 1198 | 2006 |
| Sirt3-mediated deacetylation of evolutionarily conserved lysine 122 regulates MnSOD activity in response to stress R Tao, MC Coleman, JD Pennington, O Ozden, SH Park, H Jiang, HS Kim, ... Molecular cell 40 (6), 893-904, 2010 | 928 | 2010 |
| Shotgun identification of protein modifications from protein complexes and lens tissue MJ MacCoss, WH McDonald, A Saraf, R Sadygov, JM Clark, JJ Tasto, ... Proceedings of the National Academy of Sciences 99 (12), 7900-7905, 2002 | 719 | 2002 |
| Mus81-Eme1 are essential components of a Holliday junction resolvase MN Boddy, PHL Gaillard, WH McDonald, P Shanahan, JR Yates, ... Cell 107 (4), 537-548, 2001 | 636 | 2001 |
| Cln3 activates G1-specific transcription via phosphorylation of the SBF bound repressor Whi5 RAM De Bruin, WH McDonald, TI Kalashnikova, J Yates, C Wittenberg Cell 117 (7), 887-898, 2004 | 487 | 2004 |
| Shotgun proteomics and biomarker discovery WH McDonald, JR Yates Iii Disease markers 18 (2), 99-105, 2002 | 402 | 2002 |
| MS1, MS2, and SQT—three unified, compact, and easily parsed file formats for the storage of shotgun proteomic spectra and identifications WH McDonald, DL Tabb, RG Sadygov, MJ MacCoss, J Venable, ... Rapid Communications in Mass Spectrometry 18 (18), 2162-2168, 2004 | 387 | 2004 |
| Comparison of three directly coupled HPLC MS/MS strategies for identification of proteins from complex mixtures: single-dimension LC-MS/MS, 2-phase MudPIT, and 3-phase MudPIT WH McDonald, R Ohi, DT Miyamoto, TJ Mitchison, JR Yates III International Journal of Mass Spectrometry 219 (1), 245-251, 2002 | 374 | 2002 |
| Assigning function to yeast proteins by integration of technologies TR Hazbun, L Malmström, S Anderson, BJ Graczyk, B Fox, M Riffle, ... Molecular cell 12 (6), 1353-1365, 2003 | 334 | 2003 |
| Tea4p links microtubule plus ends with the formin for3p in the establishment of cell polarity SG Martin, WH McDonald, JR Yates, F Chang Developmental cell 8 (4), 479-491, 2005 | 253 | 2005 |
| Proteomics analysis reveals stable multiprotein complexes in both fission and budding yeasts containing Myb-related Cdc5p/Cef1p, novel pre-mRNA splicing factors, and snRNAs MD Ohi, AJ Link, L Ren, JL Jennings, WH McDonald, KL Gould Molecular and cellular biology, 2002 | 245 | 2002 |
| Azospirillum Genomes Reveal Transition of Bacteria from Aquatic to Terrestrial Environments F Wisniewski-Dyé, K Borziak, G Khalsa-Moyers, G Alexandre, ... PLoS genetics 7 (12), e1002430, 2011 | 244 | 2011 |
| Automatic quality assessment of peptide tandem mass spectra M Bern, D Goldberg, WH McDonald, JR Yates III Bioinformatics 20 (suppl_1), i49-i54, 2004 | 240 | 2004 |
| Swi1 and Swi3 are components of a replication fork protection complex in fission yeast E Noguchi, C Noguchi, WH McDonald, JR Yates III, P Russell Molecular and cellular biology 24 (19), 8342-8355, 2004 | 223 | 2004 |
| Staphylococcus aureus LukAB cytotoxin kills human neutrophils by targeting the CD11b subunit of the integrin Mac-1 AL DuMont, P Yoong, CJ Day, F Alonzo III, WH McDonald, MP Jennings, ... Proceedings of the National Academy of Sciences 110 (26), 10794-10799, 2013 | 219 | 2013 |
| Identification of proteins at active, stalled, and collapsed replication forks using isolation of proteins on nascent DNA (iPOND) coupled with mass spectrometry BM Sirbu, WH McDonald, H Dungrawala, A Badu-Nkansah, ... Journal of Biological Chemistry 288 (44), 31458-31467, 2013 | 217 | 2013 |
| Carcinoma and stromal enzyme activity profiles associated with breast tumor growth in vivo N Jessani, M Humphrey, WH McDonald, S Niessen, K Masuda, ... Proceedings of the National Academy of Sciences 101 (38), 13756-13761, 2004 | 217 | 2004 |
| Proteolysis-independent regulation of the transcription factor Met4 by a single Lys 48-linked ubiquitin chain K Flick, I Ouni, JA Wohlschlegel, C Capati, WH McDonald, JR Yates 3rd, ... Nature cell biology 6 (7), 634-641, 2004 | 193 | 2004 |
John YatesErnest W. Hahn Professor @ The Scripps Research InstituteVerified email at scripps.edu
