A cross-platform toolkit for mass spectrometry and proteomics MC Chambers, B Maclean, R Burke, D Amodei, DL Ruderman, ... Nature biotechnology 30 (10), 918-920, 2012 | 3486 | 2012 |
The Paragon Algorithm, a next generation search engine that uses sequence temperature values and feature probabilities to identify peptides from tandem mass spectra IV Shilov, SL Seymour, AA Patel, A Loboda, WH Tang, SP Keating, ... Molecular & Cellular Proteomics 6 (9), 1638-1655, 2007 | 1411 | 2007 |
The minimum information about a proteomics experiment (MIAPE) CF Taylor, NW Paton, KS Lilley, PA Binz, RK Julian Jr, AR Jones, W Zhu, ... Nature biotechnology 25 (8), 887-893, 2007 | 823 | 2007 |
Nonlinear fitting method for determining local false discovery rates from decoy database searches WH Tang, IV Shilov, SL Seymour Journal of proteome research 7 (9), 3661-3667, 2008 | 403 | 2008 |
A systems view of epithelial–mesenchymal transition signaling states S Thomson, F Petti, I Sujka-Kwok, P Mercado, J Bean, M Monaghan, ... Clinical & experimental metastasis 28, 137-155, 2011 | 275 | 2011 |
The mzIdentML data standard for mass spectrometry-based proteomics results AR Jones, M Eisenacher, G Mayer, O Kohlbacher, J Siepen, SJ Hubbard, ... Molecular & Cellular Proteomics 11 (7), M111. 014381-1-M111. 014381-10, 2012 | 230 | 2012 |
A two‐step database search method improves sensitivity in peptide sequence matches for metaproteomics and proteogenomics studies P Jagtap, J Goslinga, JA Kooren, T McGowan, MS Wroblewski, ... Proteomics 13 (8), 1352-1357, 2013 | 227 | 2013 |
The PSI-MOD community standard for representation of protein modification data L Montecchi-Palazzi, R Beavis, PA Binz, RJ Chalkley, J Cottrell, D Creasy, ... Nature biotechnology 26 (8), 864-866, 2008 | 150 | 2008 |
Deep metaproteomic analysis of human salivary supernatant P Jagtap, T McGowan, S Bandhakavi, ZJ Tu, S Seymour, TJ Griffin, ... Proteomics 12 (7), 992-1001, 2012 | 110 | 2012 |
Guidelines for reporting the use of mass spectrometry in proteomics CF Taylor, PA Binz, R Aebersold, M Affolter, R Barkovich, EW Deutsch, ... Nature biotechnology 26 (8), 860-861, 2008 | 103 | 2008 |
Guidelines for reporting the use of mass spectrometry informatics in proteomics. PA Binz, R Barkovich, RC Beavis, D Creasy, DM Horn, RK Julian Jr, ... Nature biotechnology 26 (8), 862-863, 2008 | 80 | 2008 |
Discovering known and unanticipated protein modifications using MS/MS database searching WH Tang, BR Halpern, IV Shilov, SL Seymour, SP Keating, A Loboda, ... Analytical Chemistry 77 (13), 3931-3946, 2005 | 79 | 2005 |
Recommendations for mass spectrometry data quality metrics for open access data (corollary to the Amsterdam Principles) CR Kinsinger, J Apffel, M Baker, X Bian, CH Borchers, R Bradshaw, ... Journal of proteome research 11 (2), 1412-1419, 2012 | 61 | 2012 |
Comparison of rates and kinetic isotope effects using PEG-modified variants and glycoforms of glucose oxidase: the relationship of modification of the protein envelope to C− H … SL Seymour, JP Klinman Biochemistry 41 (27), 8747-8758, 2002 | 55 | 2002 |
CysTRAQ—a combination of iTRAQ and enrichment of cysteinyl peptides for uncovering and quantifying hidden proteomes V Tambor, CL Hunter, SL Seymour, M Kacerovsky, J Stulik, J Lenco Journal of proteomics 75 (3), 857-867, 2012 | 49 | 2012 |
Proteomics standards initiative extended FASTA format PA Binz, J Shofstahl, JA Vizcaíno, H Barsnes, RJ Chalkley, G Menschaert, ... Journal of proteome research 18 (6), 2686-2692, 2019 | 32 | 2019 |
Methods and Systems for Protein and Peptide Evidence Assembly SL Seymour, A Loboda, W Tang US Patent App. 11/964,622, 2009 | 30 | 2009 |
Workflow for analysis of high mass accuracy salivary data set using M ax Q uant and P rotein P ilot search algorithm P Jagtap, S Bandhakavi, LA Higgins, T McGowan, R Sa, MD Stone, ... Proteomics 12 (11), 1726-1730, 2012 | 29 | 2012 |
A standardized framing for reporting protein identifications in mzIdentML 1.2 SL Seymour, T Farrah, PA Binz, RJ Chalkley, JS Cottrell, BC Searle, ... Proteomics 14 (21-22), 2389-2399, 2014 | 23 | 2014 |
Proteomics and Beyond A report on the 3rd Annual Spring Workshop of the HUPO‐PSI 21–23 April 2006, San Francisco, CA, USA S Orchard, R Apweiler, R Barkovich, D Field, JS Garavelli, D Horn, ... Proteomics 6 (16), 4439-4443, 2006 | 19 | 2006 |