| Integrated analysis of shotgun proteomic data with PatternLab for proteomics 4.0 PC Carvalho, DB Lima, FV Leprevost, MDM Santos, JSG Fischer, ... Nature protocols 11 (1), 102-117, 2016 | 274 | 2016 |
| An introduction to distributed algorithms VC Barbosa Mit Press, 1996 | 270 | 1996 |
| Concurrency in heavily loaded neighborhood-constrained systems VC Barbosa, E Gafni ACM Transactions on Programming Languages and Systems (TOPLAS) 11 (4), 562-584, 1989 | 164 | 1989 |
| PatternLab for proteomics: a tool for differential shotgun proteomics PC Carvalho, JSG Fischer, EI Chen, JR Yates, VC Barbosa BMC bioinformatics 9, 1-14, 2008 | 151 | 2008 |
| Search engine processor: filtering and organizing peptide spectrum matches PC Carvalho, JSG Fischer, T Xu, D Cociorva, TS Balbuena, RH Valente, ... Proteomics 12 (7), 944-949, 2012 | 136 | 2012 |
| XDIA: improving on the label-free data-independent analysis PC Carvalho, X Han, T Xu, D Cociorva, MG Carvalho, VC Barbosa, ... Bioinformatics 26 (6), 847-848, 2010 | 128 | 2010 |
| Identifying differences in protein expression levels by spectral counting and feature selection PC Carvalho, J Hewel, VC Barbosa, JR Yates III Genetics and molecular research: GMR 7 (2), 342, 2008 | 114 | 2008 |
| SIM-XL: A powerful and user-friendly tool for peptide cross-linking analysis DB Lima, TB de Lima, TS Balbuena, AGC Neves-Ferreira, VC Barbosa, ... Journal of proteomics 129, 51-55, 2015 | 109 | 2015 |
| YADA: a tool for taking the most out of high-resolution spectra PC Carvalho, T Xu, X Han, D Cociorva, VC Barbosa, JR Yates III Bioinformatics 25 (20), 2734-2736, 2009 | 97 | 2009 |
| Improving the TFold test for differential shotgun proteomics PC Carvalho, JR Yates III, VC Barbosa Bioinformatics 28 (12), 1652-1654, 2012 | 84 | 2012 |
| PatternLab: from mass spectra to label‐free differential shotgun proteomics PC Carvalho, JSG Fischer, T Xu, JR Yates III, VC Barbosa Current Protocols in Bioinformatics 40 (1), 13.19. 1-13.19. 18, 2012 | 81 | 2012 |
| On best practices in the development of bioinformatics software FV Leprevost, VC Barbosa, EL Francisco, Y Perez-Riverol, PC Carvalho Frontiers in genetics 5, 199, 2014 | 73 | 2014 |
| An atlas of edge-reversal dynamics VC Barbosa Chapman and Hall/CRC, 2000 | 73 | 2000 |
| V-like formations in flocks of artificial birds A Nathan, VC Barbosa Artificial life 14 (2), 179-188, 2008 | 70 | 2008 |
| Characterization of homodimer interfaces with cross-linking mass spectrometry and isotopically labeled proteins DB Lima, JT Melchior, J Morris, VC Barbosa, J Chamot-Rooke, ... Nature protocols 13 (3), 431-458, 2018 | 60 | 2018 |
| Massively parallel models of computation: distributed parallel processing in artificial intelligence and optimisation VC Barbosa Ellis Horwood, 1993 | 59 | 1993 |
| Finding approximate palindromes in strings AHL Porto, VC Barbosa Pattern Recognition 35 (11), 2581-2591, 2002 | 50 | 2002 |
| Simple, efficient and thorough shotgun proteomic analysis with PatternLab V MDM Santos, DB Lima, JSG Fischer, MA Clasen, LU Kurt, ... Nature protocols 17 (7), 1553-1578, 2022 | 48 | 2022 |
| PepExplorer: a similarity-driven tool for analyzing de novo sequencing results FV Leprevost, RH Valente, DB Lima, J Perales, R Melani, JR Yates III, ... Molecular & Cellular Proteomics 13 (9), 2480-2489, 2014 | 47 | 2014 |
| Generating all the acyclic orientations of an undirected graph VC Barbosa, JL Szwarcfiter Information Processing Letters 72 (1-2), 71-74, 1999 | 47 | 1999 |