Diogo Borges Lima
Diogo Borges Lima
Leibniz-Forschungsinstitut für Molekulare Pharmakologie (FMP)
Verified email at - Homepage
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Cited by
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
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
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
PepExplorer: a similarity-driven tool for analyzing de novo sequencing results
FV Leprevost, RH Valente, DB Lima, J Perales, R Melani, JR Yates, ...
Molecular & Cellular Proteomics 13 (9), 2480-2489, 2014
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
XPlex: An effective, multiplex cross-linking chemistry for acidic residues
M Fioramonte, HCR de Jesus, AJR Ferrari, DB Lima, RL Drekener, ...
Analytical chemistry 90 (10), 6043-6050, 2018
Comparative proteomic analysis of the aging soleus and extensor digitorum longus rat muscles using TMT labeling and mass spectrometry
DFS Chaves, PC Carvalho, DB Lima, H Nicastro, FM Lorenzeti, ...
Journal of proteome research 12 (10), 4532-4546, 2013
Optimization of a top-down proteomics platform for closely related pathogenic bacterial discrimination
M Dupré, M Duchateau, C Malosse, D Borges-Lima, V Calvaresi, ...
Journal of Proteome Research 20 (1), 202-211, 2020
An evaluation of the crystal structure of C-terminal truncated apolipoprotein AI in solution reveals structural dynamics related to lipid binding
JT Melchior, RG Walker, J Morris, MK Jones, JP Segrest, DB Lima, ...
Journal of Biological Chemistry 291 (10), 5439-5451, 2016
Effectively addressing complex proteomic search spaces with peptide spectrum matching
D Borges, Y Perez-Riverol, FCS Nogueira, GB Domont, J Noda, ...
Bioinformatics 29 (10), 1343-1344, 2013
Exploring the proteomic landscape of a gastric cancer biopsy with the shotgun imaging analyzer
PF Aquino, DB Lima, J de Saldanha da Gama Fischer, RD Melani, ...
Journal of proteome research 13 (1), 314-320, 2014
Trypanosoma cruzi immunoproteome: Calpain-like CAP5. 5 differentially detected throughout distinct stages of human Chagas disease cardiomyopathy
MA Caminha, VMB de Lorena, W de Oliveira Júnior, J Perales, ...
Journal of proteomics 194, 179-190, 2019
XlinkCyNET: a cytoscape application for visualization of protein interaction networks based on cross-linking mass spectrometry identifications
DB Lima, Y Zhu, F Liu
Journal of Proteome Research 20 (4), 1943-1950, 2021
Comprehensive identification of protein disulfide bonds with pepsin/trypsin digestion, Orbitrap HCD and Spectrum Identification Machine
C Cui, T Liu, T Chen, J Lu, I Casaren, DB Lima, PC Carvalho, A Beuve, ...
Journal of proteomics 198, 78-86, 2019
Optimized TMT-based quantitative cross-linking mass spectrometry strategy for large-scale interactomic studies
M Ruwolt, L Schnirch, D Borges Lima, M Nadler-Holly, R Viner, F Liu
Analytical chemistry 94 (13), 5265-5272, 2022
RawVegetable–A data assessment tool for proteomics and cross-linking mass spectrometry experiments
LU Kurt, MA Clasen, MDM Santos, TACB Souza, EC Andreassa, EB Lyra, ...
Journal of proteomics 225, 103864, 2020
DiagnoProt: a tool for discovery of new molecules by mass spectrometry
ARF Silva, DB Lima, A Leyva, R Duran, C Batthyany, PF Aquino, JC Leal, ...
Bioinformatics 33 (12), 1883-1885, 2017
Pinpointing differentially expressed domains in complex protein mixtures with the cloud service of PatternLab for Proteomics
FV Leprevost, DB Lima, J Crestani, Y Perez-Riverol, N Zanchin, ...
Journal of proteomics 89, 179-182, 2013
Quantitative proteomic map of the trypanosomatid Strigomonas culicis: the biological contribution of its endosymbiotic bacterium
GVF Brunoro, RFS Menna-Barreto, AS Garcia-Gomes, C Boucinha, ...
Protist 170 (6), 125698, 2019
HI-bone: a scoring system for identifying phenylisothiocyanate-derivatized peptides based on precursor mass and high intensity fragment ions
Y Perez-Riverol, A Sánchez, J Noda, D Borges, PC Carvalho, R Wang, ...
Analytical chemistry 85 (7), 3515-3520, 2013
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