Diogo Borges Lima

Optimized TMT-Based Quantitative Cross-Linking Mass Spectrometry Strategy for Large-Scale Interactomic Studies

• Ruwolt, M.
• Schnirch, L.
• Borges Lima, D.
• Nadler-Holly, M.
• Viner, R., &
• Liu, F.

Analytical Chemistry 2022, 94, 5265-5272

Simple, efficient and thorough shotgun proteomic analysis with PatternLab V

• Santos, M. D. M.
• Lima, D. B.
• Fischer, J. S. G.
• Clasen, M. A.
• Kurt, L. U.
• Camillo-Andrade, A. C.
• Monteiro, L. C.
• Aquino, P. F.
• Neves-Ferreira, A. G. C.
• Valente, R. H.
• Trugilho, M. R. O.
• Brunoro, G. V. F.
• Souza, T.
• Santos, R. M.
• Batista, M.
• Gozzo, F. C.
• Duran, R.
• Yates, 3.
• Barbosa, V. C., &
• Carvalho, P. C.

Nature Protocols 2022, Online ahead of print,

Characterizing protein conformers by cross-linking mass spectrometry and pattern recognition

• Kurt, L. U.
• Clasen, M. A.
• Santos, M. D. M.
• Lyra, E. S. B.
• Santos, L. O.
• Ramos, C. H. I.
• Lima, D. B.
• Gozzo, F. C., &
• Carvalho, P. C.

Bioinformatics 2021, 37, 3035-3037

Leveraging the partition selection bias to achieve a high-quality clustering of mass spectra

• Silva, A. R. F.
• Lima, D. B.
• Kurt, L. U.
• Dupre, M.
• Chamot-Rooke, J.
• Santos, M. D. M.
• Nicolau, C. A.
• Valente, R. H.
• Barbosa, V. C., &
• Carvalho, P. C.

Journal of Proteomics 2021, 245, 104282

XlinkCyNET: A Cytoscape Application for Visualization of Protein Interaction Networks Based on Cross-Linking Mass Spectrometry Identifications

• Lima, D. B.
• Zhu, Y., &
• Liu, F.

Journal of Proteome Research 2021, 20, 1943-1950