Robust accurate identification of peptides (RAId): deciphering MS2 data using a structured library search with de novo based statistics. - Gelio Alves; Yi-Kuo Yu (Bioinform., 2005)

Mass spectrometry-based protein identification with accurate statistical significance assignment. - Gelio Alves; Yi-Kuo Yu (Bioinform., 2015)

Confidence assignment for mass spectrometry based peptide identifications via the extreme value distribution. - Gelio Alves; Yi-Kuo Yu (Bioinform., 2016)

MiCId GUI: The Graphical User Interface for MiCId, a Fast Microorganism Classification and Identification Workflow with Accurate Statistics and High Recall. - Aleksey Y. Ogurtsov; Gelio Alves; Alex Rubio; Brendan Joyce; Björn Andersson; Roger Karlsson; Edward R. B. Moore; Yi-Kuo Yu (J. Comput. Biol., 2024)