De novo mass spectrometry peptide sequencing with a transformer model. - Melih Yilmaz; William Fondrie; Wout Bittremieux; Sewoong Oh; William S. Noble (ICML, 2022)

Foundation model for mass spectrometry proteomics. - Justin Sanders; Melih Yilmaz; Jacob H. Russell; Wout Bittremieux; William Fondrie; Nicholas M. Riley; Sewoong Oh; William Stafford Noble (CoRR, 2025)