native top-down MS data of human protamines collected on orbitrap fusion lumos. Samples were collected from different patient populations, namely normal, asthenozoospermia, and oliogoasthenozoospermia
RAW MS data were manually analysed using the open-source Skyline software. The relative abundance of a given PTM was calculated by dividing its MS1 intensity (area under the curve) by the sum of the M
Observed and expected masses (M+H) of 14.5 kDa protein and tryptic digested peptide sequence map by MALDI-TOF/MS, which was retrieved from Mascot database. The matched peptides are bolded in black.
Casanovo is a state-of-the-art deep learning model for de novo peptide sequencing from mass spec- trometry proteomics data. Here we report on a series of enhancements to Casanovo, aimed at improving t
