The Mass Spectrometry-Generative Pre-trained Transformer (MS-GPT) team utilizes generative pre-trained models and extensive mass spectrometry data to develop tools for mass spectrometry-based proteomics identification and quantification. This enables the identification and quantification of peptides and proteins, post-translational modification identification, de novo peptide sequencing, and other functionalities. These advancements provide technical support for the deep proteomics and single-cell proteomics data analysis.