Tesorai Search: cloud-based database search engine boosts identifications for mass spectrometry proteomics with a pretrained peptide-spectrum deep-learning model

The original mass spectrometry search engines used simple algorithms for peptide identification. Recent tools improved accuracy by adding several extra components such as fragment ion intensities or retention times prediction and training target-decoy classifiers on-the-fly, leading to sometimes inconsistent results. Our study explores the impact of replacing those extra components with a deep-learning pretrained model that directly learns the complex relationship between the full spectra and...