The language of posttranslational modifications and deciphering it from proteomics data

PgxSAVy: A tool for comprehensive evaluation of variant peptide quality in proteogenomics – catching the (un)usual suspects

“…The variant event needs to be correctly localized at the appropriate amino acid to distinguish from other possible variant positions in the peptide sequence. Previously, post translational modifications studies have used this strategy to build a rescoring to correctly localize the modification site [43] , [44] , [45] . This variant decoy approach takes in a single/double amino acid variant peptide, and then iteratively exchange/shuffle the variant amino acid at a given position with the amino acids present in that peptide at other positions as long as the exchanged amino acids are not the same.…”