Database search engines and algorithms in database search engines used for identification of MHC binding peptides (pMHC) and post-translational modification (PTM) of identified peptides
| Search engines | DB search | De novo peptide sequencing | PTM search* |
|---|---|---|---|
| Proteome Discoverer | SEQUEST | INFERY™ | ProsightPD |
| Maxquant | Andromeda | MaxNovo | Andromeda |
| PEAKS | PEAKS | PEAKS BD | GlycanFinder |
| MSFragger | MSFragger | n/a | MSFragger-glyco |
| MetaMorpheus | MetaMorpheus | n/a | G-PTM-D |
| PepNoVo+ | n/a | PepNOVO+ | n/a |
| SMSnet | SMSnet | SMSnet | SMSnet |
* Database search for PTM can be phosphorylation, glycosylation, or other type of PTM