Contacts
Kyowon Jeong [k1jeong (at) ucsd.edu]Summary
MS-GappedDictionary is a tool to generate the set of all plausible gapped peptides (i.e., de novo reconstructions with mass gaps) from MS/MS spectra. The generated set is called a Pocket Dictionary and consists of 25-100 gapped peptides. A constructed Pocket Dictionary can be used to filter databases with huge sizes (e.g., the six frame translation of the human genome) quickly. All database matches reported by MS-GappedDictionary are re-scored by MS-GF to retain only statistically significant PSMs. The current version (ver. 102010) only allows non-modified peptide searches. However, searches for modified/mutated peptides are under development and soon will be released.