Data for proteogenomic analysis of two patient-derived undifferentiated pleomorphic sarcoma cell lines

Abstract

To compare the difference between the public database search and sample-specific database search generated by home-made software “OncoProGx”, we conducted two LC-MS/MS runs for two patient-derived undifferentiated pleomorphic sarcoma cell lines. The numbers of identified peptides and proteins were almost same between two database search methods. The novel sample-specific peptides such as mutated peptides and new transcript isoforms were identified using only “OncoProGx.”