Prostate cancer (PC) patients are conventionally classified into three histological groups, i.e. low-grade, intermediate-grade and high-grade. The intermediate-grade group contains patients of mixed clinical outcomes that cannot be better classified using established diagnostic routines.
Here, we hypothesize that the quantitative proteomic analysis of tissue biopsy samples could be used to stratify intermediate-grade PC patients.
To obtain accurate quantitative proteotypes (the acute state of the proteome) of tissue biopsy samples, we used the recently developed combination of PCT (pressure cycling technology) and SWATH-MS (reference 1), which permits relative quantification of thousands of proteins from tissue biopsies with reproducibility and quantitative accuracy comparable to SRM, the gold standard quantitative MS method.