Identification of proteins in the conditioned media by LC-MS/MS according to the ratio of quantitative value.

The HaCaT and SCC-9 cells were treated with PMA for 24 h, the media were collected, the proteins were digested with trypsin and analyzed by LC-MS/MS. The data were submitted to Mascot search engine and the .dat files from Mascot output were analyzed in Scaffold Q+, which calculates the quantitative value by normalizing spectral counts across the experiments. The ratio of quantitative value of the PMA-stimulated cells/DMSO-treated cells for each protein is shown in the table. The proteins exclusively found in one condition are indicated as “only” and the proteins that are not present are indicated as “absent”.