Binary classification of cleavage sites in HEK293 cell secretomes following treatment with MMP-2 (A) and MMP-9 (B).

Cleavages detected in HEK293 cell secretome have been grouped according to the value of selectome-based RP thresholds 4.5 (MMP-2) or 4.7 (MMP-9), and n x σ distance away from the average value of log2 IE (isotopic enrichment). For each group the following binary classifiers have been used: TP—number of cases for which log2 IE is above a certain n x σ, and RP of associated tetramers is above a specified threshold; TN—number of cases for which log2 IE is below the n x σ, and RP is below the threshold; FN—number of cases for which log2 IE is above the n x σ, and RP is below the threshold; FP—number of cases for which log2 IE is below the n x σ, and RP is above the threshold. For each group, sensitivity, specificity, accuracy, FP rate, precision and Matthews correlation coefficient (MCC) have been determined. (XLSX)