Following the performance evaluation procedure in Section 4.2, for each actual kinome array Aq, Algorithm 1 was used to create an inter-array replicate Yq. Then Algorithm 2 was used to differentially phosphorylate a subset of at most nd peptides on Yq, resulting in creation of Yq′. Following this, using a variance stabilization method Aq and Yq′ were normalized, leading to Aq* and Yq*. Then a paired t-test with a significant level of 0.05 was used to detect the differentially phosphorylated peptides on Yq* in comparison to Aq*. Finally, using the list of differentially phosphorylated peptides, Pq, the values of sensitivity, specificity, precision, and accuracy were calculated.