A deep learning algorithm ensured objective analysis showed a high correlation between hands-on and automated-learning MSLN staining ratios (r = 0.71), significant correlations between different tumor regions (Ro vs. Ce, r = 0.63; Ro vs. Fr-sm, r = 0.54; Ro vs. Fr-ss, r = 0.61) and disease-specific survival rates differed significantly between MSLN-positive cohort and MSLN-negative cohort in various regions (p = 0.024, 0.0087, 0.051 and 0.046). Here, MSLN is linked to neoplasm.