PDAP1 and Alzheimer disease: M15, a 57-member module positively correlated with AD phenotypes (Fig. 4), was significantly enriched with GO terms and proteins linked to immune response (ALCAM, ALAD, GAPDH, CYB5R3, DDX3X, CAPN1, PPIA, PYGB, EIF2AK2, CAB39, TTR, PDAP1, HIST1H2BK, QARS, VAPA, and PNP) with GAPDH, PPIA, CYB5R3, and PYGB as top hub proteins (Fig. 6 and Additional file 6: Table S6).