To explore the mechanism of Bap31 on X-linked diseases, we identified 21 X-linked diseases-related proteins contained with 9 up-regulated (ABCB7, CCDC22, IGBP1, MAOA, MCTS1, MSN, PBDC1, PGK1, and SH3BGRL) and 12 down-regulated (HSD17B10, HUWE1, KIF4, MAGED1, PDHA1, PLXNA3, RBM3, SMS, TIMM17B, TSPAN7, UBA1, and VAP1) proteins from the iTRAQ results (Figures 1C–E and Supplementary Table S5). This evidence concerns the gene PGK1 and X-linked disease.