Protein Phosphatase 4 Catalytic Subunit (PPP4C) is an evolutionarily conserved protein involved in multiple biological and pathological events, including embryogenesis, organogenesis, cellular homeostasis, and oncogenesis. However, the detailed mechanisms underlying these processes remain largely unknown. Thus, we investigated the potential correlation betweenPPP4Cand biological processes (BPs) and canonical Wnt signaling using pan-cancer analysis andXenopus laevis(X. laevis) embryo model. Our results indicate thatPPP4Cis a potential biomarker for specific cancer types due to its high diagnostic accuracy and significant prognostic correlation. Furthermore, in multiple cancer types,PPP4C-related differentially expressed genes (DEGs) were significantly enriched in pattern specification, morphogenesis, and canonical Wnt activation. Consistently, perturbation of Ppp4c inX. laevisembryos interfered with normal embryogenesis and canonical Wnt responses. Moreover, biochemical analysis ofX. laevisembryos demonstrated that both endogenous and exogenous Ppp4c negatively regulated AXIN1 (Wnt inhibitor) abundance. This study provides novel insights intoPPP4Croles in pattern specification and Wnt activation. The similarities in BPs and Wnt signaling regulation regardingPPP4Csupport the intrinsic link between tumorigenesis and early embryogenesis.