Based on gene network modeling, we found 10 intersecting genes (PTS, NBPF3, SLC30A7, TPK1, NTPCR, BGLAP, RUNX2, ENPP1, SLC30A6, and GCH1) interacting with ALPL and highlighting their potential impact on bone formation, homeostasis, and gene expression, potentially affecting pathways involved in skeletal system development, metabolism, remodeling DNA, transcriptional factors and regulators, and ionic homeostasis, enhancing our ability to understand biological mechanisms contributing to HPP development. Here, SLC30A7 is linked to hypophosphatasia.