The document summarizes the functional matrix hypothesis, which proposes that craniofacial bone growth is in response to mechanical stimuli from surrounding soft tissues. It revisits the hypothesis by incorporating recent understandings of mechanotransduction, the connected cellular network of bone cells, and the interplay between genetic and epigenetic factors. Specifically, it describes how mechanical loads are sensed by bone cells and transmitted through the cellular network to regulate gene expression and bone formation. It presents the original genomic thesis of bone development being controlled by genes alone, the epigenetic antithesis of multiple developmental processes, and a resolution synthesizing both genetic and epigenetic influences.