Osteocytes are master regulators of the skeleton. We map the transcriptome of osteocytes at different skeletal sites, across age and sexes in mice to reveal genes and molecular programs that control this complex cell-network. We define an osteocyte transcriptome signature, 1239 genes that distinguishes osteocytes from other cells. 77% have no known role in the skeleton. We show they are enriched for genes controlling neuronal network formation, suggesting this program is important in the osteocyte network. We evaluated 19 skeletal parameters in 733 mouse lines with functional-gene-deletions and reveal 26 osteocyte transcriptome signature genes that control bone structure and function. We showed osteocyte transcriptome signature genes are enriched for human homologues that cause monogenic skeletal dysplasias (P=6x10-17), and associated with polygenic diseases, osteoporosis (P=1.8x10-13), and osteoarthritis (P=2.6x10-6). This reveals the molecular landscape that regulates osteocyte network formation and function, and establishes the importance of osteocytes in human skeletal disease.### Competing Interest StatementT.G.P is a consultant for Imugene Pty Ltd, an Australian biotech working in cancer immunotherapy. P.I.C has funding from AMGEN for studies of cancer dormancy. Neither competing interests are the subject of this manuscript.

Osteocyte Transcriptome Mapping Identifies a Molecular Landscape Controlling Skeletal Homeostasis and Susceptibility to Skeletal Disease