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Although significant progress has been made in understanding cellular and molecular mechanisms of component cells of bone, revealing their spatial organization and interactions in native bone tissue microenvironment is crucial for advancing precision medicine, as they govern fundamental signaling pathways and functional dependencies among various bone cells. In this study, we present the first integrative high-resolution map of human bone and bone marrow, using spatial and single-cell transcriptomics profiling from femoral tissue. This multi-modal approach discovered a novel bone formation-specialized niche enriched with osteoblastic lineage cells and fibroblasts and unveiled critical cell\u2013cell communications and co-localization patterns between osteoblastic lineage cells and other cells. Furthermore, we discovered a novel spatial gradient of cellular composition, gene expression and signaling pathway activities radiating from the trabecular bone. This comprehensive atlas delineates the intricate bone cellular architecture and illuminates key molecular processes and dependencies among cells that coordinate bone metabolism. In sum, our study provides an essential reference for the field of bone biology and lays the foundation for advanced mechanistic studies and precision medicine approaches in bone-related disorders.<\/jats:p>","DOI":"10.1093\/nar\/gkae1298","type":"journal-article","created":{"date-parts":[[2024,12,23]],"date-time":"2024-12-23T15:28:28Z","timestamp":1734967708000},"source":"Crossref","is-referenced-by-count":48,"title":["Mapping the spatial atlas of the human bone tissue integrating spatial and single-cell transcriptomics"],"prefix":"10.1093","volume":"53","author":[{"ORCID":"https:\/\/orcid.org\/0009-0003-1770-0361","authenticated-orcid":false,"given":"Weiqiang","family":"Lin","sequence":"first","affiliation":[{"name":"Tulane Center for Biomedical Informatics and Genomics, Deming Department of Medicine, School of Medicine, Tulane University , 1440 Canal Street, Downtown,\u00a0 New Orleans , LA 70112 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LA 70112 ,","place":["USA"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"William","family":"Sherman","sequence":"additional","affiliation":[{"name":"Department of Orthopaedic Surgery, School of Medicine, Tulane University , 1430 Tulane Avenue, Downtown,\u00a0 New Orleans , LA 70112 ,","place":["USA"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Fernando","family":"Sanchez","sequence":"additional","affiliation":[{"name":"Department of Orthopaedic Surgery, School of Medicine, Tulane University , 1430 Tulane Avenue, Downtown,\u00a0 New Orleans , LA 70112 ,","place":["USA"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Di","family":"Wu","sequence":"additional","affiliation":[{"name":"Tulane Center for Biomedical Informatics and Genomics, Deming Department of Medicine, School of Medicine, Tulane University , 1440 Canal Street, Downtown,\u00a0 New Orleans , LA 70112 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