A systems biology approach to the identification and analysis of transcriptional regulatory networks in osteocytes

Angela K. Dean, Stephen E. Harris, Ivo Kalajzic, Jianhua Ruan

    Research output: Contribution to journalArticlepeer-review

    11 Scopus citations

    Abstract

    Background: The osteocyte is a type of cell that appears to be one of the key endocrine regulators of bone metabolism and a key responder to initiate bone formation and remodeling. Identifying the regulatory networks in osteocytes may lead to new therapies for osteoporosis and loss of bone. Results: Using microarray, we identified 269 genes over-expressed in osteocyte, many of which have known functions in bone and muscle differentiation and contractility. We determined the evolutionarily conserved and enriched TF binding sites in the 5 kb promoter regions of these genes. Using this data, a transcriptional regulatory network was constructed and subsequently partitioned to identify cis-regulatory modules. Conclusion: Our results show that many osteocyte-specific genes, including two well-known osteocyte markers DMP1 and Sost, have highly conserved clustering of muscle-related cis-regulatory modules, thus supporting the concept that a muscle-related gene network is important in osteocyte biology and may play a role in contractility and dynamic movements of the osteocyte.

    Original languageEnglish (US)
    Article numberS5
    Pages (from-to)S5
    JournalBMC bioinformatics
    Volume10
    Issue numberSUPPL. 9
    DOIs
    StatePublished - Sep 17 2009

    ASJC Scopus subject areas

    • Structural Biology
    • Biochemistry
    • Molecular Biology
    • Computer Science Applications
    • Applied Mathematics

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