Background Bone morphogenetic proteins (BMPs) are members of the transforming growth factor- superfamily of growth factor. BMPs participate in regulation of cell communication and signal transduction during differentiation. Object To investigate the gene expression profiles that contribute to cell communication and signal transduction during osteoblastic differentiation in mesenchyma stem cells by BMP-7 treatment. Methods D1 cells (mouse mesenchymal stem cells) were cultured in osteogenic differentiation medium (ODM) for 3 days, and then treated with BMP-7 for 24 hr. Total RNA was extracted using Trizol, purified using RNeasy columns. Total RNA was amplified and purified using the Ambion Illumina RNA amplification kit to yield biotinylated cRNA. Results Up-regulation 25 genes of cell communication existed. And down-regulation 6 genes of cell communication existed. Fmod (fibromodulin mRNA), Ctgf (connective tissue growth factor mRNA), Per1 (period homolog 1 mRNA), Prelp (proline arginine-rich end leucine-rich repeat mRNA), Il1rn (IL1 receptor antagonist transcript variant 1 mRNA) and Ptprk (protein tyrosine phosphatase receptor type K mRNA) were increased 3.10, 2.68, 2.63, 2.51, 2.03 and 2.03 folds than control, respectively. Wisp2 (WNT 1 inducible signaling pathway protein 2 mRNA), Cyr61 (cysteine rich protein 61 mRNA), Mglap (matrix Gla protein mRNA), Igfb4 (insulin-like growth factor binding protein 4 mRNA), Lgals3bp (lectin, galactoside-binding, soluble, 3 binding protein mRNA), Cyr61 (cysteine rich protein 61 mRNA), Lamb2 (laminin beta 2 mRNA) and Foxn3 (forkhead box N3 mRNA) were increased 1.88, 1.88, 1.80, 1.73, 1.71, 1.70, 1.67 and 1.61 folds, respectively. Hdgf, Ntn4, Adora2b, Chrnb1, Htra1 and Selp were decreased -1.51, -1.55, -1.70, -1.73, -1.81 and -2.02 folds than control, respectively. Conclusion Expression of genes during osteoblastic differentiation that were involved cell communication related genes modulation to enhanced differentiation in MSC by BMP-7. Furthermore, these data should facilitate the informed use of BMP-7 as a therapeutic agent and tissue engineering tool.