We performed a cDNA microarray study of the transcription regulation and coordination of four gene families whose products are involved in cell-cell and cell-matrix interaction (ADAM, integrin, MMP, TNF) within brain and hearts of wildtype (WT) and connexin43 null (KO) neonatal C57Bl/6j mice. The study revealed that both WT brain and heart exhibit significant correlations among the transcriptions of cell-signaling genes and that depletion of Cx43 regulates both their expression and coordination. Adam8 was identified as the command gene of the group in WT and Mmp2 in KO, while Tnsf6 plays the dominant role in both WT and KO heart. Our results suggest that the functional coordination of cell-signaling proteins may be related to the expression coordination of the corresponding genes presumably to ensure the efficiency of the functional pathways and that intercellular communication modulates cell-cell and cell-matrix interaction.