Previously, the V1‐3 isoforms of the transient receptor potential channel (TRP) have been shown to promote or prevent adipocyte differentiation. In the current study, the C isoforms were screened for blocking adipogenesis. The hypothesis that the TRP classic or canonical (TRPC) deters adipocyte differentiation was investigated in 3T3‐L1 cells employing the channel‐specific activator and antagonist, silencing, and overexpression techniques. Fat accumulation in cells was visualized by Oil Red O staining. Intracellular calcium inflow was estimated by confocal microscopy. A high‐fat (HF) feeding study was also performed on C57BL/6J mice to verify the findings in the cell model. Among the 6 C isoforms tested, only TRPC‐6 inhibited the differentiation of fat cells. The phytochemical quercetin induced the channel protein expression. Calcium‐imaging results also revealed that the flavonoid could trigger calcium inflow. Coadministration of quercetin (1 or 20 mg/kg body weight) in an HF diet prevented TRPC‐6 from declining and attenuated phosphorylated (p)‐PKB and PI3k, as well as the proliferation of visceral fat cells. The present study illustrated that TRPC‐6 activation could perturb adipocyte differentiation. The food f lavonoid quercetin was a TRPC‐6 inducer and activator and it could prevent adipogenesis in mice.—Tan, Y. Q., Kwan, H. Y., Yao, X., Leung, L. K. The activity of transient receptor potential channel C‐6 modulates the differentiation of fat cells. FASEB J. 33, 6526–6538 (2019). http://www.fasebj.org