Huaier, as known as Trametes robiniophila Murr, is a traditional Chinese 
medicine. Various studies have demonstrated that Huaier could inhibit cancer 
progression and improve the prognosis of patients. In the present study, we 
comprehensively screened the expression profiles of lncRNAs, miRNAs, and mRNAs 
in Huaier-treated breast cancer cells. Using bioinformatic analysis, hub genes 
were identified and functionally annotated. Weighted gene coexpression network 
analysis was applied to construct the molecular network influenced by Huaier. 
Linc00339 was then found to play a critical role in Huaier-mediated cancer 
suppression. To validate the effects of linc00339 and identify the downstream 
targets, we performed in vitro and in vivo experiments. Finally, we identified 
that Huaier could inhibit the proliferation of breast cancer cells through 
modulating linc00339/miR-4656/CSNK2B signaling pathway.