蔡宝昌教授指导研究生共发表论文800余篇，SCI论文100余篇。代表性学术论文如下：

1)Baochang Cai，Tetsuro Nagasawa，Shigetoshi Kadota，Masao Hattori，Tsuneo Namba，Yasushi Kuraishi. Processing of Nux Vomica.VІІ. Antinociceptive effects of crude alkaloids from the processed and unprocessed seeds of Strychnos nux-vomica in mice. Biol. Pharm. Bull.. 1996，19（1）：127-131

2)Wu Yin，Xukun Deng，Fangzhou Yin，Xiaochun Zhang，Baochang Cai. The cytotoxicity induced by brucine from the seed of Strychnos nux-vomica proceeds via apoptosis and is mediated by cyclooxygenase 2 and caspase 3 in SMMC 7221 cells. Food and Chemical Toxicology. 2007，45（9）：1700-1708

3)Weifeng Du，Hao Cai，Mingyan Wang，Xia Ding，Huan Yang，Baochang Cai. Simultaneous determination of six active components in crude and processed Fructus Corni by high performance liquid chromatography. Journal of Pharmaceutical and Biomedical Analysis. 2008，48（1）：194-197 

4)Gang Cao, Chengrong Zhang, Yun Zhang, Xiaodong Cong, Hao Cai, Baochang Cai, Xiaomeng Li, Jinting Yao. Global detection and identification of components from crude and processed traditional Chinese medicine by liquid chromatography connected with hybrid ion trap and time-of-flight-mass spectrometry. Journal of Separation Science. 2011, 34（15）：1845-1852

5)Qidi Liu, Kunming Qin, Baojia Shen, Hao Cai, Baochang Cai*. Optimization of the processing technology of Fructus Arctii by response surface methodology[J]. Chinese Journal of Natural Medicines, 2015, 13(3):222-231.