Fowler has published approximately 530 papers. The following are a few of the most cited:
* Inhibition of monoamine oxidase B in the brains of smokers. Fowler, J.S.,  Volkow, N.D.,  Wang, G.-J., et al. Nature. Volume 379, Issue 6567, 22 February 1996, Pages 733-736
* Distribution volume ratios without blood sampling from graphical analysis of PET data. Logan, J.,  Fowler, J.S.,  Volkow, N.D., et al. Journal of Cerebral Blood Flow and Metabolism. Volume 16, Issue 5, 1996, Pages 834-840
* Decreased dopamine D2 receptor availability is associated with reduced frontal metabolism in cocaine abusers. Volkow, N.D.,  Fowler, J.S.,  Wang, G.-J., et al. Synapse. Volume 14, Issue 2, 1993, Pages 169-177
* Brain dopamine and obesity. Wang, G.-J., Volkow, N., Fowler, J., et al. The Lancet. Volume 327, Issue 9253, 2001, Pages 354–357.
* Cocaine cues and dopamine in dorsal striatum: mechanism of craving in cocaine addiction. Volkow, N., Wang, G.-J., Fowler, J., et al. Journal of Neuroscience. Volume 26, Issue 24, 2006, Pages 6583-6588