11. A. C. Swensen, J. He, A. C. Fang, Y. Ye, C. D. Nicora, T. Shi, A. Y. Liu, T. K. Sigdel, M. M. Sarwal, and W.-J. Qian. (2021). A comprehensive urine proteome database generated from patients with various renal conditions and prostate cancer. bioRxiv.

10. M. Rui, H. Chen, Y. Ye, H. Deng, H. Wang. (2020). Effect of flow configuration on nitrifiers in biological activated carbon filters for potable water production. Environ. Sci. & Technol., Vol 54, 14646-14655.

9. N. M. Negretti, Y. Ye, L. M. Malavasi, S. M. Pokharel, S. Huynh, S. Noh, C. R. Gourley, C. A. Ragle, S. Bose, T. Looft, C. T. Parker, G. Clair, J. N. Adkins, M. E. Konkel. (2020). A porcine ligated loop model reveals new insight into the host immune response against Campylobacter jejuni. Gut Microbes, Vol 12, 1-25.

8. A. C. Swensen, Y. Ye, E. Dirice, R. Kulkarni, W.-J. Qian. (2020). 2119-P: Deep profiling of phosphorylation dynamics in human islets in response to inflammatory cytokines. Diabetes, Vol 69 (Supplement 1). DOI: 10.2337/db20-2119-p.

7. Y. Ye, L. Zhao, M. J. Imperiale, K. R. Wigginton. (2019). Integrated cell culture-mass spectrometry method for human infectious virus monitoring. Environ. Sci. & Technol. Lett., Vol 6, 407-412. (Editors’ choice; Featured on the front cover)​

6. Z. Qiao, Y. Ye, P. H. Chang, D. Thirunarayanan, K. R. Wigginton. (2018). Nucleic acid photolysis by UV254 and the impact of virus encapsidation. Environ. Sci. & Technol., Vol 52, 10408-10415.​

5. Y. Ye, P. H. Chang, J. Hartert, K. R. Wigginton. (2018). Reactivity of enveloped virus genome, proteins, and lipids with free chlorine and UV254. Environ. Sci. & Technol., Vol 52, 7698-7708.​

4. Y. Ye, R. M. Ellenberg, K. E. Graham, K. R. Wigginton. (2016). Survivability, partitioning, and recovery of enveloped viruses in untreated municipal wastewater. Environ. Sci. & Technol., Vol 50, 5077-5085.​

3. K. R. Wigginton, Y. Ye, R. M. Ellenberg. (2015). Emerging investigators series: the source and fate of pandemic viruses in the urban water cycle. Environ. Sci.: Water Res. Technol., Vol 1, 735-746. (Featured on the front cover)​

2. H. Wang, Y. Ye, J. Qi, F. Li, Y. Tang. (2013). Removal of titanium dioxide nanoparticles by coagulation: effects of coagulants, typical ions, alkalinity and natural organic matters. Water Sci. & Technol., Vol 68, 1137-1142.​

1. J. Qi, Y. Ye, J. Wu, H. Wang, F. Li. (2013). Dispersion and stability of titanium dioxide nanoparticles in aqueous suspension: effects of ultrasonication and concentration. Water Sci. & Technol., Vol 67, 147-151.