Peer-Reviewed Papers

For up-to-date citations, please see my Google Scholar profile.

2023

Diversity of viruses and viroids in the rhizosphere of common bean cultivars differing in resistance to the fungal root pathogen Fusarium oxysporum ↗ ↖

June 14, 2023

Lucas P.P. Braga, Andrew J. Tanentzap, Benjamin D. Lee, Siu Mui Tsai, Jos M. Raaijmakers, Rodrigo Mendes, Lucas W. Mendes. In: Applied Soil Ecology.

[pdf] [bibtex]

Mining metatranscriptomes reveals a vast world of viroid-like circular RNAs ↗ ↖

January 24, 2023

Benjamin D. Lee, Uri Neri, Simon Roux, Yuri I. Wolf, Antonio Pedro Camargo, Mart Krupovic, RNA Virus Discovery Consortium, Peter Simmonds, Nikos Kyrpides, Uri Gophna, Valerian V. Dolja, and Eugene V. Koonin. In Cell.

[pdf] [bibtex]

2022

Expansion of the global RNA virome reveals diverse clades of bacteriophages ↗ ↖

September 28, 2022

Uri Neri, Yuri I. Wolf, Simon Roux, Antonio Pedro Camargo, Benjamin D. Lee, Darius Kazlauskas, I. Min Chen, Natalia Ivanova, Lisa Zeigler Allen, David Paez-Espino, Donald A. Bryant, Devaki Bhaya, RNA Virus Discovery Consortium, Mart Krupovic, Valerian V. Dolja, Nikos C. Kyrpides, Eugene V. Koonin, and Uri Gophna. In: Cell.

[pdf] [bibtex] [preprint]

Ten Quick Tips for Deep Learning in Biology ↗ ↖

March 24, 2022

Benjamin D. Lee, Anthony Gitter, Casey S. Greene, Sebastian Raschka, Finlay Maguire, Alexander J. Titus, Michael D. Kessler, Alexandra J. Lee, Marc G. Chevrette, Paul Allen Stewart, Thiago Britto-Borges, Evan M. Cofer, Kun-Hsing Yu, Juan Jose Carmona, Elana J. Fertig, Alexandr A. Kalinin, Brandon Signal, Benjamin J. Lengerich, Timothy J. Triche, Jr., and Simina M. Boca. In: PLOS Computational Biology.

[pdf] [bibtex]