NAST: a multiple sequence alignment server for comparative analysis of 16S rRNA genes. - Todd Z. DeSantis; Philip Hugenholtz; Keith Keller; Eoin L. Brodie; Niels Larsen; Yvette M. Piceno; Richard Phan; Gary L. Andersen (Nucleic Acids Res., 2006)

Automated group assignment in large phylogenetic trees using GRUNT: GRouping, Ungrouping, Naming Tool. - Daniel Dalevi; Todd Z. DeSantis; Jakob Fredslund; Gary L. Andersen; Victor M. Markowitz; Philip Hugenholtz (BMC Bioinform., 2007)

PyNAST: a flexible tool for aligning sequences to a template alignment. - J. Gregory Caporaso; Kyle Bittinger; Frederic D. Bushman; Todd Z. DeSantis; Gary L. Andersen; Rob Knight 001 (Bioinform., 2010)

The Human Microbiome: Informatics Challenges and Opportunities. - Alexander V. Alekseyenko; Michael J. Becich; Todd Z. DeSantis; Jack A. Gilbert; Georg K. Gerber (AMIA, 2016)

Multi-technology Meta-analysis Identifies Bacterial Signatures Delineating Clinical Response to Immune Checkpoint-Inhibitor Therapy in Melanoma Cohorts. - Jayamary Divya Ravichandar; Cheryl-Emiliane Chow; Connor Skennerton; Dhwani Haria; Erica Rutherford; Helena Kiefel; Joanna Dreux; Kareem Graham; Kathryn Iverson; Lynn Yamamoto; Michelle Lin; Michi Willcoxon; et al. (AMIA, 2019)

Improved detection of disease-associated gut microbes using 16S sequence-based biomarkers. - Brianna Sierra Chrisman; Kelley M. Paskov; Nate Tyler Stockham; Jae-Yoon Jung; Maya Varma; Peter Washington 001; Christine A. Tataru; Shoko Iwai; Todd Z. DeSantis; Maude M. David; Dennis P. Wall (BMC Bioinform., 2021)