Modeling the temporal dynamics of the gut microbial community in adults and infants. - Liat Shenhav; Ori Furman; Leah Briscoe; Mike Thompson; Justin D. Silverman; Itzhak Mizrahi; Eran Halperin (PLoS Comput. Biol., 2019)

Measuring and mitigating PCR bias in microbiota datasets. - Justin D. Silverman; Rachael J. Bloom; Sharon Jiang; Heather K. Durand; Eric Dallow; Sayan Mukherjee 001; Lawrence A. David (PLoS Comput. Biol., 2021)

Bayesian Multinomial Logistic Normal Models through Marginally Latent Matrix-T Processes. - Justin D. Silverman; Kimberly Roche; Zachary C. Holmes; Lawrence A. David; Sayan Mukherjee 001 (J. Mach. Learn. Res., 2022)

Addressing erroneous scale assumptions in microbe and gene set enrichment analysis. - Kyle C. McGovern; Michelle Pistner Nixon; Justin D. Silverman (PLoS Comput. Biol., 2023)

From pre-test and post-test probabilities to medical decision making. - Michelle Pistner Nixon; Farhani Momotaz; Claire Smith; Jeffrey S. Smith; Mark P. Sendak; Christopher Polage; Justin D. Silverman (BMC Medical Informatics Decis. Mak., 2024)

Scalable Inference for Bayesian Multinomial Logistic-Normal Dynamic Linear Models. - Manan Saxena; Tinghua Chen; Justin D. Silverman (AISTATS, 2025)

Replacing normalizations with interval assumptions enhances differential expression and differential abundance analyses. - Kyle C. McGovern; Justin D. Silverman (BMC Bioinform., 2025)