Microbiome Dynamics as Predictors of Lung Transplant Rejection. - Ahmed Metwally 002; Christian Ascoli; Kalista Andropolis; Ravi Ranjan; Yang Dai; Thomas Ferkol; Patricia W. Finn; David L. Perkins (BCB, 2017)

Detection of Differential Abundance Intervals in Longitudinal Metagenomic Data Using Negative Binomial Smoothing Spline ANOVA. - Ahmed A. Metwally; Patricia W. Finn; Yang Dai; David L. Perkins (BCB, 2017)

Taxonomic Classification at the Strain Level using a Species-of-Interest $ boldsymbol{k}$-mer Database. - Mladen R. Rasic; Ahmed A. Metwally; Patricia W. Finn; David L. Perkins (BHI, 2019)

Utilizing longitudinal microbiome taxonomic profiles to predict food allergy via Long Short-Term Memory networks. - Ahmed A. Metwally; Philip S. Yu; Derek Reiman; Yang Dai; Patricia W. Finn; David L. Perkins (PLoS Comput. Biol., 2019)