A model-based optimization framework for the inference on gene regulatory networks from DNA array data. - Reuben Thomas; Sanjay Mehrotra; Eleftherios T. Papoutsakis; Vassily Hatzimanikatis (Bioinform., 2004)

A model-based optimization framework for the inference of regulatory interactions using time-course DNA microarray expression data. - Reuben Thomas; Carlos J. Paredes; Sanjay Mehrotra; Vassily Hatzimanikatis; Eleftherios T. Papoutsakis (BMC Bioinform., 2007)

Genetic and environmental pathways to complex diseases. - Julia M. Gohlke; Reuben Thomas; Yonqing Zhang; Michael C. Rosenstein; Allan Peter Davis; Cynthia G. Murphy; Kevin G. Becker; Carolyn J. Mattingly; Christopher J. Portier (BMC Syst. Biol., 2009)

Validation and characterization of DNA microarray gene expression data distribution and associated moments. - Reuben Thomas; Luis de la Torre; Xiaoqing Chang; Sanjay Mehrotra (BMC Bioinform., 2010)

Features that define the best ChIP-seq peak calling algorithms. - Reuben Thomas; Sean Thomas; Alisha K. Holloway; Katherine S. Pollard (Briefings Bioinform., 2017)

Identifying patterns in amyotrophic lateral sclerosis progression from sparse longitudinal data. - Divya Ramamoorthy; Kristen Severson; Soumya Ghosh; Karen Sachs; Emily G. Baxi; Alyssa N. Coyne; Elizabeth Mosmiller; Lindsey Hayes; Aianna Cerezo; Omar Ahmad; Promit Roy; Steven Zeiler; et al. (Nat. Comput. Sci., 2022)