Using MoBIoS' scalable genome join to find conserved primer pair candidates between two genomes. - Weijia Xu; Willard J. Briggs; Joanna Padolina; Ruth E. Timme; Wenguo Liu 003; C. Randal Linder; Daniel P. Miranker (ISMB/ECCB (Supplement of Bioinformatics), 2004)

Phylogenetic Networks: Modeling, Reconstructibility, and Accuracy. - Bernard M. E. Moret; Luay Nakhleh; Tandy J. Warnow; C. Randal Linder; Anna Tholse; Anneke Padolina; Jerry Sun 001; Ruth E. Timme (IEEE ACM Trans. Comput. Biol. Bioinform., 2004)

TreeToReads - a pipeline for simulating raw reads from phylogenies. - Emily Jane McTavish; James B. Pettengill; Steve Davis 002; Hugh Rand; Errol Strain; Marc Allard; Ruth E. Timme (BMC Bioinform., 2017)