PARSES: A Pipeline for Analysis of RNA-Seq Exogenous Sequences. - Joseph R. Coco; Erik K. Flemington; Christopher M. Taylor (BICoB, 2011)

SAMMate: a GUI tool for processing short read alignments in SAM/BAM format. - Guorong Xu; Nan Deng; Zhiyu Zhao; Thair Judeh; Erik K. Flemington; Dongxiao Zhu (Source Code Biol. Medicine, 2011)

The modularity and dynamicity of miRNA-mRNA interactions in high-grade serous ovarian carcinomas and the prognostic implication. - Wensheng Zhang 005; Andrea Edwards; Wei Fan 001; Erik K. Flemington; Kun Zhang 012 (Comput. Biol. Chem., 2016)

Driver gene mutations based clustering of tumors: methods and applications. - Wensheng Zhang 005; Erik K. Flemington; Kun Zhang 012 (Bioinform., 2018)

SpliceV: analysis and publication quality printing of linear and circular RNA splicing, expression and regulation. - Nathan Ungerleider; Erik K. Flemington (BMC Bioinform., 2019)