PerM: efficient mapping of short sequencing reads with periodic full sensitive spaced seeds. - Yangho Chen; Tade Souaiaia; Ting Chen (Bioinform., 2009)

RseqFlow: workflows for RNA-Seq data analysis. - Ying Wang; Gaurang Mehta; Rajiv Mayani; Jingxi Lu; Tade Souaiaia; Yangho Chen; Andrew P. Clark; Hee Jae Yoon; Lin Wan; Oleg V. Evgrafov; James A. Knowles; Ewa Deelman; et al. (Bioinform., 2011)

ComB: SNP Calling and Mapping Analysis for Color and Nucleotide Space Platforms. - Tade Souaiaia; Zach Frazier; Ting Chen (J. Comput. Biol., 2011)

A Mathematical Model of the Environmental Effects on Long Jump Performance of World Class Athletes. - Tade Souaiaia; Jonas Mureika (Int. J. Comput. Sci. Sport, 2012)