Buying in to bioinformatics: an introduction to commercial sequence analysis software. - David Roy Smith (Briefings Bioinform., 2015)

Unraveling chloroplast transcriptomes with ChloroSeq, an organelle RNA-Seq bioinformatics pipeline. - David Roy Smith; Matheus Sanitá Lima (Briefings Bioinform., 2017)

HSDFinder: A BLAST-Based Strategy for Identifying Highly Similar Duplicated Genes in Eukaryotic Genomes. - Xi Zhang; Yining Hu; David Roy Smith (Frontiers Bioinform., 2021)

HSDatabase - a database of highly similar duplicate genes from plants, animals, and algae. - Xi Zhang; Yining Hu; David Roy Smith (Database J. Biol. Databases Curation, 2022)