Assembly independent functional annotation of short-read data using SOFA: Short-ORF functional annotation. - Aria S. Hahn; Niels W. Hanson; Dongjae Kim; Kishori M. Konwar; Steven J. Hallam (CIBCB, 2015)

FragGeneScan-plus for scalable high-throughput short-read open reading frame prediction. - Dongjae Kim; Aria S. Hahn; Shang-Ju Wu; Niels W. Hanson; Kishori M. Konwar; Steven J. Hallam (CIBCB, 2015)

MetaPathways v2.5: quantitative functional, taxonomic and usability improvements. - Kishori M. Konwar; Niels W. Hanson; Maya P. Bhatia; Dongjae Kim; Shang-Ju Wu; Aria S. Hahn; Connor Morgan-Lang; Hiu Kan Cheung; Steven J. Hallam (Bioinform., 2015)

FAST: Fast annotation with synchronized threads. - Dongjae Kim; Aria S. Hahn; Niels W. Hanson; Kishori M. Konwar; Steven J. Hallam (CIBCB, 2016)

Hive Panel Explorer: an interactive network visualization tool. - Sarah E. I. Perez; Aria S. Hahn; Martin Krzywinski; Steven J. Hallam (Bioinform., 2021)