AlignStat: a web-tool and R package for statistical comparison of alternative multiple sequence alignments. - Thomas Shafee; Ira Cooke (BMC Bioinform., 2016)

Transcriptomics technologies. - Rohan Lowe; Neil J. Shirley; Mark Bleackley; Stephen Dolan; Thomas Shafee (PLoS Comput. Biol., 2017)

A quantitative map of protein sequence space for the cis-defensin superfamily. - Thomas Shafee; Marilyn A. Anderson (Bioinform., 2019)

Wikidata: A large-scale collaborative ontological medical database. - Houcemeddine Turki; Thomas Shafee; Mohamed Ali Hadj Taieb; Mohamed Ben Aouicha; Denny Vrandecic; Diptanshu Das; Helmi Hamdi (J. Biomed. Informatics, 2019)

Using logical constraints to validate statistical information about disease outbreaks in collaborative knowledge graphs: the case of COVID-19 epidemiology in Wikidata. - Houcemeddine Turki; Dariusz Jemielniak; Mohamed Ali Hadj Taieb; José Emilio Labra Gayo; Mohamed Ben Aouicha; Mus'ab Banat; Thomas Shafee; Eric Prud'hommeaux; Tiago Lubiana; Diptanshu Das; Daniel Mietchen (PeerJ Comput. Sci., 2022)

Representing COVID-19 information in collaborative knowledge graphs: The case of Wikidata. - Houcemeddine Turki; Mohamed Ali Hadj Taieb; Thomas Shafee; Tiago Lubiana; Dariusz Jemielniak; Mohamed Ben Aouicha; José Emilio Labra Gayo; Eric A. Youngstrom; Mus'ab Banat; Diptanshu Das; Daniel Mietchen (Semantic Web, 2022)

Ten quick tips for editing Wikidata. - Thomas Shafee; Daniel Mietchen; Tiago Lubiana; Dariusz Jemielniak; Andra Waagmeester (PLoS Comput. Biol., 2023)