RNAiDB and PhenoBlast: web tools for genome-wide phenotypic mapping projects. - Kristin C. Gunsalus; Wan-Chen Yueh; Philip MacMenamin; Fabio Piano (Nucleic Acids Res., 2004)

UTRome.org: a platform for 3'UTR biology in C. elegans. - Marco Mangone; Philip MacMenamin; Charles Zegar; Fabio Piano; Kristin C. Gunsalus (Nucleic Acids Res., 2008)

Nephele: a cloud platform for simplified, standardized and reproducible microbiome data analysis. - Nick Weber; David Liou; Jennifer Dommer; Philip MacMenamin; Mariam Quiñones; Ian Misner; Andrew J. Oler; Joe Wan; Lewis Kim; Meghan Coakley McCarthy; Samuel Ezeji; Karlynn Noble; et al. (Bioinform., 2018)