Berkeley PHOG: PhyloFacts orthology group prediction web server. - Ruchira S. Datta; Christopher Meacham; Bushra Samad; Christoph Neyer; Kimmen Sjölander (Nucleic Acids Res., 2009)

SATCHMO-JS: a webserver for simultaneous protein multiple sequence alignment and phylogenetic tree construction. - Raffi Hagopian; John R. Davidson; Ruchira S. Datta; Bushra Samad; Glen R. Jarvis; Kimmen Sjölander (Nucleic Acids Res., 2010)

The PhyloFacts FAT-CAT web server: ortholog identification and function prediction using fast approximate tree classification. - Cyrus Afrasiabi; Bushra Samad; David Dineen; Christopher Meacham; Kimmen Sjölander (Nucleic Acids Res., 2013)