THOR: targeted high-throughput ortholog reconstructor. - Matthew N. Bainbridge; René L. Warren; An He; Mikhail Bilenky; Gordon Robertson; Steven J. M. Jones (Bioinform., 2007)

FindPeaks 3.1: a tool for identifying areas of enrichment from massively parallel short-read sequencing technology. - Anthony P. Fejes; Gordon Robertson; Mikhail Bilenky; Richard Varhol; Matthew N. Bainbridge; Steven J. M. Jones (Bioinform., 2008)

ORegAnno: an open-access community-driven resource for regulatory annotation. - Obi L. Griffith; Stephen B. Montgomery; Bridget Bernier; Bryan Chu; Katayoon Kasaian; Stein Aerts; Shaun Mahony; Monica C. Sleumer; Mikhail Bilenky; Maximilian Haeussler; Malachi Griffith; Steven M. Gallo; et al. (Nucleic Acids Res., 2008)

KiWi: A Scalable Subspace Clustering Algorithm for Gene Expression Analysis - Obi L. Griffith; Byron J. Gao; Mikhail Bilenky; Yuliya Prichyna; Martin Ester; Steven J. M. Jones (CoRR, 2009)

Genomic analysis of a rare human tumor. - Steven J. M. Jones; Janessa Laskin; Yvonne Y. Li; Obi L. Griffith; Jianghong An; Mikhail Bilenky; Yaron S. N. Butterfield; Timothee Cezard; Eric Chuah; Richard Corbett; Anthony P. Fejes; Malachi Griffith; et al. (BMC Bioinform., 2010)