SHRiMP: Accurate Mapping of Short Color-space Reads. - Stephen M. Rumble; Phil Lacroute; Adrian V. Dalca; Marc Fiume; Arend Sidow; Michael Brudno (PLoS Comput. Biol., 2009)

Savant: genome browser for high-throughput sequencing data. - Marc Fiume; Vanessa Williams; Andrew Brook; Michael Brudno (Bioinform., 2010)

Variant detection and the Autism sequencing project. - Orion J. Buske; Misko Dzamba; Justin Foong; Lynette Lau; Marc Fiume; Christian Marshall; Susan Walker; Aparna Prasad; Michael Brudno (BMC Bioinform., 2011)

Savant Genome Browser 2: visualization and analysis for population-scale genomics. - Marc Fiume; Eric J. M. Smith; Andrew Brook; Dario Strbenac; Brian Turner; Aziz M. Mezlini; Mark D. Robinson; Shoshana J. Wodak; Michael Brudno (Nucleic Acids Res., 2012)

System for Interpretation of Personal Genomes. - Marc Fiume (2015)