PMSGA: A Fast DNA Fragment Assembler. - Juho Mäkinen; Jorma Tarhio; Sami Khuri (BIOINFORMATICS, 2010)

GAST, a Genomic Alignment Search Tool. - Kalle Karhu; Juho Mäkinen; Jussi Rautio; Jorma Tarhio; Hugh Salamon (BIOINFORMATICS, 2011)