A novel method for assigning functional linkages to proteins using enhanced phylogenetic trees. - Hung Xuan Ta; Patrik Koskinen; Liisa Holm (Bioinform., 2011)

SANS: high-throughput retrieval of protein sequences allowing 50% mismatches. - Patrik Koskinen; Liisa Holm (Bioinform., 2012)

PANNZER: high-throughput functional annotation of uncharacterized proteins in an error-prone environment. - Patrik Koskinen; Petri Törönen; Jussi Nokso-Koivisto; Liisa Holm (Bioinform., 2015)

BARCOSEL: a tool for selecting an optimal barcode set for high-throughput sequencing. - Panu Somervuo; Patrik Koskinen; Peng Mei; Liisa Holm; Petri Auvinen; Lars Paulin (BMC Bioinform., 2018)