PairsDB atlas of protein sequence space. - Andreas Heger; Eija Korpelainen; Taavi Hupponen; Kimmo Mattila; Vesa Ollikainen; Liisa Holm (Nucleic Acids Res., 2008)

The 20th anniversary of EMBnet: 20 years of bioinformatics for the Life Sciences community. - Domenica D'Elia; Andreas Gisel; Nils-Einar Eriksson; Sophia Kossida; Kimmo Mattila; Lubos Klucar; Erik Bongcam-Rudloff (BMC Bioinform., 2009)

Code Optimization of the Subroutine to Remove Near Identical Matches in the Sequence Database Homology Search Tool PSI-BLAST. - Mats Aspnäs; Kimmo Mattila; Kristoffer Osowski; Jan Westerholm (J. Comput. Biol., 2010)

META-pipe cloud setup and execution. - Aleksandr Agafonov; Kimmo Mattila; Cuong Duong Tuan; Lars Tiede; Inge Alexander Raknes; Lars Ailo Bongo (F1000Research, 2017)