Discrete stochastic simulation of cell signaling: comparison of computational tools. - Tiina Manninen; Eeva Makiraatikka; Antti Ylipää; Antti Pettinen; Kalle Leinonen; Marja-Leena Linne (EMBC, 2006)

BioTapestry now provides a web application and improved drawing and layout tools. - Suzanne M. Paquette; Kalle Leinonen; William J. R. Longabaugh (F1000Research, 2016)

Multiscale mutation clustering algorithm identifies pan-cancer mutational clusters associated with pathway-level changes in gene expression. - William Poole; Kalle Leinonen; Ilya Shmulevich; Theo A. Knijnenburg; Brady Bernard (PLoS Comput. Biol., 2017)