Identification of functional modules from conserved ancestral protein-protein interactions. - Janusz Dutkowski; Jerzy Tiuryn (ISMB/ECCB (Supplement of Bioinformatics), 2007)

On consensus biomarker selection. - Janusz Dutkowski; Anna Gambin (BMC Bioinform., 2007)

Phylogeny-guided interaction mapping in seven eukaryotes. - Janusz Dutkowski; Jerzy Tiuryn (BMC Bioinform., 2009)

Classification of peptide mass fingerprint data by novel no-regret boosting method. - Anna Gambin; Ewa Szczurek; Janusz Dutkowski; Magda Bakun; Michal Dadlez (Comput. Biol. Medicine, 2009)

MODEVO: exploring modularity and evolution of protein interaction networks. - Michal Wozniak 002; Jerzy Tiuryn; Janusz Dutkowski (Bioinform., 2010)

Protein Networks as Logic Functions in Development and Cancer. - Janusz Dutkowski; Trey Ideker (PLoS Comput. Biol., 2011)

A Probabilistic Model of Neutral and Selective Dynamics of Protein Network Evolution. - Janusz Dutkowski; Jerzy Tiuryn (J. Comput. Biol., 2013)

Improving Breast Cancer Survival Analysis through Competition-Based Multidimensional Modeling. - Erhan Bilal; Janusz Dutkowski; Justin Guinney; In Sock Jang; Benjamin A. Logsdon; Gaurav Pandey 002; Benjamin A. Sauerwine; Yishai Shimoni; Hans Kristian Moen Vollan; Brigham H. Mecham; Oscar M. Rueda; Jorg Tost; et al. (PLoS Comput. Biol., 2013)

Inferring gene ontologies from pairwise similarity data. - Michael Kramer; Janusz Dutkowski; Michael Yu; Vineet Bafna; Trey Ideker (Bioinform., 2014)

NeXO Web: the NeXO ontology database and visualization platform. - Janusz Dutkowski; Keiichiro Ono; Michael Kramer; Michael Yu; Dexter Pratt; Barry Demchak; Trey Ideker (Nucleic Acids Res., 2014)