Predicting Protein-Protein Interactions by Association Mining. - Max Kotlyar; Igor Jurisica (Inf. Syst. Frontiers, 2006)

NAViGaTOR: Large Scalable and Interactive Navigation and Analysis of Large Graphs. - Amira Djebbari; Muhammad Ali; David Otasek; Max Kotlyar; Kristen Fortney; Serene Wong; Anthony Hrvojic; Igor Jurisica (Internet Math., 2011)

NetwoRx: connecting drugs to networks and phenotypes in Saccharomyces cerevisiae. - Kristen Fortney; Wing Xie; Max Kotlyar; Joshua Griesman; Yulia Kotseruba; Igor Jurisica (Nucleic Acids Res., 2013)

Prioritizing Therapeutics for Lung Cancer: An Integrative Meta-analysis of Cancer Gene Signatures and Chemogenomic Data. - Kristen Fortney; Joshua Griesman; Max Kotlyar; Chiara Pastrello; Marc Angeli; Ming-Sound Tsao; Igor Jurisica (PLoS Comput. Biol., 2015)

Integrated interactions database: tissue-specific view of the human and model organism interactomes. - Max Kotlyar; Chiara Pastrello; Nicholas Sheahan; Igor Jurisica (Nucleic Acids Res., 2016)

Machine Learning for In Silico Modeling of Tumor Growth. - Fleur Jeanquartier; Claire Jean-Quartier; Max Kotlyar; Tomás Tokár; Anne-Christin Hauschild; Igor Jurisica; Andreas Holzinger (Machine Learning for Health Informatics, 2016)

SDREGION: Fast Spotting of Changing Communities in Biological Networks. - Serene W. H. Wong; Chiara Pastrello; Max Kotlyar; Christos Faloutsos; Igor Jurisica (KDD, 2018)

IID 2018 update: context-specific physical protein-protein interactions in human, model organisms and domesticated species. - Max Kotlyar; Chiara Pastrello; Zara Malik; Igor Jurisica (Nucleic Acids Res., 2019)

Protein-Protein Interaction Databases. - Max Kotlyar; Chiara Pastrello; Andrea E. M. Rossos; Igor Jurisica (Encyclopedia of Bioinformatics and Computational Biology (1), 2019)

The IMEx coronavirus interactome: an evolving map of Coronaviridae-host molecular interactions. - Livia Perfetto; Chiara Pastrello; Noemi del-Toro; Margaret J. Duesbury; Marta Iannuccelli; Max Kotlyar; Luana Licata; Birgit Meldal; Kalpana Panneerselvam; Simona Panni; N. Rahimzadeh; Sylvie Ricard-Blum; et al. (Database J. Biol. Databases Curation, 2020)

pathDIP 4: an extended pathway annotations and enrichment analysis resource for human, model organisms and domesticated species. - Sara Rahmati; Mark Abovsky; Chiara Pastrello; Max Kotlyar; Richard Lu; Christian A. Cumbaa; Proton Rahman; Vinod Chandran; Igor Jurisica (Nucleic Acids Res., 2020)

Informed Use of Protein-Protein Interaction Data: A Focus on the Integrated Interactions Database (IID). - Chiara Pastrello; Max Kotlyar; Igor Jurisica (Protein-Protein Interaction Networks, 2020)

IID 2021: towards context-specific protein interaction analyses by increased coverage, enhanced annotation and enrichment analysis. - Max Kotlyar; Chiara Pastrello; Zuhaib Ahmed; Justin Chee; Zofia Varyova; Igor Jurisica (Nucleic Acids Res., 2022)

MirDIP 5.2: tissue context annotation and novel microRNA curation. - Anne-Christin Hauschild; Chiara Pastrello; Gitta Kirana Anindya Ekaputeri; Dylan Bethune-Waddell; Mark Abovsky; Zuhaib Ahmed; Max Kotlyar; Richard Lu; Igor Jurisica (Nucleic Acids Res., 2023)

USNAP: fast unique dense region detection and its application to lung cancer. - Serene W. H. Wong; Chiara Pastrello; Max Kotlyar; Christos Faloutsos; Igor Jurisica (Bioinform., 2023)