Exploratory Analysis of Co-Change Graphs for Code Refactoring. - Hassan Khosravi; Recep Colak (Canadian AI, 2009)

Dense Graphlet Statistics of Protein Interaction and Random Networks. - Recep Colak; Fereydoun Hormozdiari; Flavia Moser; Alexander Schönhuth; J. Holman; Martin Ester; Süleyman Cenk Sahinalp (Pacific Symposium on Biocomputing, 2009)

Mining Cohesive Patterns from Graphs with Feature Vectors. - Flavia Moser; Recep Colak; Arash Rafiey; Martin Ester (SDM, 2009)

Inferring cancer subnetwork markers using density-constrained biclustering. - Phuong Dao; Recep Colak; Raheleh Salari; Flavia Moser; Elai Davicioni; Alexander Schönhuth; Martin Ester (Bioinform., 2010)

Distinct Types of Disorder in the Human Proteome: Functional Implications for Alternative Splicing. - Recep Colak; TaeHyung Kim; Magali Michaut; Mark G. F. Sun; Manuel Irimia; Jeremy Bellay; Chad L. Myers; Benjamin J. Blencowe; Philip M. Kim (PLoS Comput. Biol., 2013)

JBASE: Joint Bayesian Analysis of Subphenotypes and Epistasis. - Recep Colak; TaeHyung Kim; Hilal Kazan; Yoomi Oh; Miguel Cruz; Adan Valladares-Salgado; Jesus Peralta; Jorge Escobedo; Esteban J. Parra; Philip M. Kim; Anna Goldenberg (Bioinform., 2016)

ELASPIC web-server: proteome-wide structure-based prediction of mutation effects on protein stability and binding affinity. - Daniel K. Witvliet; Alexey Strokach; Andrés Felipe Giraldo-Forero; Joan Teyra; Recep Colak; Philip M. Kim (Bioinform., 2016)

Novel Machine Learning Models for Identification, Characterization and Prioritization of Phenotype-Genotype Associations. - Recep Colak (2016)

Implementing Recommendation Algorithms in a Large-Scale Biomedical Science Knowledge Base. - Jessica Perrie; Yanqi Hao; Zack Hayat; Recep Colak; Kelly A. Lyons; Shankar Vembu; Sam Molyneux (CoRR, 2017)

A qualitative study of large-scale recommendation algorithms for biomedical knowledge bases. - Ehsan Noei; Tsahi Hayat; Jessica Perrie; Recep Colak; Yanqi Hao; Shankar Vembu; Kelly A. Lyons; Sam Molyneux (Int. J. Digit. Libr., 2021)