Performance evaluation of a community structure finding algorithm using modularity and C-rand measures. - Harun Pirim; Dilip Gautam; Tanmay Bhowmik; Andy D. Perkins; Burak Eksioglu (IJCNN, 2010)

Clustering of high throughput gene expression data. - Harun Pirim; Burak Eksioglu; Andy D. Perkins; Çetin Yüceer (Comput. Oper. Res., 2012)

Finding Number of Clusters in a Gene Co-expression Network Using Independent Sets. - Harun Pirim (SocialCom, 2013)

Clustering high throughput biological data with B-MST, a minimum spanning tree based heuristic. - Harun Pirim; Burak Eksioglu; Andy D. Perkins (Comput. Biol. Medicine, 2015)

Mathematical programming for social network analysis. - Harun Pirim (IEEE BigData, 2017)

A Novel Mixed Integer Linear Programming Model for Clustering Relational Networks. - Harun Pirim; Burak Eksioglu; Fred W. Glover (J. Optim. Theory Appl., 2018)

Brain Functional Connectivity Pattern Recognition for Attention-deficit/hyperactivity Disorder Diagnosis. - Harun Pirim; Miaolin Fan; Haifeng Wang (BIBM, 2020)

Dynamic Network Connectivity Analysis for Understanding Attention Deficit Hyperactivity Disorder. - Harun Pirim; Miaolin Fan; Haifeng Wang (ICHI, 2022)

Modified Modularity Density Maximization and Density Ratio Heuristic. - Zead Saleh; Harun Pirim (Comput. Oper. Res., 2023)

Integrated twitter analysis to distinguish systems thinkers at various levels: a case study of COVID-19. - Harun Pirim; Morteza Nagahi; Oumaima Larif; Mohammad Nagahisarchoghaei; Raed M. Jaradat (Appl. Netw. Sci., 2023)

Building Political Hashtag Communities: A Multiplex Network Analysis of U.S. Senators on Twitter during the 2022 Midterm Elections. - Yunus Emre Orhan; Harun Pirim; Yusuf Akbulut (Comput., 2023)

Machine learning approaches for predicting craniofacial anomalies with graph neural networks. - Colten Alme; Harun Pirim; Yusuf Akbulut (Comput. Biol. Chem., 2025)

Link Prediction and Navigability of Multiplex Energy Networks. - Muhammad Kazim; Harun Pirim; Chau Le; Trung Le 007; Om Prakash Yadav (CoRR, 2025)

Multilayer GNN for Predictive Maintenance and Clustering in Power Grids. - Muhammad Kazim; Harun Pirim; Chau Le; Trung Le 007; Om Prakash Yadav (CoRR, 2025)