| 2020 | BIBE | Interpretable Factors in scRNA-seq Data with Disentangled Generative Models. | Haiyi Mao, Matthew J. Broerman, Panayiotis V. Benos |
| 2018 | KDD | Evaluation of Causal Structure Learning Methods on Mixed Data Types. | Vineet K. Raghu, Allen Poon, Panayiotis V. Benos |
| 2017 | ICDE | Integrated Theory-and Data-Driven Feature Selection in Gene Expression Data Analysis. | Vineet K. Raghu, Xiaoyu Ge, Panos K. Chrysanthis, Panayiotis V. Benos |
| 2015 | PSB | T-ReCS: Stable Selection of Dynamically Formed Groups of Features with Application to Prediction of Clinical Outcomes. | Grace T. Huang, Ioannis Tsamardinos, Vineet K. Raghu, Naftali Kaminski, Panayiotis V. Benos |
| 2013 | PSB | Spectral Clustering Strategies for Heterogeneous Disease Data. | Grace T. Huang, Kathryn I. Cunningham, Panayiotis V. Benos, Chakra S. Chennubhotla |
| 2008 | ICASSP | Biological evaluation of biclustering algorithms using Gene Ontology and chIP-chip data. | Alain B. Tchagang, Ahmed H. Tewfik, Panayiotis V. Benos |
| 2007 | ISMB | Inferring protein-DNA dependencies using motif alignments and mutual information. | Shaun Mahony, Philip E. Auron, Panayiotis V. Benos |
| 2005 | ISMB | Improved detection of DNA motifs using a self-organized clustering of familial binding profiles. | Shaun Mahony, Aaron Golden, Terry J. Smith, Panayiotis V. Benos |
| 2001 | PSB | SAMIE: Statistical Algorithm for Modeling Interaction Energies. | Panayiotis V. Benos, Alan S. Lapedes, D. S. Fields, Gary D. Stormo |