| 2021 | ICRA | Learning Surgical Motion Pattern from Small Data in Endoscopic Sinus and Skull Base Surgeries. | Yangming Li, Randall A. Bly, Sarah Akkina, Fangbo Qin, Rajeev C. Saxena, Ian Humphreys, Mark Whipple, Kris S. Moe, Blake Hannaford |
| 2018 | AMIA | Variation in the representation of human anatomy within digital resources: Implications for data integration. | Melissa D. Clarkson, Mark Whipple |
| 2016 | AMIA | Development of a Novel Markov Chain Model for the Prediction of Head and Neck Squamous Cell Carcinoma Dissemination. | Hyunggu Jung, Anthony Law, Eli Grunblatt, Lucy Lu Wang, Aaron S. Kusano, Jos L. V. Mejino Jr., Mark Whipple |
| 2016 | AMIA | Auditing tree-like organ systems in the FMA using network motifs. | Lucy Lu Wang, Eli Grunblatt, Mark Whipple |
| 2015 | AMIA | Biological Model Development as an Opportunity to Provide Content Auditing for the Foundational Model of Anatomy Ontology. | Lucy Lu Wang, Eli Grunblatt, Hyunggu Jung, Ira Kalet, Mark Whipple |
| 2006 | AMIA | A Markov Model Approach to Predicting Regional Tumor Spread in the Lymphatic System of the Head and Neck. | Noah Benson, Mark Whipple, Ira J. Kalet |
| 2003 | AMIA | Functional Relationships Between Gene Pairs in Oral Squamous Cell Carcinoma. | Winston Patrick Kuo, Eduardo Mendez, Chu Chen, Mark Whipple, Greg Farell, Nicholas Agoff, Peter J. Park |
| 2002 | AMIA | A rule-based model for local and regional tumor spread. | Ira J. Kalet, Mark Whipple, Silvia Pessah, Jerry Barker, Mary M. Austin-Seymour, Linda G. Shapiro |
| 2002 | AMIA | Head and neck lymph node region delineation with 3-D CT image registration. | Chia-Chi Teng, Mary M. Austin-Seymour, Jerry Barker, Ira J. Kalet, Linda G. Shapiro, Mark Whipple |