ForceFit: A code to fit classical force fields to quantum mechanical potential energy surfaces. - Benjamin Waldher; Jadwiga Kuta; Samuel Chen; Neil J. Henson; Aurora E. Clark (J. Comput. Chem., 2010)

Simulation and analysis framework for cyber-physical systems. - Zachary Hill; Samuel Chen; Donald Wall; Mauricio Papa; John Hale; Peter J. Hawrylak (CISRC, 2017)

Integrated Embedding Approach for Knowledge Base Completion with CNN. - Samuel Chen; Shengyi Xie; Qingqiang Chen (Inf. Technol. Control., 2020)

Project-based app programming: tools and techniques for a successful novice-focused app development course. - Michael Makutonin; Samuel Chen (J. Comput. Sci. Coll., 2020)

WashU Epigenome Browser update 2022. - Daofeng Li; Deepak Purushotham; Jessica K. Harrison; Silas Hsu; Xiaoyu Zhuo; Changxu Fan; Shane Liu; Vincent Xu; Samuel Chen; Jason Xu; Shinyi Ouyang; Angela S. Wu; et al. (Nucleic Acids Res., 2022)

Pico-Scale Science for Pedestrian-Scale Solutions (PSS4PSS): A Computational Toolbox Leveraging Molecular Simulation for Pedestrian Dynamics. - Samuel Chen; Emerson K. Collins; Vincent M. Cheng; Kelby B. Kramer; Gerald J. Wang (BuildSys, 2024)

Designing an AI Chatbot for Team-Based Diabetes Care: An Iterative Human-in-the-Loop Approach. - Yuan-Chi Tseng; Samuel Chen; Kang-Heng Mah; Yu-Chang Chen (HCI (20), 2025)