Molecular dynamics/order parameter extrapolation for bionanosystem simulations. - Yinglong Miao; Peter J. Ortoleva (J. Comput. Chem., 2009)

Accelerated molecular dynamics simulations of protein folding. - Yinglong Miao; Ferran Feixas; Changsun Eun; James Andrew McCammon (J. Comput. Chem., 2015)

G-Protein-Coupled Receptor-Membrane Interactions Depend on the Receptor Activation State. - Apurba Bhattarai; Jinan Wang; Yinglong Miao (J. Comput. Chem., 2020)

MPC-MPNet: Model-Predictive Motion Planning Networks for Fast, Near-Optimal Planning Under Kinodynamic Constraints. - Linjun Li; Yinglong Miao; Ahmed H. Qureshi; Michael C. Yip (IEEE Robotics Autom. Lett., 2021)

Motion Planning Networks: Bridging the Gap Between Learning-Based and Classical Motion Planners. - Ahmed Hussain Qureshi; Yinglong Miao; Anthony Simeonov; Michael C. Yip (IEEE Trans. Robotics, 2021)

Online Object Model Reconstruction and Reuse for Lifelong Improvement of Robot Manipulation. - Shiyang Lu; Rui Wang 087; Yinglong Miao; Chaitanya Mitash; Kostas E. Bekris (ICRA, 2022)

Efficient and High-quality Prehensile Rearrangement in Cluttered and Confined Spaces. - Rui Wang 087; Yinglong Miao; Kostas E. Bekris (ICRA, 2022)

Safe, Occlusion-Aware Manipulation for Online Object Reconstruction in Confined Spaces. - Yinglong Miao; Rui Wang 087; Kostas E. Bekris (ISRR, 2022)

Resolution Complete In-Place Object Retrieval given Known Object Models. - Daniel Nakhimovich; Yinglong Miao; Kostas E. Bekris (ICRA, 2023)

Mechanism of Ligand Binding to Theophylline RNA Aptamer. - Sana Akhter; Zhichao Tang; Jinan Wang; Mercy Haboro; Erik D. Holmstrom; Jingxin Wang; Yinglong Miao (J. Chem. Inf. Model., 2024)

Mechanistic insights into ligand dissociation from the SARS-CoV-2 spike glycoprotein. - Timothy Hasse; Esra Mantei; Rezvan Shahoei; Shristi Pawnikar; Jinan Wang; Yinglong Miao; Yu-ming M. Huang (PLoS Comput. Biol., 2024)

Recent Developments in Amber Biomolecular Simulations. - David A. Case; David S. Cerutti; Vinícius Wilian D. Cruzeiro; Thomas A. Darden; Robert E. Duke; Mahdieh Ghazimirsaeed; George M. Giambasu; Timothy J. Giese; Andreas W. Götz; Julie A. Harris; Koushik Kasavajhala; Tai-Sung Lee; et al. (J. Chem. Inf. Model., 2025)