Analysis and prediction of protein folding energy changes upon mutation by element specific persistent homology. - Zixuan Cang; Guo-Wei Wei 001 (Bioinform., 2017)

TopologyNet: Topology based deep convolutional and multi-task neural networks for biomolecular property predictions. - Zixuan Cang; Guo-Wei Wei 001 (PLoS Comput. Biol., 2017)

Protein pocket detection via convex hull surface evolution and associated Reeb graph. - Rundong Zhao; Zixuan Cang; Yiying Tong; Guo-Wei Wei 001 (Bioinform., 2018)

Representability of algebraic topology for biomolecules in machine learning based scoring and virtual screening. - Zixuan Cang; Lin Mu; Guo-Wei Wei 001 (PLoS Comput. Biol., 2018)

Mathematical deep learning for pose and binding affinity prediction and ranking in D3R Grand Challenges. - Duc Duy Nguyen; Zixuan Cang; Kedi Wu; Menglun Wang; Yin Cao; Guo-Wei Wei 001 (J. Comput. Aided Mol. Des., 2019)

Evolutionary homology on coupled dynamical systems with applications to protein flexibility analysis. - Zixuan Cang; Elizabeth Munch; Guo-Wei Wei 001 (J. Appl. Comput. Topol., 2020)

A topology-based network tree for the prediction of protein-protein binding affinity changes following mutation. - Menglun Wang; Zixuan Cang; Guo-Wei Wei 001 (Nat. Mach. Intell., 2020)

Persistent Cohomology for Data With Multicomponent Heterogeneous Information. - Zixuan Cang; Guo-Wei Wei 001 (SIAM J. Math. Data Sci., 2020)

Scan-IT: Domain segmentation of spatial transcriptomics images by graph neural network. - Zixuan Cang; Xinyi Ning; Annika Nie; Min Xu; Jing Zhang (BMVC, 2021)

A multiscale model via single-cell transcriptomics reveals robust patterning mechanisms during early mammalian embryo development. - Zixuan Cang; Yangyang Wang; Qixuan Wang; Ken W. Y. Cho; William R. Holmes; Qing Nie (PLoS Comput. Biol., 2021)

AVIDA: Alternating method for Visualizing and Integrating Data. - Kathryn Dover; Zixuan Cang; Anna Ma; Qing Nie; Roman Vershynin (CoRR, 2022)

Supervised Optimal Transport. - Zixuan Cang; Qing Nie; Yanxiang Zhao (SIAM J. Appl. Math., 2022)

AVIDA: An alternating method for visualizing and integrating data. - Kathryn Dover; Zixuan Cang; Anna Ma; Qing Nie; Roman Vershynin (J. Comput. Sci., 2023)

Topological and geometric analysis of cell states in single-cell transcriptomic data. - Tram Huynh; Zixuan Cang (Briefings Bioinform., 2024)

Synchronized Optimal Transport for Joint Modeling of Dynamics Across Multiple Spaces. - Zixuan Cang; Yanxiang Zhao (SIAM J. Appl. Math., 2025)

Supervised Gromov-Wasserstein Optimal Transport with Metric-Preserving Constraints. - Zixuan Cang; Yaqi Wu; Yanxiang Zhao (SIAM J. Math. Data Sci., 2025)