Statistical modeling of isoform splicing dynamics from RNA-seq time series data. - Yuanhua Huang; Guido Sanguinetti (Bioinform., 2016)

Systematic characterization and prediction of post-translational modification cross-talk between proteins. - Rongting Huang; Yuanhua Huang; Yubin Guo; Shangwei Ji; Ming Lu; Tingting Li (Bioinform., 2019)

Cellsnp-lite: an efficient tool for genotyping single cells. - Xianjie Huang; Yuanhua Huang (Bioinform., 2021)

Representation learning of RNA velocity reveals robust cell transitions. - Chen Qiao; Yuanhua Huang (Proc. Natl. Acad. Sci. USA, 2021)

Translation Rate Prediction and Regulatory Motif Discovery with Multi-task Learning. - Weizhong Zheng; John H. C. Fong; Yuk Kei Wan; Athena H. Y. Chu; Yuanhua Huang; Alan S. L. Wong; Joshua W. K. Ho (RECOMB, 2023)

CellContrast: Reconstructing spatial relationships in single-cell RNA sequencing data via deep contrastive learning. - Shumin Li; Jiajun Ma; Tianyi Zhao; Yuran Jia; Bo Liu; Ruibang Luo; Yuanhua Huang (Patterns, 2024)

Reliable imputation of spatial transcriptomes with uncertainty estimation and spatial regularization. - Chen Qiao; Yuanhua Huang (Patterns, 2024)