TransCell: In Silico Characterization of Genomic Landscape and Cellular Responses by Deep Transfer Learning. - Shan-Ju Yeh; Shreya Paithankar; Ruoqiao Chen; Jing Xing; Mengying Sun; Ke Liu; Jiayu Zhou; Bin Chen (Genom. Proteom. Bioinform., 2024)

SPIDER package. - Ruoqiao Chen; Jiayu Zhou; Bin Chen (Zenodo, 2024)

SPIDER package. - Ruoqiao Chen; Jiayu Zhou; Bin Chen (Zenodo, 2024)

AnchorDrug: A system for drug-induced gene expression prediction in new contexts through active learning. - Han Meng; Ruoqiao Chen; Bin Chen; Jiayu Zhou (SDM, 2025)

Large-scale information retrieval and correction of noisy pharmacogenomic datasets through residual thresholded deep matrix factorization. - Zhiyue Tom Hu; Yaodong Yu; Ruoqiao Chen; Shan-Ju Yeh; Bin Chen; Haiyan Huang (Briefings Bioinform., 2025)