NetGen: a novel network-based probabilistic generative model for gene set functional enrichment analysis. - Duanchen Sun; Yinliang Liu; Xiang-Sun Zhang; Ling-Yun Wu (BMC Syst. Biol., 2017)

Discovering cooperative biomarkers for heterogeneous complex disease diagnoses. - Duanchen Sun; Xian-Wen Ren; Eszter Ari; Tamás Korcsmáros; Peter Csermely; Ling-Yun Wu (Briefings Bioinform., 2019)

Multi-objective Optimization-Based Approach for Detection of Breast Cancer Biomarkers. - Jiaxin Yang; Chuan-Yuan Wang; Duanchen Sun; Zhi-Ping Liu (ICIC (3), 2023)

MOFNet: A Deep Learning Framework of Integrating Multi-omics Data for Breast Cancer Diagnosis. - Chunxiao Zhang; Pengpai Li; Duanchen Sun; Zhi-Ping Liu (ICIC (3), 2023)

ActivePPI: quantifying protein-protein interaction network activity with Markov random fields. - Chuan-Yuan Wang; Shiyu Xu; Duanchen Sun; Zhi-Ping Liu (Bioinform., 2023)

Predicting Drug-Target Affinity Using Protein Pocket and Graph Convolution Network. - Yunhai Li; Pengpai Li; Duanchen Sun; Zhi-Ping Liu (ISBRA (1), 2024)

Incorporating network diffusion and peak location information for better single-cell ATAC-seq data analysis. - Jiating Yu; Jiacheng Leng; Zhichao Hou; Duanchen Sun; Ling-Yun Wu (Briefings Bioinform., 2024)