IntNetDB v1.0: an integrated protein-protein interaction network database generated by a probabilistic model. - Kai Xia; Dong Dong; Jing-Dong J. Han (BMC Bioinform., 2006)

Identification of the Proliferation/Differentiation Switch in the Cellular Network of Multicellular Organisms. - Kai Xia; Huiling Xue; Dong Dong; Shanshan Zhu; Jiamu Wang; Qingpeng Zhang; Lei Hou; Hua Chen; Ran Tao; Zheng Huang; Zheng Fu; Ye-Guang Chen; et al. (PLoS Comput. Biol., 2006)

Evaluating diabetes and hypertension disease causality using mouse phenotypes. - Hong Yu 011; Jialiang Huang; Nan Qiao 001; Christopher D. Green; Jing-Dong J. Han (BMC Syst. Biol., 2010)

eResponseNet: a package prioritizing candidate disease genes through cellular pathways. - Jialiang Huang; Yi Liu; Wei Zhang 067; Hong Yu 011; Jing-Dong J. Han (Bioinform., 2011)

Systematic Prediction of Pharmacodynamic Drug-Drug Interactions through Protein-Protein-Interaction Network. - Jialiang Huang; Chaoqun Niu; Christopher D. Green; Lun Yang; Hongkang Mei; Jing-Dong J. Han (PLoS Comput. Biol., 2013)

Structure-based protein-protein interaction networks and drug design. - Hammad Naveed; Jing-Dong J. Han (Quant. Biol., 2013)

The system capacity view of aging and longevity. - Jing-Dong J. Han; Lei Hou; Na Sun; Chi Xu; Joseph McDermott; Dan Wang (Quant. Biol., 2017)

Inter-nucleosomal communication between histone modifications for nucleosome phasing. - Weizhong Chen; Yi Liu; Shanshan Zhu; Guoyu Chen; Jing-Dong J. Han (PLoS Comput. Biol., 2018)

Accurate loop calling for 3D genomic data with cLoops. - Yaqiang Cao; Zhaoxiong Chen; Xingwei Chen; Daosheng Ai; Guoyu Chen; Joseph McDermott; Yi Huang; Xiaoxiao Guo; Jing-Dong J. Han (Bioinform., 2020)

A digitized catalog of COVID-19 epidemiology data. - Wanyu Tao; Zhengqing Yu; Jing-Dong J. Han (Quant. Biol., 2021)

How should bioinformatics PIs run wet-labs? - Miaomiao Tian; Jing-Dong J. Han (Quant. Biol., 2022)