An Informatics Framework for Knowledge Representation and Reconciliation of Disease Pathways. - Yulia Innokenteva; Olha Kholod; Fei He 005; Duolin Wang; Richard D. Hammer; Dong Xu 002; Dmitriy Shin (AMIA, 2019)

Extracting Molecular Entities and Their Interactions from Pathway Figures Based on Deep Learning. - Fei He 005; Duolin Wang; Yulia Innokenteva; Olha Kholod; Dmitriy Shin; Dong Xu 002 (BIBM, 2019)

MusiteDeep: a deep-learning based webserver for protein post-translational modification site prediction and visualization. - Duolin Wang; Dongpeng Liu; Jiakang Yuchi; Fei He 005; Yuexu Jiang; Siteng Cai; Jingyi Li; Dong Xu 002 (Nucleic Acids Res., 2020)

Identifying Genes and Their Interactions from Pathway Figures and Text in Biomedical Articles. - Fei He 005; Joshua Thompson; Ziting Mao; Yijie Ren; Yulia I. Nussbaum; Olha Kholod; Dmitriy Shin; Mark Hannink; Mihail Popescu; Dong Xu 002 (BIBM, 2021)

Text Mining Enhancements for Image Recognition of Gene Names and Gene Relations. - Yijie Ren; Fei He 005; Jing Qu; Yifan Li; Joshua Thompson; Mark Hannink; Mihail Popescu; Dong Xu 002 (CIBB, 2021)

A Rule-Based Approach for Generating Synthetic Biological Pathways. - Joshua Thompson; Haoyu Dong; Kai Liu; Fei He 005; Mihail Popescu; Dong Xu 002 (CIBB, 2021)