ACME: pan-specific peptide-MHC class I binding prediction through attention-based deep neural networks. - Yan Hu; Ziqiang Wang; Hailin Hu 002; Fangping Wan; Lin Chen; Yuanpeng Xiong; Xiaoxia Wang; Dan Zhao 004; Weiren Huang; Jianyang Zeng 001 (Bioinform., 2019)

NeoDTI: neural integration of neighbor information from a heterogeneous network for discovering new drug-target interactions. - Fangping Wan; Lixiang Hong; An Xiao; Tao Jiang 001; Jianyang Zeng 001 (Bioinform., 2019)

DeepCPI: A Deep Learning-based Framework for Large-scale in silico Drug Screening. - Fangping Wan; Yue Zhu 010; Hailin Hu 002; Antao Dai; Xiaoqing Cai; Ligong Chen; Haipeng Gong; Tian Xia; Dehua Yang; Ming-Wei Wang 001; Jianyang Zeng 001 (Genom. Proteom. Bioinform., 2019)

MONN: A Multi-objective Neural Network for Predicting Pairwise Non-covalent Interactions and Binding Affinities Between Compounds and Proteins. - Shuya Li; Fangping Wan; Hantao Shu; Tao Jiang 001; Dan Zhao 004; Jianyang Zeng 001 (RECOMB, 2020)

Secure multiparty computation for privacy-preserving drug discovery. - Rong Ma; Yi Li 005; Chenxing Li; Fangping Wan; Hailin Hu 002; Wei Xu 005; Jianyang Zeng 001 (Bioinform., 2020)

A novel machine learning framework for automated biomedical relation extraction from large-scale literature repositories. - Lixiang Hong; Jinjian Lin; Shuya Li; Fangping Wan; Hui Yang; Tao Jiang 001; Dan Zhao 004; Jianyang Zeng 001 (Nat. Mach. Intell., 2020)

Analyzing Large-Scale Single-Cell RNA-Seq Data Using Coreset. - Khalid Usman; Fangping Wan; Dan Zhao 004; Jian Peng 001; Jianyang Zeng 001 (IEEE ACM Trans. Comput. Biol. Bioinform., 2024)

Covering Multiple Objectives with a Small Set of Solutions Using Bayesian Optimization. - Natalie Maus; Kyurae Kim; Yimeng Zeng; Haydn Thomas Jones; Fangping Wan; Marcelo Der Torossian Torres; Cesar de la Fuente-Nunez; Jacob R. Gardner (CoRR, 2025)

Large Scale Multi-Task Bayesian Optimization with Large Language Models. - Yimeng Zeng; Natalie Maus; Haydn Thomas Jones; Jeffrey Tao; Fangping Wan; Marcelo Der Torossian Torres; Cesar de la Fuente-Nunez; Ryan Marcus; Osbert Bastani; Jacob R. Gardner (CoRR, 2025)

Predicting and generating antibiotics against future pathogens with ApexOracle. - Tianang Leng; Fangping Wan; Marcelo Der Torossian Torres; Cesar de la Fuente-Nunez (CoRR, 2025)