Ran Duan, Ce Jin, Hongxun Wu. Faster Algorithms for All Pairs Non-decreasing Paths Problem. , Leibniz International Proceedings in Informatics, LIPIcs.
Shuya Li, Fangping Wan, Hantao Shu, Tao Jiang, Dan Zhao, and Jianyang Zeng. MONN: a Multi-Objective Neural Network for Predicting Pairwise Non-Covalent Interactions and Binding Affinities between Compounds and Proteins. , RECOMB 2019.
Xu Qian, Xinjian Li, Zhumei Shi, Yan Xia, Qingsong Cai, Daqian Xu, Lin Tan, Linyong Du, Yanhua Zheng, Dan Zhao, Chuanbao Zhang, Philip L. Lorenzi, Yongping You, Bing-Hua Jiang, Tao Jiang, Haitao Li, and Zhimin Lu. PTEN Suppresses Glycolysis by Dephosphorylating and Inhibiting Autophosphorylated PGK1. , Mollecular Cell, 2019.
Xuan He, Jianyang Zeng. TINE: a network embedding framework for genome domains identification. .
Xuan He, Sai Zhang, Yanqing Zhang, Zhixin Lei, Tao Jiang, Jianyang Zeng. Characterizing RNA pseudouridylation by convolutional neural networks. , Genomics, Proteomics & Bioinformatics. 2019.
Fangping Wan, Yue Zhu, Hailin Hu, Antao Dai, Xiaoqing Cai, Ligong Chen, Haipeng Gong, Tian Xia, Dehua Yang, Mingwei Wang, Jianyang Zeng. A deep learning based framework for large-scale in silico drug screening. , Genomics, Proteomics & Bioinformatics. 2019.
Hao Chen, Dipan Shaw, Jianyang Zeng, Dongbo Bu, Tao Jiang. DIFFUSE: predicting isoform functions from sequences and expression profiles via deep learning. , Bioinformatics 2019.
Yan Hu, Ziqiang Wang, Hailin Hu, Fangping Wan, Lin Chen, Yuanpeng Xiong, Xiaoxia Wang, Dan Zhao, Weiren Huang*, Jianyang Zeng. ACME: pan-specific peptide-MHC class I binding prediction through attention-based deep neural networks. , Bioinformatics. 2019.
Yuanpeng Xiong, Xuan He, Dan Zhao, Tao Jiang, Jianyang Zeng. Multi-species RNA Modification Analysis through Multi-task Curriculum Learning. .
Ahmed Abbas, Xuan He, Jing Niu, Bin Zhou, Guangxiang Zhu, Tszshan Ma, Jiangpeikun Song, Juntao Gao, Michael Q Zhang, Jianyang Zeng. Integrating Hi-C and FISH data for modeling of the 3D organization of chromosomes. , Nature communications 2019.
Wan, Fangping; Hong, Lixiang; Xiao, An; Jiang, Tao; Zeng, Jianyang. NeoDTI: neural integration of neighbor information from a heterogeneous network for discovering new drug-target interactions. , BIOINFORMATICS.
Hu, Hailin; Xiao, An; Zhang, Sai; Li, Yangyang; Shi, Xuanling; Jiang, Tao; Zhang, Linqi; Zhang, Lei; Zeng, Jianyang. DeepHINT: understanding HIV-1 integration via deep learning with attention. , BIOINFORMATICS.
Luo, Yunan; Yu, Yun William; Zeng, Jianyang; Berger, Bonnie; Peng, Jian. Metagenomic binning through low-density hashing. , BIOINFORMATICS.
Hongfei Cui, Hailin Hu, Jianyang Zeng, Ting Chen. DeepShape: estimating isoform-level ribosome abundance and distribution with Ribo-seq data. , BMC Bioinformatics volume 20, Article number: 678 (2019).
Xinliang Song, Tonghan Wang, Chongjie Zhang. Convergence of Multi-Agent Learning with a Finite Step Size in General-Sum Games. , AAMAS 2019.
Tianpei Yang, Jianye Hao, Zhaopeng Meng, Chongjie Zhang, Yan Zheng, Ze Zheng. Efficiently Detecting and Optimally Responding Towards Sophisticated Opponents. , IJCAI 2019.
Tianpei Yang, Jianye Hao, Zhaopeng Meng, Chongjie Zhang, Yan Zheng, Ze Zheng. Bayes-ToMoP: A Fast Detection and Best Response Algorithm Towards Sophisticated Opponents. , AAMAS 2019..
Guangxiang Zhu, Zichuan Lin, Chongjie Zhang. Episodic Reinforcement Learning with Associated Memory. .