Smaller Universal Spiking Neural P Systems. - Xingyi Zhang 001; Xiangxiang Zeng; Linqiang Pan (Fundam. Informaticae, 2008)

On string languages generated by spiking neural P systems with exhaustive use of rules. - Xingyi Zhang 001; Xiangxiang Zeng; Linqiang Pan (Nat. Comput., 2008)

A Note on Small Universal Spiking Neural P Systems. - Linqiang Pan; Xiangxiang Zeng (Workshop on Membrane Computing, 2009)

Homogeneous Spiking Neural P Systems. - Xiangxiang Zeng; Xingyi Zhang 001; Linqiang Pan (Fundam. Informaticae, 2009)

On languages generated by asynchronous spiking neural P systems. - Xingyi Zhang 001; Xiangxiang Zeng; Linqiang Pan (Theor. Comput. Sci., 2009)

Small universal asynchronous spiking neural P systems. - Linqiang Pan; Xiangxiang Zeng; Xingyi Zhang 001 (BIC-TA, 2010)

Matrix Representation of Spiking Neural P Systems. - Xiangxiang Zeng; Henry N. Adorna; Miguel A. Martínez-del-Amor; Linqiang Pan; Mario J. Pérez-Jiménez (Int. Conf. on Membrane Computing, 2010)

A weakly universal spiking neural P system. - Xiangxiang Zeng; Chun Lu; Linqiang Pan (Math. Comput. Model., 2010)

Deterministic solutions to QSAT and Q3SAT by spiking neural P systems with pre-computed resources. - Tseren-Onolt Ishdorj; Alberto Leporati; Linqiang Pan; Xiangxiang Zeng; Xingyi Zhang 001 (Theor. Comput. Sci., 2010)

A Modified Estimation of Distribution Algorithm for Numeric Optimization. - Yuquan Li; Gexiang Zhang; Xiangxiang Zeng; Jixiang Cheng; Marian Gheorghe 001; Susan Elias (BIC-TA, 2011)

P Systems with 2D Picture Grammars. - Tao Song 001; Xiangxiang Zeng (BIC-TA, 2011)

Spiking Neural P Systems for Arithmetic Operations. - Xiangxiang Zeng; Tao Song 001; Linqiang Pan; Xingyi Zhang 001 (BIC-TA, 2011)

A Novel Membrane Algorithm Based on Differential Evolution for Numerical Optimization. - Jixiang Cheng; Gexiang Zhang; Xiangxiang Zeng (Int. J. Unconv. Comput., 2011)

Time-Free Spiking Neural P Systems. - Linqiang Pan; Xiangxiang Zeng; Xingyi Zhang 001 (Neural Comput., 2011)

A uniform solution to the independent set problem through tissue P systems with cell separation. - Xingyi Zhang 001; Xiangxiang Zeng; Bin Luo 001; Zheng Zhang 001 (Frontiers Comput. Sci., 2012)

Spiking Neural P Systems with Weighted Synapses. - Linqiang Pan; Xiangxiang Zeng; Xingyi Zhang 001; Yun Jiang (Neural Process. Lett., 2012)

Stock Price Forecast Using Tree Augmented Naïve (TAN) Bayes. - Yuanlu Liao; Xiangxiang Zeng; Tao Song 001; Lianfeng Zhang 004 (BIC-TA, 2013)

A Bayesian Investment Model for Online P2P Lending. - Xubo Wang; Defu Zhang; Xiangxiang Zeng; Xiaoying Wu (ICoC, 2013)

Spiking neural P systems with anti-spikes and without annihilating priority working in a 'flip-flop' way. - Gangjun Tan; Tao Song 001; Zhihua Chen; Xiangxiang Zeng (Int. J. Comput. Sci. Math., 2013)

A Polynomial-Time Solution to Constraint Satisfaction Problems by Neural-like P Systems. - Lei Xu 002; Xiangxiang Zeng; Peter Jeavons 001 (Int. J. Unconv. Comput., 2013)

Time-Free Tissue P Systems for Solving the Hamilton Path Problem. - Xiangxiang Zeng; Ningxiang Ding; Fei Xing; Xiangrong Liu (BIC-TA, 2014)

A New Graphical Representation of Protein Sequences Based on Dual-Vector Model. - Zhujin Zhang; Xiangxiang Zeng; Zhihua Chen; Eric Ke Wang (BIC-TA, 2014)

nDNA-prot: identification of DNA-binding proteins based on unbalanced classification. - Li Song; Dapeng Li; Xiangxiang Zeng; Yunfeng Wu; Li Guo; Quan Zou 001 (BMC Bioinform., 2014)

Small universal simple spiking neural P systems with weights. - Xiangxiang Zeng; Linqiang Pan; Mario J. Pérez-Jiménez (Sci. China Inf. Sci., 2014)

A hybrid heuristic algorithm for the 2D variable-sized bin packing problem. - Shaohui Hong; Defu Zhang; Hoong Chuin Lau; Xiangxiang Zeng; Yain-Whar Si (Eur. J. Oper. Res., 2014)

Weighted Spiking Neural P Systems with Rules on Synapses. - Xingyi Zhang 001; Xiangxiang Zeng; Linqiang Pan (Fundam. Informaticae, 2014)

On languages generated by spiking neural P systems with weights. - Xiangxiang Zeng; Lei Xu 002; Xiangrong Liu; Linqiang Pan (Inf. Sci., 2014)

Solving Multidimensional 0-1 Knapsack Problem with Time-Free Tissue P Systems. - Xiangrong Liu; Ziming Li 001; Juan Suo; Ying Ju; Juan Liu 003; Xiangxiang Zeng (J. Appl. Math., 2014)

Decision Tree Classification Model for Popularity Forecast of Chinese Colleges. - Xiangxiang Zeng; Sisi Yuan; You Li; Quan Zou 001 (J. Appl. Math., 2014)

Spiking Neural P Systems with Thresholds. - Xiangxiang Zeng; Xingyi Zhang 001; Tao Song 001; Linqiang Pan (Neural Comput., 2014)

On Some Classes of Sequential Spiking Neural P Systems. - Xingyi Zhang 001; Xiangxiang Zeng; Bin Luo 001; Linqiang Pan (Neural Comput., 2014)

MOEA/D for Energy-Aware Scheduling on Heterogeneous Computing Systems. - Gaoshan Deng; Ziming Li 001; Yuming Zhao; Xiangxiang Zeng (BIC-TA, 2015)

Short-term optimal hydrothermal scheduling problem considering power flow constraint. - Jingrui Zhang; Shuang Lin; Xiangxiang Zeng; Qinghui Tang (CEC, 2015)

A Stable Matching-Based Selection and Memory Enhanced MOEA/D for Evolutionary Dynamic Multiobjective Optimization. - Xiaofeng Chen 001; Defu Zhang; Xiangxiang Zeng (ICTAI, 2015)

A decision-making framework for precision marketing. - Zhen You; Yain-Whar Si; Defu Zhang; Xiangxiang Zeng; Stephen C. H. Leung; Tao Li (Expert Syst. Appl., 2015)

Identification of cytokine via an improved genetic algorithm. - Xiangxiang Zeng; Sisi Yuan; Xianxian Huang; Quan Zou 001 (Frontiers Comput. Sci., 2015)

The power of time-free tissue P systems: Attacking NP-complete problems. - Xiangrong Liu; Juan Suo; Stephen C. H. Leung; Juan Liu 003; Xiangxiang Zeng (Neurocomputing, 2015)

Asynchronous spiking neural P systems with rules on synapses. - Tao Song 001; Quan Zou 001; Xiangrong Liu; Xiangxiang Zeng (Neurocomputing, 2015)

Asynchronous Spiking Neural P Systems with Anti-Spikes. - Tao Song 001; Xiangrong Liu; Xiangxiang Zeng (Neural Process. Lett., 2015)

Latent factor model with heterogeneous similarity regularization for predicting gene-disease associations. - Xiangxiang Zeng; Ningxiang Ding; Quan Zou 001 (BIBM, 2016)

HPTree: Reconstructing phylogenetic trees for ultra-large unaligned DNA sequences via NJ model and Hadoop. - Quan Zou 001; Shixiang Wan; Xiangxiang Zeng (BIBM, 2016)

Integrative approaches for predicting microRNA function and prioritizing disease-related microRNA using biological interaction networks. - Xiangxiang Zeng; Xuan Zhang 010; Quan Zou 001 (Briefings Bioinform., 2016)

Pretata: predicting TATA binding proteins with novel features and dimensionality reduction strategy. - Quan Zou 001; Shixiang Wan; Ying Ju; Jijun Tang; Xiangxiang Zeng (BMC Syst. Biol., 2016)

Investment behavior prediction in heterogeneous information network. - Xiangxiang Zeng; You Li; Stephen C. H. Leung; Ziyu Lin; Xiangrong Liu (Neurocomputing, 2016)

Embedded Based Miniaturized Universal Electrochemical Sensing Platform. - Jiamin Chen; Yihuang Lin; Rui Gong; Jiming Guo; Xiangxiang Zeng; Juan Liu 003 (J. Sensors, 2016)

Computing with viruses. - Xu Chen 020; Mario J. Pérez-Jiménez; Luis Valencia-Cabrera; Beizhan Wang; Xiangxiang Zeng (Theor. Comput. Sci., 2016)

Iteratively collective prediction of disease-gene associations through the incomplete network. - Xiangyi Meng; Quan Zou 001; Alfonso Rodríguez-Patón; Xiangxiang Zeng (BIBM, 2017)

Motion generation of multi-legged robot in complex terrains by using estimation of distribution algorithm. - Min Jiang 005; Zhongqiang Huang; Guiying Jiang; Minghui Shi; Xiangxiang Zeng (SSCI, 2017)

Reconstructing evolutionary trees in parallel for massive sequences. - Quan Zou 001; Shixiang Wan; Xiangxiang Zeng; Zhanshan (Sam) Ma (BMC Syst. Biol., 2017)

Theory and Application of Bio-inspired Intelligence and Methods. - Xingyi Zhang 001; Alfonso Rodríguez-Patón Aradas; Xiangxiang Zeng; Tao Song 001 (J. Univers. Comput. Sci., 2017)

A comprehensive overview and evaluation of circular RNA detection tools. - Xiangxiang Zeng; Wei Lin; Maozu Guo 001; Quan Zou 001 (PLoS Comput. Biol., 2017)

Inferring MicroRNA-Disease Associations by Random Walk on a Heterogeneous Network with Multiple Data Sources. - Yuansheng Liu; Xiangxiang Zeng; Zengyou He; Quan Zou 001 (IEEE ACM Trans. Comput. Biol. Bioinform., 2017)

Prediction and Validation of Disease Genes Using HeteSim Scores. - Xiangxiang Zeng; Yuanlu Liao; Yuansheng Liu; Quan Zou 001 (IEEE ACM Trans. Comput. Biol. Bioinform., 2017)

LncRNA-disease association prediction based on neighborhood information aggregation in neural network. - Hongjie Chen 003; Xun Wang 010; Xuan Zhang 010; Xiangxiang Zeng; Tao Song 001; Alfonso Rodríguez-Patón (BIBM, 2018)

Drug Target Interaction Prediction with Non-random Missing Labels. - Sheng Ni; Chen Lin 001; Xiangxiang Zeng; Yun Liang 003 (BIBM, 2018)

Small Spiking Neural P Systems with Structural Plasticity. - Francis George C. Cabarle; Ren Tristan A. de la Cruz; Henry N. Adorna; Ma. Daiela Dimaano; Faith Therese Peña; Xiangxiang Zeng (Enjoying Natural Computing, 2018)

An Implementation of Elementary Arithmetic with Virus Machine. - Xiaoshan Yan; Xiangrong Liu; Xiangxiang Zeng; Alfonso Rodríguez-Patón (Enjoying Natural Computing, 2018)

Structural Hole Spanner in HumanNet Identifies Disease Gene and Drug targets. - Xiangxiang Zeng; Jiawei Lin; Chen Lin 001; Xiangrong Liu; Alfonso Rodríguez-Patón (IEEE Access, 2018)

Prediction of potential disease-associated microRNAs using structural perturbation method. - Xiangxiang Zeng; Li Liu; Linyuan Lü; Quan Zou 001 (Bioinform., 2018)

Spiking Neural P Systems With Colored Spikes. - Tao Song 001; Alfonso Rodríguez-Patón; Pan Zheng 001; Xiangxiang Zeng (IEEE Trans. Cogn. Dev. Syst., 2018)

A Deep Neural Network for Antimicrobial Peptide Recognition. - Jianyuan Lin; Xiangxiang Zeng; Yun Zuo 001; Ying Ju; Xiangrong Liu (BIBM, 2019)

GraphCPI: Graph Neural Representation Learning for Compound-Protein Interaction. - Zhe Quan; Yan Guo; Xuan Lin; Zhi-Jie Wang 009; Xiangxiang Zeng (BIBM, 2019)

Drug Target Interaction Prediction using Multi-task Learning and Co-attention. - Yuyou Weng; Chen Lin 001; Xiangxiang Zeng; Yun Liang 003 (BIBM, 2019)

deepDR: a network-based deep learning approach to in silico drug repositioning. - Xiangxiang Zeng; Siyi Zhu; Xiangrong Liu; Yadi Zhou; Ruth Nussinov; Feixiong Cheng (Bioinform., 2019)

On solutions and representations of spiking neural P systems with rules on synapses. - Francis George C. Cabarle; Ren Tristan A. de la Cruz; Dionne Peter P. Cailipan; Defu Zhang; Xiangrong Liu; Xiangxiang Zeng (Inf. Sci., 2019)

Matrix representation and simulation algorithm of spiking neural P systems with structural plasticity. - Zechariah B. Jimenez; Francis George C. Cabarle; Ren Tristan A. de la Cruz; Kelvin C. Buño; Henry N. Adorna; Nestine Hope S. Hernandez; Xiangxiang Zeng (J. Membr. Comput., 2019)

A component overlapping attribute clustering (COAC) algorithm for single-cell RNA sequencing data analysis and potential pathobiological implications. - He Peng; Xiangxiang Zeng; Yadi Zhou; Defu Zhang; Ruth Nussinov; Feixiong Cheng (PLoS Comput. Biol., 2019)

Details in the evaluation of circular RNA detection tools: Reply to Chen and Chuang. - Xiangxiang Zeng; Wei Lin; Maozu Guo 001; Quan Zou 001 (PLoS Comput. Biol., 2019)

Meta-Path Methods for Prioritizing Candidate Disease miRNAs. - Xuan Zhang 010; Quan Zou 001; Alfonso Rodríguez-Patón; Xiangxiang Zeng (IEEE ACM Trans. Comput. Biol. Bioinform., 2019)

An Evolutionary Algorithm Based on Minkowski Distance for Many-Objective Optimization. - Hang Xu 003; Wenhua Zeng; Xiangxiang Zeng; Gary G. Yen (IEEE Trans. Cybern., 2019)

MOEA/HD: A Multiobjective Evolutionary Algorithm Based on Hierarchical Decomposition. - Hang Xu 003; Wenhua Zeng; Defu Zhang; Xiangxiang Zeng (IEEE Trans. Cybern., 2019)

A multi-task learning method for analyzing microbiota as cancer immunotherapy signal. - Changzhi Jiang; Yousi Fu; Shuting Jin; Xiangrong Liu; Baishan Fang; Xiangxiang Zeng (BIBM, 2020)

A drug information embedding method based on graph convolution neural network. - Xiaoyi Feng; Shaoliang Peng; Fei Li; Ying Xu; Xiangxiang Zeng; Dong-Qing Wei; Yunhao Liu 001 (HealthCom, 2020)

KGNN: Knowledge Graph Neural Network for Drug-Drug Interaction Prediction. - Xuan Lin; Zhe Quan; Zhi-Jie Wang 009; Tengfei Ma 002; Xiangxiang Zeng (IJCAI, 2020)

A novel molecular representation with BiGRU neural networks for learning atom. - Xuan Lin; Zhe Quan; Zhi-Jie Wang 009; Huang Huang; Xiangxiang Zeng (Briefings Bioinform., 2020)

Computational methods for identifying the critical nodes in biological networks. - Xiangrong Liu; Zengyan Hong; Juan Liu 003; Yuan Lin; Alfonso Rodríguez-Patón; Quan Zou 001; Xiangxiang Zeng (Briefings Bioinform., 2020)

Predicting disease-associated circular RNAs using deep forests combined with positive-unlabeled learning methods. - Xiangxiang Zeng; Yue Zhong; Wei Lin; Quan Zou 001 (Briefings Bioinform., 2020)

Sequence clustering in bioinformatics: an empirical study. - Quan Zou 001; Gang Lin; Xingpeng Jiang; Xiangrong Liu; Xiangxiang Zeng (Briefings Bioinform., 2020)

StackCPPred: a stacking and pairwise energy content-based prediction of cell-penetrating peptides and their uptake efficiency. - Xiangzheng Fu; Lijun Cai; Xiangxiang Zeng; Quan Zou 001 (Bioinform., 2020)

Identifying enhancer-promoter interactions with neural network based on pre-trained DNA vectors and attention mechanism. - Zengyan Hong; Xiangxiang Zeng; Leyi Wei; Xiangrong Liu (Bioinform., 2020)

Network-based prediction of drug-target interactions using an arbitrary-order proximity embedded deep forest. - Xiangxiang Zeng; Siyi Zhu; Yuan Hou; Pengyue Zhang; Lang Li 001; Jing Li; L. Frank Huang; Stephen J. Lewis; Ruth Nussinov; Feixiong Cheng (Bioinform., 2020)

Repurpose Open Data to Discover Therapeutics for COVID-19 using Deep Learning. - Xiangxiang Zeng; Xiang Song 003; Tengfei Ma 002; Xiaoqin Pan; Yadi Zhou; Yuan Hou; Zheng Zhang 001; George Karypis; Feixiong Cheng (CoRR, 2020)

The computational power of cell-like P systems with one protein on membrane. - Bosheng Song; Xiaoyan Luo; Luis Valencia-Cabrera; Xiangxiang Zeng (J. Membr. Comput., 2020)

Deep Collaborative Filtering for Prediction of Disease Genes. - Xiangxiang Zeng; Yinglai Lin; Yuying He; Linyuan Lü; Xiaoping Min; Alfonso Rodríguez-Patón (IEEE ACM Trans. Comput. Biol. Bioinform., 2020)

Multiobjective Particle Swarm Optimization Based on Network Embedding for Complex Network Community Detection. - Xiangrong Liu; Yanzi Du; Min Jiang 005; Xiangxiang Zeng (IEEE Trans. Comput. Soc. Syst., 2020)

A Consensus Community-Based Particle Swarm Optimization for Dynamic Community Detection. - Xiangxiang Zeng; Wen Wang; Cong Chen; Gary G. Yen (IEEE Trans. Cybern., 2020)

A Network Reduction-Based Multiobjective Evolutionary Algorithm for Community Detection in Large-Scale Complex Networks. - Xingyi Zhang 001; Kefei Zhou; Hebin Pan; Lei Zhang 060; Xiangxiang Zeng; Yaochu Jin (IEEE Trans. Cybern., 2020)

On the Computational Power of Asynchronous Axon Membrane Systems. - Tao Song 001; Pan Zheng 001; M. L. Dennis Wong; Min Jiang 005; Xiangxiang Zeng (IEEE Trans. Emerg. Top. Comput. Intell., 2020)

LADstackING: Stacking Ensemble Learning-based Computational Model for Predicting Potential LncRNA-disease Associations. - Jiechen Li; Xiangxiang Zeng; Yong Dou; Fei Xia 003; Shaoliang Peng (BIBM, 2021)

Pm6 A: an Integrated Classification Algorithm for 2021 IEEE International Conference on Bioinformatics and Biomedicine (BIBM) Identifying m6 A Sites. - Yun Zuo 001; Xiangrong Liu; Xiangxiang Zeng (BIBM, 2021)

Fast k-NN Graph Construction by GPU based NN-Descent. - Hui Wang; Wan-Lei Zhao; Xiangxiang Zeng; Jianye Yang 001 (CIKM, 2021)

Artificial-Intelligence-Enabled Reagent-Free Imaging Hematology Analyzer. - Xin Shu; Sameera Sansare; Di Jin; Xiangxiang Zeng; Kai-Yu Tong; Rishikesh Pandey; Renjie Zhou (Adv. Intell. Syst., 2021)

Drug repositioning based on the heterogeneous information fusion graph convolutional network. - Lijun Cai; Changcheng Lu; Junlin Xu; Yajie Meng; Peng Wang 035; Xiangzheng Fu; Xiangxiang Zeng; Yansen Su (Briefings Bioinform., 2021)

Application of deep learning methods in biological networks. - Shuting Jin; Xiangxiang Zeng; Feng Xia 007; Wei Huang; Xiangrong Liu (Briefings Bioinform., 2021)

A spatial-temporal gated attention module for molecular property prediction based on molecular geometry. - Chunyan Li 002; Jianmin Wang 016; Zhangming Niu; Junfeng Yao; Xiangxiang Zeng (Briefings Bioinform., 2021)

De novo generation of dual-target ligands using adversarial training and reinforcement learning. - Fengqing Lu; Mufei Li; Xiaoping Min; Chunyan Li 002; Xiangxiang Zeng (Briefings Bioinform., 2021)

Predicting enhancer-promoter interactions by deep learning and matching heuristic. - Xiaoping Min; Congmin Ye; Xiangrong Liu; Xiangxiang Zeng (Briefings Bioinform., 2021)

Deep learning methods for biomedical named entity recognition: a survey and qualitative comparison. - Bosheng Song; Fen Li; Yuansheng Liu; Xiangxiang Zeng (Briefings Bioinform., 2021)

A novel antibacterial peptide recognition algorithm based on BERT. - Yue Zhang; Jianyuan Lin; Lianmin Zhao; Xiangxiang Zeng; Xiangrong Liu (Briefings Bioinform., 2021)

iEnhancer-XG: interpretable sequence-based enhancers and their strength predictor. - Lijun Cai; Xuanbai Ren; Xiangzheng Fu; Li Peng; Mingyu Gao 004; Xiangxiang Zeng (Bioinform., 2021)

MUFFIN: multi-scale feature fusion for drug-drug interaction prediction. - Yujie Chen; Tengfei Ma 002; Xixi Yang; Jianmin Wang 016; Bosheng Song; Xiangxiang Zeng (Bioinform., 2021)

Minirmd: accurate and fast duplicate removal tool for short reads via multiple minimizers. - Yuansheng Liu; Xiaocai Zhang; Quan Zou 001; Xiangxiang Zeng (Bioinform., 2021)

CarSite-II: an integrated classification algorithm for identifying carbonylated sites based on K-means similarity-based undersampling and synthetic minority oversampling techniques. - Yun Zuo 001; Jianyuan Lin; Xiangxiang Zeng; Quan Zou 001; Xiangrong Liu (BMC Bioinform., 2021)

Large-Scale Approximate k-NN Graph Construction on GPU. - Hui Wang; Wan-Lei Zhao; Xiangxiang Zeng (CoRR, 2021)

Heterogeneous network-based drug repurposing for COVID-19. - Shuting Jin; Xiangxiang Zeng; Wei Huang; Feng Xia 007; Changzhi Jiang; Xiangrong Liu; Shaoliang Peng (CoRR, 2021)

Neural-like P systems with plasmids. - Francis George C. Cabarle; Xiangxiang Zeng; Niall Murphy; Tao Song 001; Alfonso Rodríguez-Patón; Xiangrong Liu (Inf. Comput., 2021)

The computational power of monodirectional tissue P systems with symport rules. - Bosheng Song; Shengye Huang; Xiangxiang Zeng (Inf. Comput., 2021)

A Framework for Evolving Spiking Neural P Systems. - Lovely Joy P. Casauay; Francis George C. Cabarle; Ivan Cedric H. Macababayao; Ren Tristan A. de la Cruz; Henry N. Adorna; Xiangxiang Zeng; Miguel Ángel Martínez-del-Amor (Int. J. Unconv. Comput., 2021)

Monodirectional tissue P systems with channel states. - Bosheng Song; Xiangxiang Zeng; Alfonso Rodríguez-Patón (Inf. Sci., 2021)

Homogeneous spiking neural P systems with structural plasticity. - Ren Tristan A. de la Cruz; Francis George C. Cabarle; Ivan Cedric H. Macababayao; Henry N. Adorna; Xiangxiang Zeng (J. Membr. Comput., 2021)

Solving a PSPACE-complete problem by symport/antiport P systems with promoters and membrane division. - Bosheng Song; Xiangxiang Zeng (J. Membr. Comput., 2021)

ADMETlab 2.0: an integrated online platform for accurate and comprehensive predictions of ADMET properties. - Guo-Li Xiong; Zhenxing Wu; Jiacai Yi; Li Fu; Zhi-Jiang Yang; Chang-Yu Hsieh; Mingzhu Yin; Xiangxiang Zeng; Chengkun Wu; Ai-Ping Lu; Xiang Chen; Tingjun Hou; et al. (Nucleic Acids Res., 2021)

HeTDR: Drug repositioning based on heterogeneous networks and text mining. - Shuting Jin; Zhangming Niu; Changzhi Jiang; Wei Huang; Feng Xia 007; Xurui Jin; Xiangrong Liu; Xiangxiang Zeng (Patterns, 2021)

Monodirectional Tissue P Systems With Promoters. - Bosheng Song; Xiangxiang Zeng; Min Jiang 005; Mario J. Pérez-Jiménez (IEEE Trans. Cybern., 2021)

A Polar-Metric-Based Evolutionary Algorithm. - Hang Xu 003; Wenhua Zeng; Xiangxiang Zeng; Gary G. Yen (IEEE Trans. Cybern., 2021)

Mobility Based Trust Evaluation for Heterogeneous Electric Vehicles Network in Smart Cities. - Tian Wang 001; Hao Luo 012; Xiangxiang Zeng; Zhiyong Yu 001; Anfeng Liu; Arun Kumar Sangaiah (IEEE Trans. Intell. Transp. Syst., 2021)

ITP-Pred: an interpretable method for predicting, therapeutic peptides with fused features low-dimension representation. - Lijun Cai; Li Wang 145; Xiangzheng Fu; Chenxing Xia; Xiangxiang Zeng; Quan Zou 001 (Briefings Bioinform., 2021)

A heterogeneous graph cross-omics attention model for single-cell representation learning. - Yue Liu; Junfeng Zhang; Shulin Wang; Wei Zhang 089; Xiangxiang Zeng; Chee Keong Kwoh 001 (BIBM, 2022)

Deep learning in retrosynthesis planning: datasets, models and tools. - Jingxin Dong 002; Mingyi Zhao; Yuansheng Liu; Yansen Su; Xiangxiang Zeng (Briefings Bioinform., 2022)

Are dropout imputation methods for scRNA-seq effective for scATAC-seq data? - Yue Liu; Junfeng Zhang; Shu-Lin Wang; Xiangxiang Zeng; Wei Zhang 089 (Briefings Bioinform., 2022)

A weighted bilinear neural collaborative filtering approach for drug repositioning. - Yajie Meng; Changcheng Lu; Min Jin; Junlin Xu; Xiangxiang Zeng; Jialiang Yang (Briefings Bioinform., 2022)

Learning spatial structures of proteins improves protein-protein interaction prediction. - Bosheng Song; Xiaoyan Luo; Xiaoli Luo; Yuansheng Liu; Zhangming Niu; Xiangxiang Zeng (Briefings Bioinform., 2022)

Deep learning joint models for extracting entities and relations in biomedical: a survey and comparison. - Yansen Su; Minglu Wang; Pengpeng Wang; Chunhou Zheng 001; Yuansheng Liu; Xiangxiang Zeng (Briefings Bioinform., 2022)

preMLI: a pre-trained method to uncover microRNA-lncRNA potential interactions. - Xinyu Yu; Likun Jiang; Shuting Jin; Xiangxiang Zeng; Xiangrong Liu (Briefings Bioinform., 2022)

MLysPRED: graph-based multi-view clustering and multi-dimensional normal distribution resampling techniques to predict multiple lysine sites. - Yun Zuo 001; Yue Hong; Xiangxiang Zeng; Qiang Zhang 026; Xiangrong Liu (Briefings Bioinform., 2022)

Deep learning for drug repurposing: methods, databases, and applications. - Xiaoqin Pan; Xuan Lin; Dongsheng Cao 001; Xiangxiang Zeng; Philip S. Yu; Lifang He 001; Ruth Nussinov; Feixiong Cheng (CoRR, 2022)

Multi-View Substructure Learning for Drug-Drug Interaction Prediction. - Zimeng Li; Shichao Zhu; Bin Shao; Tie-Yan Liu; Xiangxiang Zeng; Tong Wang 014 (CoRR, 2022)

Molecule optimization via multi-objective evolutionary in implicit chemical space. - Xin Xia; Yansen Su; Chunhou Zheng 001; Xiangxiang Zeng (CoRR, 2022)

On the cross-migrativity between uninorms and overlap (grouping) functions. - Kuanyun Zhu; Xiangxiang Zeng; Junsheng Qiao (Fuzzy Sets Syst., 2022)

Rule synchronization for monodirectional tissue-like P systems with channel states. - Yanyan Li; Bosheng Song; Xiangxiang Zeng (Inf. Comput., 2022)

Normal forms for spiking neural P systems and some of its variants. - Ivan Cedric H. Macababayao; Francis George C. Cabarle; Ren Tristan A. de la Cruz; Xiangxiang Zeng (Inf. Sci., 2022)

An adaptive convergence enhanced evolutionary algorithm for many-objective optimization problems. - Ying Xu; Huan Zhang; Xiangxiang Zeng; Yusuke Nojima (Swarm Evol. Comput., 2022)

A Robust Algorithm Based on Link Label Propagation for Identifying Functional Modules From Protein-Protein Interaction Networks. - Hao Jiang 023; Fei Zhan; Congtao Wang; Jianfeng Qiu; Yansen Su; Chunhou Zheng 001; Xingyi Zhang 001; Xiangxiang Zeng (IEEE ACM Trans. Comput. Biol. Bioinform., 2022)

3DMol-Net: Learn 3D Molecular Representation Using Adaptive Graph Convolutional Network Based on Rotation Invariance. - Chunyan Li 002; Wei Wei 006; Jin Li 007; Junfeng Yao; Xiangxiang Zeng; Zhihan Lv (IEEE J. Biomed. Health Informatics, 2022)

Monodirectional Evolutional Symport Tissue P Systems With Promoters and Cell Division. - Bosheng Song; Kenli Li 001; Xiangxiang Zeng (IEEE Trans. Parallel Distributed Syst., 2022)

Accurate prediction of molecular properties and drug targets using a self-supervised image representation learning framework. - Xiangxiang Zeng; Hongxin Xiang; Linhui Yu; Jianmin Wang 016; Kenli Li 001; Ruth Nussinov; Feixiong Cheng (Nat. Mac. Intell., 2022)

LagNet: Deep Lagrangian Mechanics for Plug-and-Play Molecular Representation Learning. - Chunyan Li 002; Junfeng Yao; Jinsong Su; Zhaoyang Liu 002; Xiangxiang Zeng; Chenxi Huang (AAAI, 2023)

Interpretable multi-view attention network for drug-drug interaction prediction. - Xuan Lin; Qi Wen 002; Sijie Yang; Zu-Guo Yu; Yahui Long; Xiangxiang Zeng (BIBM, 2023)

PACS: Prediction and analysis of cancer subtypes from multi-omics data based on a multi-head attention mechanism model. - Liangrui Pan; Pinle Qin; Pengfei Rong; Xiangxiang Zeng; Dazheng Liu; Shaoliang Peng (BIBM, 2023)

ImmRegInformer: an interpretable Transformer-based method for prioritizing immune-regulatory cancer drivers. - Liwen Xu; Boya Ji; Yijun Peng; Wending Pi; Xiangxiang Zeng; Peng Zhao; Shaoliang Peng (BIBM, 2023)

Adaptive Compositional Continual Meta-Learning. - Bin Wu 025; Jinyuan Fang; Xiangxiang Zeng; Shangsong Liang; Qiang Zhang 026 (ICML, 2023)

GPMO: Gradient Perturbation-Based Contrastive Learning for Molecule Optimization. - Xixi Yang; Li Fu; Yafeng Deng; Yuansheng Liu; Dongsheng Cao 001; Xiangxiang Zeng (IJCAI, 2023)

Totally Dynamic Hypergraph Neural Networks. - Peng Zhou 006; Zongqian Wu; Xiangxiang Zeng; Guoqiu Wen; Junbo Ma; Xiaofeng Zhu 001 (IJCAI, 2023)

DiffColor: Toward High Fidelity Text-Guided Image Colorization with Diffusion Models. - Jianxin Lin; Peng Xiao; Yijun Wang 002; Rongju Zhang; Xiangxiang Zeng (CoRR, 2023)

Learning to Denoise Unreliable Interactions for Link Prediction on Biomedical Knowledge Graph. - Tengfei Ma 002; Yujie Chen; Wen Tao; Dashun Zheng; Xuan Lin; Patrick Cheong-lao Pang; Yiping Liu; Yijun Wang 002; Bosheng Song; Xiangxiang Zeng (CoRR, 2023)

PointDE: Protein Docking Evaluation Using 3D Point Cloud Neural Network. - Zihao Chen; Nan Liu; Yang Huang; Xiaoping Min; Xiangxiang Zeng; Shengxiang Ge; Jun Zhang; Ning-Shao Xia (IEEE ACM Trans. Comput. Biol. Bioinform., 2023)

Effectively Identifying Compound-Protein Interaction Using Graph Neural Representation. - Xuan Lin; Zhe Quan; Zhi-Jie Wang 009; Yan Guo; Xiangxiang Zeng; Philip S. Yu (IEEE ACM Trans. Comput. Biol. Bioinform., 2023)

Modality-DTA: Multimodality Fusion Strategy for Drug-Target Affinity Prediction. - Xixi Yang; Zhangming Niu; Yuansheng Liu; Bosheng Song; Weiqiang Lu; Li Zeng; Xiangxiang Zeng (IEEE ACM Trans. Comput. Biol. Bioinform., 2023)

DSN-DDI: an accurate and generalized framework for drug-drug interaction prediction by dual-view representation learning. - Zimeng Li; Shichao Zhu; Bin Shao; Xiangxiang Zeng; Tong Wang 014; Tie-Yan Liu (Briefings Bioinform., 2023)

Reducing false positive rate of docking-based virtual screening by active learning. - Lei Wang; Shao-Hua Shi; Hui Li; Xiangxiang Zeng; Su-You Liu; Zhao-Qian Liu; Yafeng Deng; Ai-Ping Lu; Tingjun Hou; Dong-Sheng Cao 001 (Briefings Bioinform., 2023)

Machine learning on protein-protein interaction prediction: models, challenges and trends. - Tao Tang; Xiaocai Zhang; Yuansheng Liu; Hui Peng; Binshuang Zheng; Yanlin Yin; Xiangxiang Zeng (Briefings Bioinform., 2023)

Monodirectional evolutional symport tissue P systems with channel states and cell division. - Bosheng Song; Kenli Li 001; Xiangxiang Zeng; Mario J. Pérez-Jiménez; Claudio Zandron (Sci. China Inf. Sci., 2023)

Dimensionality reduction and visualization of single-cell RNA-seq data with an improved deep variational autoencoder. - Jing Jiang; Junlin Xu; Yuansheng Liu; Bosheng Song; Xiulan Guo; Xiangxiang Zeng; Quan Zou 001 (Briefings Bioinform., 2023)

Evolutionary Multi-Objective Optimization in Searching for Various Antimicrobial Peptides [Feature]. - Yiping Liu; Xinyi Zhang; Yuansheng Liu; Yansen Su; Xiangxiang Zeng; Gary G. Yen (IEEE Comput. Intell. Mag., 2023)

Comprehensive evaluation of deep and graph learning on drug-drug interactions prediction. - Xuan Lin; Lichang Dai; Yafang Zhou; Zu-Guo Yu; Wen Zhang; Jian-Yu Shi; Dong-Sheng Cao 001; Li Zeng; Haowen Chen; Bosheng Song; Philip S. Yu; Xiangxiang Zeng (Briefings Bioinform., 2023)

KG-MTL: Knowledge Graph Enhanced Multi-Task Learning for Molecular Interaction. - Tengfei Ma 002; Xuan Lin; Bosheng Song; Philip S. Yu; Xiangxiang Zeng (IEEE Trans. Knowl. Data Eng., 2023)

Spiking neural P systems with weights and delays on synapses. - Yanyan Li; Bosheng Song; Xiangxiang Zeng (Theor. Comput. Sci., 2023)

Sequence Alignment/Map format: a comprehensive review of approaches and applications. - Yuansheng Liu; Xiangzhen Shen; Yongshun Gong; Yiping Liu; Bosheng Song; Xiangxiang Zeng (Briefings Bioinform., 2023)

Prediction of multi-relational drug-gene interaction via Dynamic hyperGraph Contrastive Learning. - Wen Tao; Yuansheng Liu; Xuan Lin; Bosheng Song; Xiangxiang Zeng (Briefings Bioinform., 2023)

Chemical structure-aware molecular image representation learning. - Hongxin Xiang; Shuting Jin; Xiangrong Liu; Xiangxiang Zeng; Li Zeng (Briefings Bioinform., 2023)

Tissue P Systems With States in Cells. - Bosheng Song; Kenli Li 001; David Orellana-Martín; Xiangxiang Zeng; Mario J. Pérez-Jiménez (IEEE Trans. Computers, 2023)

A general hypergraph learning algorithm for drug multi-task predictions in micro-to-macro biomedical networks. - Shuting Jin; Yue Hong; Li Zeng; Yinghui Jiang; Yuan Lin; Leyi Wei; Zhuohang Yu; Xiangxiang Zeng; Xiangrong Liu (PLoS Comput. Biol., 2023)

A Multi-Population Multi-Objective Evolutionary Algorithm Based on the Contribution of Decision Variables to Objectives for Large-Scale Multi/Many-Objective Optimization. - Ying Xu; Chong Xu; Huan Zhang; Lei Huang; Yiping Liu; Yusuke Nojima; Xiangxiang Zeng (IEEE Trans. Cybern., 2023)

Deep generative model for drug design from protein target sequence. - Yangyang Chen 006; Zixu Wang; Lei Wang; Jianmin Wang 016; Pengyong Li; Dongsheng Cao 001; Xiangxiang Zeng; Xiucai Ye; Tetsuya Sakurai (J. Cheminformatics, 2023)

CSCL-DTI: predicting drug-target interaction through cross-view and self-supervised contrastive learning. - Xuan Lin; Xi Zhang 008; Zu-Guo Yu; Yahui Long; Xiangxiang Zeng; Philip S. Yu (BIBM, 2024)

Compound-Protein Interaction Prediction with Sparse Perturbation-Aware Attention. - Qiwen Wang; Chen Lin 001; Wei Su 002; Liang Xiao 003; Xiangxiang Zeng (ICIC (LNBI 2), 2024)

An Image-enhanced Molecular Graph Representation Learning Framework. - Hongxin Xiang; Shuting Jin; Jun Xia; Man Zhou; Jianmin Wang 016; Li Zeng; Xiangxiang Zeng (IJCAI, 2024)

Multi-Objective Molecular Design in Constrained Latent Space. - Yiwei Liu; Yiping Liu; Jiahao Yang; Xinyi Zhang; Li Wang 145; Xiangxiang Zeng (IJCNN, 2024)

SSR-DTA: Substructure-aware multi-layer graph neural networks for drug-target binding affinity prediction. - Yuansheng Liu; Xinyan Xia; Yongshun Gong; Bosheng Song; Xiangxiang Zeng (Artif. Intell. Medicine, 2024)

Attribute-guided prototype network for few-shot molecular property prediction. - Linlin Hou; Hongxin Xiang; Xiangxiang Zeng; Dongsheng Cao 001; Li Zeng; Bosheng Song (Briefings Bioinform., 2024)

AMGDTI: drug-target interaction prediction based on adaptive meta-graph learning in heterogeneous network. - Yansen Su; Zhiyang Hu; Fei Wang 095; Yannan Bin; Chun-Hou Zheng 001; Haitao Li 004; Haowen Chen; Xiangxiang Zeng (Briefings Bioinform., 2024)

DrugAssist: a large language model for molecule optimization. - Geyan Ye; Xibao Cai; Houtim Lai; Xing Wang 007; Junhong Huang; Longyue Wang; Wei Liu 005; Xiangxiang Zeng (Briefings Bioinform., 2024)

MlyPredCSED: based on extreme point deviation compensated clustering combined with cross-scale convolutional neural networks to predict multiple lysine sites in human. - Yun Zuo 001; Xingze Fang; Jiankang Chen; Jiayi Ji; Yuwen Li; Zeyu Wu; Xiangrong Liu; Xiangxiang Zeng; Zhaohong Deng; Hongwei Yin; Anjing Zhao (Briefings Bioinform., 2024)

MSlocPRED: deep transfer learning-based identification of multi-label mRNA subcellular localization. - Yun Zuo 001; Bangyi Zhang; Wenying He; Yue Bi; Xiangrong Liu; Xiangxiang Zeng; Zhaohong Deng (Briefings Bioinform., 2024)

Instruction Multi-Constraint Molecular Generation Using a Teacher-Student Large Language Model. - Peng Zhou 011; Jianmin Wang 016; Chunyan Li 002; Zixu Wang; Yiping Liu; Siqi Sun; Jianxin Lin; Longyue Wang; Xiangxiang Zeng (CoRR, 2024)

KGExplainer: Towards Exploring Connected Subgraph Explanations for Knowledge Graph Completion. - Tengfei Ma 002; Xiang Song 003; Wen Tao; Mufei Li; Jiani Zhang 003; Xiaoqin Pan; Jianxin Lin; Bosheng Song; Xiangxiang Zeng (CoRR, 2024)

HMAMP: Hypervolume-Driven Multi-Objective Antimicrobial Peptides Design. - Li Wang 145; Yiping Li; Xiangzheng Fu; Xiucai Ye; Junfeng Shi; Gary G. Yen; Xiangxiang Zeng (CoRR, 2024)

MoFormer: Multi-objective Antimicrobial Peptide Generation Based on Conditional Transformer Joint Multi-modal Fusion Descriptor. - Li Wang 145; Xiangzheng Fu; Jiahao Yang; Xinyi Zhang; Xiucai Ye; Yiping Liu; Tetsuya Sakurai; Xiangxiang Zeng (CoRR, 2024)

MaskMol: Knowledge-guided Molecular Image Pre-Training Framework for Activity Cliffs. - Zhixiang Cheng; Hongxin Xiang; Pengsen Ma; Li Zeng; Xin Jin; Xixi Yang; Jianxin Lin; Yang Deng; Bosheng Song; Xinxin Feng; Changhui Deng; Xiangxiang Zeng (CoRR, 2024)

Y-Mol: A Multiscale Biomedical Knowledge-Guided Large Language Model for Drug Development. - Tengfei Ma 002; Xuan Lin; Tianle Li; Chaoyi Li; Long Chen; Peng Zhou 006; Xibao Cai; Xinyu Yang; Daojian Zeng; Dong-Sheng Cao 001; Xiangxiang Zeng (CoRR, 2024)

Balancing property optimization and constraint satisfaction for constrained multi-property molecular optimization. - Xin Xia; Ya-Jie Zhang; Xiangxiang Zeng; Xingyi Zhang 001; Chun-Hou Zheng 001; Yansen Su (CoRR, 2024)

S2DN: Learning to Denoise Unconvincing Knowledge for Inductive Knowledge Graph Completion. - Tengfei Ma 002; Yujie Chen; Liang Wang; Xuan Lin; Bosheng Song; Xiangxiang Zeng (CoRR, 2024)

Property Enhanced Instruction Tuning for Multi-task Molecule Generation with Large Language Models. - Xuan Lin; Long Chen; Yile Wang; Xiangxiang Zeng; Philip S. Yu (CoRR, 2024)

DualSyn: A dual-level feature interaction method to predict synergistic drug combinations. - Zehui Chen; Zimeng Li; Xiangzhen Shen; Yuansheng Liu; Xuan Lin; Daojian Zeng; Xiangxiang Zeng (Expert Syst. Appl., 2024)

Geometric deep learning for drug discovery. - Mingquan Liu; Chunyan Li 002; Ruizhe Chen; Dongsheng Cao 001; Xiangxiang Zeng (Expert Syst. Appl., 2024)

Effective drug-target affinity prediction via generative active learning. - Yuansheng Liu; Zhenran Zhou; Xiaofeng Cao; Dongsheng Cao 001; Xiangxiang Zeng (Inf. Sci., 2024)

Deep Generative Models in De Novo Drug Molecule Generation. - Chao Pang; Jianbo Qiao; Xiangxiang Zeng; Quan Zou 001; Leyi Wei (J. Chem. Inf. Model., 2024)

Evolutionary Multiobjective Molecule Optimization in an Implicit Chemical Space. - Xin Xia; Yiping Liu; Chunhou Zheng 001; Xingyi Zhang 001; Qingwen Wu; Xin Gao 001; Xiangxiang Zeng; Yansen Su (J. Chem. Inf. Model., 2024)

Glypred: Lysine Glycation Site Prediction via CCU-LightGBM-BiLSTM Framework with Multi-Head Attention Mechanism. - Yun Zuo 001; Bangyi Zhang; Yinkang Dong; Wenying He; Yue Bi; Xiangrong Liu; Xiangxiang Zeng; Zhaohong Deng (J. Chem. Inf. Model., 2024)

ECD-CDGI: An efficient energy-constrained diffusion model for cancer driver gene identification. - Tao Wang; Linlin Zhuo; Yifan Chen; Xiangzheng Fu; Xiangxiang Zeng; Quan Zou 001 (PLoS Comput. Biol., 2024)

PreMLS: The undersampling technique based on ClusterCentroids to predict multiple lysine sites. - Yun Zuo 001; Xingze Fang; Jiayong Wan; Wenying He; Xiangrong Liu; Xiangxiang Zeng; Zhaohong Deng (PLoS Comput. Biol., 2024)

Evolutionary multimodal multiobjective optimization guided by growing neural gas. - Yiping Liu; Ling Zhang; Xiangxiang Zeng; Yuyan Han (Swarm Evol. Comput., 2024)

scCAN: Clustering With Adaptive Neighbor-Based Imputation Method for Single-Cell RNA-Seq Data. - Shujie Dong; Yuansheng Liu; Yongshun Gong; Xiangjun Dong 001; Xiangxiang Zeng (IEEE ACM Trans. Comput. Biol. Bioinform., 2024)

GenoM7GNet: An Efficient N7-Methylguanosine Site Prediction Approach Based on a Nucleotide Language Model. - Chuang Li 004; Heshi Wang; Yanhua Wen; Rui Yin 002; Xiangxiang Zeng; Keqin Li 001 (IEEE ACM Trans. Comput. Biol. Bioinform., 2024)

Dynamic threshold spiking neural P systems with weights and multiple channels. - Yanyan Li; Bosheng Song; Yuansheng Liu; Xiangxiang Zeng; Shengye Huang (Theor. Comput. Sci., 2024)

SiSGC: A Drug Repositioning Prediction Model Based on Heterogeneous Simplifying Graph Convolution. - Zhong-Hao Ren; Chang-Qing Yu; Li-Ping Li 003; Zhu-Hong You; Zheng-Wei Li 001; Shanwen Zhang; Xiangxiang Zeng; Yi-Fan Shang (J. Chem. Inf. Model., 2024)

PEB-DDI: A Task-Specific Dual-View Substructural Learning Framework for Drug-Drug Interaction Prediction. - Xiangzhen Shen; Zimeng Li; Yuansheng Liu; Bosheng Song; Xiangxiang Zeng (IEEE J. Biomed. Health Informatics, 2024)

Dual-View Learning Based on Images and Sequences for Molecular Property Prediction. - Xiang Zhang; Hongxin Xiang; Xixi Yang; Jingxin Dong 002; Xiangzheng Fu; Xiangxiang Zeng; Haowen Chen; Keqin Li 001 (IEEE J. Biomed. Health Informatics, 2024)

Evolutionary Multimodal Multiobjective Optimization for Traveling Salesman Problems. - Yiping Liu; Liting Xu; Yuyan Han; Xiangxiang Zeng; Gary G. Yen; Hisao Ishibuchi (IEEE Trans. Evol. Comput., 2024)

WalkGAN: Network Representation Learning With Sequence-Based Generative Adversarial Networks. - Taisong Jin; Xixi Yang; Zhengtao Yu 001; Han Luo; Yongmei Zhang; Feiran Jie; Xiangxiang Zeng; Min Jiang 005 (IEEE Trans. Neural Networks Learn. Syst., 2024)

Geometry-Based Molecular Generation With Deep Constrained Variational Autoencoder. - Chunyan Li 002; Junfeng Yao; Wei Wei 006; Zhangming Niu; Xiangxiang Zeng; Jin Li 007; Jianmin Wang 016 (IEEE Trans. Neural Networks Learn. Syst., 2024)

On the migrativity properties between uni-nullnorms and overlap (grouping) functions. - Xiangxiang Zeng; Kuanyun Zhu (Soft Comput., 2024)

Memristive Circuit Implementation of Caenorhabditis Elegans Mechanism for Neuromorphic Computing. - Hegan Chen; Qinghui Hong; Zhongrui Wang; Chunhua Wang 001; Xiangxiang Zeng; Jiliang Zhang 002 (IEEE Trans. Neural Networks Learn. Syst., 2024)

A deep learning approach for rational ligand generation with toxicity control via reactive building blocks. - Pengyong Li; Kaihao Zhang; Tianxiao Liu; Ruiqiang Lu; Yangyang Chen 006; Xiaojun Yao; Lin Gao; Xiangxiang Zeng (Nat. Comput. Sci., 2024)

Interface-aware molecular generative framework for protein-protein interaction modulators. - Jianmin Wang 016; Jiashun Mao; Chunyan Li 002; Hongxin Xiang; Xun Wang 010; Shuang Wang; Zixu Wang; Yangyang Chen 006; Yuquan Li; Kyoung Tai No; Tao Song 001; Xiangxiang Zeng (J. Cheminformatics, 2024)

Learning to Denoise Biomedical Knowledge Graph for Robust Molecular Interaction Prediction. - Tengfei Ma 002; Yujie Chen; Wen Tao; Dashun Zheng; Xuan Lin; Patrick Cheong-Iao Pang; Yiping Liu; Yijun Wang 002; Longyue Wang; Bosheng Song; Xiangxiang Zeng; Philip S. Yu (IEEE Trans. Knowl. Data Eng., 2024)

S²DN: Learning to Denoise Unconvincing Knowledge for Inductive Knowledge Graph Completion. - Tengfei Ma 002; Yujie Chen; Liang Wang; Xuan Lin; Bosheng Song; Xiangxiang Zeng (AAAI, 2025)

Multi-Objective Molecular Design Through Learning Latent Pareto Set. - Yiping Liu; Jiahao Yang; Xuanbai Ren; Xinyi Zhang; Yuansheng Liu; Bosheng Song; Xiangxiang Zeng; Hisao Ishibuchi (AAAI, 2025)

Large Language and Protein Assistant for Protein-Protein Interactions Prediction. - Peng Zhou 011; Pengsen Ma; Jianmin Wang 016; Xibao Cai; Haitao Huang; Wei Liu 005; Longyue Wang; Lai Hou Tim; Xiangxiang Zeng (ACL (1), 2025)

Towards Synergistic Path-based Explanations for Knowledge Graph Completion: Exploration and Evaluation. - Tengfei Ma 002; Xiang Song 003; Wen Tao; Mufei Li; Jiani Zhang 003; Xiaoqin Pan; Yijun Wang 002; Bosheng Song; Xiangxiang Zeng (ICLR, 2025)

CMOMO: a deep multi-objective optimization framework for constrained molecular multi-property optimization. - Xin Xia; Yajie Zhang; Xiangxiang Zeng; Xing-yi Zhang 001; Chun-Hou Zheng 001; Yansen Su (Briefings Bioinform., 2025)

PreAIS: Prediction of A-to-I editing sites based on DNN-CNN deep learning models. - Xingze Fang; Yun Zuo 001; Youxu Tan; Xiangrong Liu; Xiangxiang Zeng; Zhaohong Deng (Comput. Biol. Chem., 2025)

The computational properties of P systems with mutative membrane structures. - Bosheng Song; Chuanlong Hu; David Orellana-Martín; Antonio Ramírez-de-Arellano; Mario J. Pérez-Jiménez; Xiangxiang Zeng (Inf. Comput., 2025)

Pretraining graph transformer for molecular representation with fusion of multimodal information. - Ruizhe Chen; Chunyan Li 002; Longyue Wang; Mingquan Liu; Shugao Chen; Jiahao Yang; Xiangxiang Zeng (Inf. Fusion, 2025)

SQ-DiffuPep: A multimodal information-guided quantitative latent diffusion model for antimicrobial peptide discovery. - Luoda Tan; Li Wang 145; Xuanbai Ren; Quan Zou 001; Xiaojun Yao; Xiangxiang Zeng; Xiangzheng Fu (Inf. Fusion, 2025)

Image-based generation for molecule design with SketchMol. - Zixu Wang; Yangyang Chen 006; Pengsen Ma; Zhou Yu; Jianmin Wang 016; Yuansheng Liu; Xiucai Ye; Tetsuya Sakurai; Xiangxiang Zeng (Nat. Mac. Intell., 2025)

Leveraging Induced Transferable Binding Principles for Associative Prediction of Novel Drug-Target Interactions. - Xiaoqing Lian; Jie Zhu; Tianxu Lv; Shiyun Nie; Hang Fan; Guosheng Wu; Yunjun Ge; Lihua Li; Xiangxiang Zeng; Xiang Pan (CoRR, 2025)

An All-Atom Generative Model for Designing Protein Complexes. - Ruizhe Chen; Dongyu Xue; Xiangxin Zhou; Zaixiang Zheng; Xiangxiang Zeng; Quanquan Gu (CoRR, 2025)

Enhancing Chemical Reaction and Retrosynthesis Prediction with Large Language Model and Dual-task Learning. - Xuan Lin; Qingrui Liu; Hongxin Xiang; Daojian Zeng; Xiangxiang Zeng (CoRR, 2025)

EDBench: Large-Scale Electron Density Data for Molecular Modeling. - Hongxin Xiang; Ke Li; Mingquan Liu; Zhixiang Cheng; Bin Yao; Wenjie Du; Jun Xia; Li Zeng; Xin Jin; Xiangxiang Zeng (CoRR, 2025)

AdaptMol: Adaptive Fusion from Sequence String to Topological Structure for Few-shot Drug Discovery. - Yifan Dai; Xuanbai Ren; Tengfei Ma 002; Qipeng Yan; Yiping Liu; Yuansheng Liu; Xiangxiang Zeng (CoRR, 2025)

Deep Generative Models for Therapeutic Peptide Discovery: A Comprehensive Review. - Leshan Lai; Yuansheng Liu; Bosheng Song; Keqin Li 001; Xiangxiang Zeng (ACM Comput. Surv., 2025)

Multi-Modal Deep Representation Learning Accurately Identifies and Interprets Drug-Target Interactions. - Jiayue Hu; Yuhang Liu; Xiangxiang Zeng; Quan Zou 001; Ran Su; Leyi Wei (IEEE J. Biomed. Health Informatics, 2025)

Multiview Deep Learning-Based Molecule Design and Structural Optimization Accelerates Inhibitor Discover. - Chao Pang; Yu Wang; Yi Jiang; Ruheng Wang; Xiaojun Yao; Quan Zou 001; Xiangxiang Zeng; Ran Su; Leyi Wei (IEEE Trans. Neural Networks Learn. Syst., 2025)

ImageDDI: Image-enhanced molecular motif sequence representation for drug-drug interaction prediction. - Yuqin He; Tengfei Ma 002; Chaoyi Li; Pengsen Ma; Hongxin Xiang; Jianmin Wang 016; Yiping Liu; Bosheng Song; Xiangxiang Zeng (Inf. Fusion, 2026)