陈兴Xing Chen

教授

教授 博士生导师 硕士生导师

电子邮箱:

所在单位:人工智能研究院

职务:中国矿业大学人工智能研究院副院长

办公地点:中国矿业大学文昌校区科创1号楼8楼801室

主要任职:中国矿业大学人工智能研究院副院长,中国矿业大学人工智能研究院大数据研究中心主任,中国矿业大学生物信息研究所所长

其他任职:中国矿业大学校学术委员会委员,中国矿业大学交叉学科学术分委员会委员,中国矿业大学人工智能交叉学科研究生培养工作指导委员会委员,江苏省生物信息学学会副理事长,中国工业与应用数学学会数学生命科学专业委员会秘书长,中国计算机学会生物信息学专业委员会委员,中国人工智能学会青年工作委员会委员,中国自动化学会智能健康与生物信息专业委员会委员,五家SCI杂志副主编,Briefings in Bioinformatics(影响因子11.622)等十一家SCI杂志编委,PLoS Computational Biology杂志特约副主编,六家SCI杂志首席特约编委,十七家国际会议程序委员会成员

学术论文

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部分代表性论文

2021

Ø  Xing Chen*, Lian-Gang Sun, Yan Zhao. NCMCMDA: miRNA–disease association prediction through neighborhood constraint matrix completion. Briefings in Bioinformatics. 2021 22(1):485-496 (SCI, IF: 11.622, cited 42 times, ESI highly cited paper).

Ø  Xing Chen*, Tian-Hao Li, Yan Zhao, Chun-Chun Wang, Chi-Chi Zhu. Deep-belief network for predicting potential miRNA-disease associations. Briefings in Bioinformatics. 2021 22(3): bbaa186 (SCI, IF: 11.622, cited 18 times).

Ø  Xing Chen*, Chi Zhou, Chun-Chun Wang, Yan Zhao. Predicting potential small molecule–miRNA associations based on bounded nuclear norm regularization. Briefings in Bioinformatics. 2021 22(6): bbab328 (SCI, IF: 11.622).

Ø  Yan Zhao, Chun-Chun Wang, Xing Chen*. Microbes and complex diseases: from experimental results to computational models. Briefings in Bioinformatics. 2021 22(3): bbaa158 (SCI, IF: 11.622).

Ø  Chun-Chun Wang, Yan Zhao, Xing Chen*. Drug-pathway association prediction: from experimental results to computational models. Briefings in Bioinformatics. 2021 22(3): bbaa061 (SCI, IF: 11.622).

Ø  Chun-Chun Wang, Chen-Di Han, Qi Zhao*, Xing Chen*. Circular RNAs and complex diseases: from experimental results to computational models. Briefings in Bioinformatics. 2021 22(6): bbab286 (SCI, IF: 11.622).

Ø  Chi-Chi Zhu#, Chun-Chun Wang#, Yan Zhao, Ming-Cheng Zuo, Xing Chen*. Identification of miRNA–disease associations via multiple information integration with Bayesian ranking. Briefings in Bioinformatics. 2021 22(6): bbab302 (SCI, IF: 11.622).

Ø  Chun-Chun Wang#, Chi-Chi Zhu#, Xing Chen*. Ensemble of kernel ridge regression-based small molecule–miRNA association prediction in human disease. Briefings in Bioinformatics. 2021 Advance Access (SCI, IF: 11.622).

Ø  Shu-Hao Wang, Chun-Chun Wang, Li Huang, Lian-Ying Miao, Xing Chen*. Dual-Network Collaborative Matrix Factorization for predicting small molecule-miRNA associations. Briefings in Bioinformatics. 2021 Advance Access (SCI, IF: 11.622).

2020

Ø  Xing Chen*, Na-Na Guan, Ya-Zhou Sun, Jian-Qiang Li*, Jia Qu. MicroRNA-small molecule association identification: from experimental results to computational models. Briefings in Bioinformatics. 2020 21(1): 47-61 (SCI, IF: 11.622, cited 70 times, ESI highly cited paper, the 20 most-cited articles from 2019 and 2020 in Briefings in Bioinformatics).

Ø  Yan Zhao, Xing Chen*, Jun Yin, Jia Qu. SNMFSMMA: using symmetric nonnegative matrix factorization and Kronecker regularized least squares to predict potential small molecule-microRNA association. RNA Biology. 2020 17(2): 281-291 (SCI, IF: 4.652, cited 21 times).

Ø  Xing Chen*, Shao-Xin Li, Jun Yin, Chun-Chun Wang. Potential miRNA-disease association prediction based on kernelized Bayesian matrix factorization. Genomics. 2020 112(1): 809-819 (SCI, IF: 5.736, cited 20 times).

Ø  Xing Chen*, Hongsheng Liu, Qi Zhao*. Editorial: Bioinformatics in Microbiota. Frontiers in Microbiology. 2020 11: 100 (SCI, IF: 5.64).

Ø  Xing Chen*, Chun-Chun Wang, Na-Na Guan. Computational Models in Non-Coding RNA and Human Disease. International Journal of Molecular Sciences. 2020 21(5):1557 (SCI, IF: 5.924).

Ø  Li-Hong Peng, Li-Qian Zhou*, Xing Chen*, Xue Piao*. A computational study of potential miRNA-disease association inference based on ensemble learning and kernel ridge regression. Frontiers in Bioengineering and Biotechnology. 2020 8:40 (SCI, IF: 5.89, cited 12 times).

2019

Ø  Xing Chen*, Di Xie, Qi Zhao, Zhu-Hong You. MicroRNAs and complex diseases: from experimental results to computational models. Briefings in Bioinformatics. 2019 20(2):515-539 (SCI, IF: 11.622, cited 290 times, ESI highly cited paper, the 20 most-cited articles from 2019 and 2020 in Briefings in Bioinformatics).

Ø  Xing Chen*, Ya-Zhou Sun, Hui Liu, Lin Zhang*, Jian-Qiang Li*, Jia Meng. RNA methylation and diseases: experimental results, databases, web servers and computational models. Briefings in Bioinformatics. 2019 20(3):896-917 (SCI, IF: 11.622, cited 38 times).

Ø  Xing Chen*, Chi-Chi Zhu, Jun Yin. Ensemble of decision tree reveals potential miRNA-disease associations. PLoS Computational Biology. 2019 15(7): e1007209 (SCI, IF: 4.475, cited 74times).

Ø  Yan Zhao, Xing Chen*, Jun Yin. Adaptive boosting-based computational model for predicting potential miRNA-disease associations. Bioinformatics. 2019 35(22): 4730-4738 (SCI, IF: 6.937, cited 63 times).

Ø  Lei Wang#, Zhuhong You#,*, Xing Chen*, Yang-Ming Li, Ya-Nan Dong, Li-Ping Li, Kai Zheng. LMTRDA: Using logistic model tree to predict MiRNA-disease associations by fusing multi-source information of sequences and similarities. PLoS Computational Biology. 2019 15(3):e1006865 (SCI, IF: 4.475, cited 65 times).

Ø  Jia Qu, Xing Chen*, Ya-Zhou Sun, Yan Zhao, Shu-Bin Cai, Zhong Ming*, Zhu-Hong You*, Jian-Qiang Li. In Silico Prediction of Small Molecule-miRNA Associations Based on the HeteSim Algorithm. Molecular Therapy-Nucleic Acids. 2019 14:274-286 (SCI, IF: 8.886, cited 28 times).

Ø  Na-Na Guan, Yan Zhao, Chun-Chun Wang, Jian-Qiang Li*, Xing Chen*, Xue Piao*. Anticancer Drug Response Prediction in Cell Lines Using Weighted Graph Regularized Matrix Factorization. Molecular Therapy-Nucleic Acids 2019 17:164-174 (SCI, IF: 8.886, cited 28 times).

Ø  Xing Chen*, Ya-Zhou Sun, Na-Na Guan, Jia Qu, Zhi-An Huang, Ze-Xuan Zhu, Jian-Qiang Li. Computational models for lncRNA function prediction and functional similarity calculation. Briefings in Functional Genomics. 2019 18(1):58-82 (SCI, IF: 4.241, cited 74 times).

Ø  Chun-Chun Wang, Xing Chen*, Jun Yin, Jia Qu. An integrated framework for the identification of potential miRNA-disease association based on novel negative samples extraction strategy. RNA Biology. 2019 16(3):257-269 (SCI, IF: 4.652, cited 19 times).

Ø  Jia Qu, Xing Chen*, Jun Yin, Yan Zhao, Zheng-Wei Li. Prediction of potential miRNA-disease associations using matrix decomposition and label propagation. Knowledge-Based Systems. 2019 186:104963 (SCI, IF: 8.038, cited 10 times).

Ø  Li Zhang, Xing Chen*, Jun Yin. Prediction of Potential miRNA–Disease Associations Through a Novel Unsupervised Deep Learning Framework with Variational Autoencoder. Cells. 2019 8(9):1040 (SCI, IF: 6.6, cited 18 times).

Ø  Jun Yin, Xing Chen*, Chun-Chun Wang, Yan Zhao, Ya-Zhou Sun. Prediction of small molecule-microRNA associations by sparse learning and heterogeneous graph inference. Molecular Pharmaceutics. 2019 16(7):3157-3166 (SCI, IF: 4.939, cited 15 times).

Ø  Chun-Chun Wang, Xing Chen*, Jia Qu, Ya-Zhou Sun, Jian-Qiang Li. RFSMMA: A New Computational Model to Identify and Prioritize Potential Small Molecule-MiRNA Associations. Journal of Chemical Information and Modeling. 2019 59(4):1668-1679 (SCI, IF: 4.956, cited 20 times).

Ø  Chun-Chun Wang, Xing Chen*. A Unified Framework for the Prediction of Small Molecule-MicroRNA Association Based on Cross-Layer Dependency Inference on Multilayered Networks. Journal of Chemical Information and Modeling. 2019 59(12):5281-5293 (SCI, IF: 4.956, cited 10 times).

2018

Ø  Xing Chen*, Lei Wang, Jia Qu, Na-Na Guan, Jian-Qiang Li. Predicting miRNA-disease association based on inductive matrix completion. Bioinformatics. 2018 34(24): 4256-4265 (SCI, IF: 6.937, cited 264 times, ESI highly cited paper).

Ø  Xing Chen*, Di Xie, Lei Wang, Qi Zhao*, Zhu-Hong You, Hong-Sheng Liu. BNPMDA: Bipartite Network Projection for MiRNA-Disease Association prediction. Bioinformatics. 2018 34(18): 3178-3186 (SCI, IF: 6.937, cited 204 times, ESI highly cited paper).

Ø  Xing Chen*, Jun Yin, Jia Qu, Li Huang. MDHGI: Matrix Decomposition and Heterogeneous Graph Inference for miRNA-disease association prediction. PLoS Computational Biology. 2018 14(8): e1006418 (SCI, IF: 4.475, cited 183 times, ESI highly cited paper).

Ø  Xing Chen#,*, Li Huang#, Di Xie, Qi Zhao. EGBMMDA: Extreme Gradient Boosting Machine for MiRNA-Disease Association prediction. Cell Death & Disease. 2018 9: 3 (SCI, IF: 8.469, cited 163 times, The Best of Cell Death & Disease 2018-2019).

Ø  Hui Liu#, Huaizhi Wang#, Zhen Wei#, Songyao Zhang, Gang Hua, Shao-Wu Zhang, Lin Zhang, Shou-Jiang Gao, Jia Meng*, Xing Chen*, Yufei Huang*. MeT-DB V2.0: elucidating context-specific functions of N6-methyl-adenosine methyltranscriptome. Nucleic Acids Research. 2018 46(Database issue): D281-D287 (SCI, IF: 16.971, cited 76 times)

Ø  Xing Chen#,*, Zhihan Zhou#, Jun Yin. Predicting microRNA-disease associations using bipartite local models and hubness-aware regression. RNA Biology. 2018 15(9): 1192-1205 (SCI, IF: 4.652, cited 25 times).

Ø  Xing Chen#,*, Jun-Yan Cheng#, Yan Zhao. ELLPMDA: Ensemble learning and link prediction for miRNA-disease association prediction. RNA Biology. 2018 15(6): 807-818 (SCI, IF: 4.652, cited 47 times).

Ø  Xing Chen*, Chun-Chun Wang, Jun Yin, Zhu-Hong You*. Novel Human miRNA-Disease Association Inference Based on Random Forest. Molecular Therapy-Nucleic Acids. 2018 13:568-579 (SCI, IF: 8.886, cited 57 times).

Ø  Jia Qu, Xing Chen* Ya-Zhou Sun, Jian-Qiang Li, Zhong Ming. Inferring potential small molecule-miRNA association based on triple layer heterogeneous network. Journal of Cheminformatics. 2018 10:30 (SCI, IF: 5.514, cited 44 times).

Ø  Hui Liu, Yan Zhao, Lin Zhang, Xing Chen*. Anti-cancer drug response prediction using neighbor-based collaborative filtering with global effect removal. Molecular Therapy-Nucleic Acids. 2018 13:303-311 (SCI, IF: 8.886, cited 34 times).

Ø  Xing Chen*, De-Hong Zhang, Zhu-Hong You*. A heterogeneous label propagation approach to explore the potential associations between miRNA and disease. Journal of Translational Medicine. 2018 16:348 (SCI, IF: 5.531, cited 36 times) .

Ø  Xing Chen*, Na-Na Guan, Jian-Qiang Li*, Gui-Ying Yan. GIMDA: Graphlet Interaction-based MiRNA-Disease Association prediction. Journal of Cellular and Molecular Medicine. 2018 22(3):1548-1561 (SCI, IF: 5.31, cited 25 times) .

Ø  Xing Chen#,*, Yao Gong#, De-Hong Zhang, Zhu-Hong You, Zheng-Wei Li. DRMDA: deep representations-based miRNA–disease association prediction. Journal of Cellular and Molecular Medicine. 2018 22(1): 472-485 (SCI, IF: 5.31, cited 56 times) .

Ø  Xing Chen#,*, Le-Yi Wang#, Li Huang. NDAMDA: Network distance analysis for MiRNA-disease association prediction. Journal of Cellular and Molecular Medicine. 2018 22(5): 2884-2895 (SCI, IF: 5.31, cited 25 times) .

Ø  Lin Zhang, Xing Chen*, Na-Na Guan, Hui Liu and Jian-Qiang Li. A hybrid interpolation weighted collaborative filtering method for anti-cancer drug response prediction. Frontiers in Pharmacology. 2018 9:1017 (SCI, IF: 5.811, cited 24 times).

Ø  Na-Na Guan, Ya-Zhou Sun, Zhong Ming, Jian-Qiang Li*, Xing Chen*. Prediction of Potential Small Molecule-Associated MicroRNAs Using Graphlet Interaction. Frontiers in Pharmacology. 2018 9:1152 (SCI, IF: 5.811, cited 13 times).

Ø  Dongqing Guo, Colin E. Murdoch, Tianhua Liu, Jia Qu, Shihong Jiao, Yong Wang*, Wei Wang*, Xing Chen*. Therapeutic Angiogenesis of Chinese Herbal Medicines in Ischemic Heart Disease: A Review. Frontiers in Pharmacology. 2018 9:428 (SCI, IF: 5.811, cited 22 times).

Ø  Ya-Zhou Sun, De-Hong Zhang, Shu-Bin Cai, Zhong Ming*, Jian-Qiang Li*, Xing Chen*. MDAD: a special resource for microbe-drug associations. Frontiers in Cellular and Infection Microbiology. 2018 8:424 (SCI, IF: 5.293, cited 21 times).

2017

Ø  Xing Chen#,*, Chenggang Clarence Yan#, Xu Zhang#, Zhu-Hong You*. Long non-coding RNAs and complex diseases: from experimental results to computational models. Briefings in Bioinformatics. 2017 18(4):558-576 (SCI, IF: 11.622, cited 392 times, ESI highly cited paper).

Ø  Zhuhong You#, Zhi-An Huang#, Ze-Xuan Zhu*, Gui-Ying Yan, Zheng-Wei Li, Zhenkun Wen, Xing Chen*. PBMDA: A novel and effective path-based computational model for miRNA-disease association prediction. PLoS Computational Biology. 2017 13(3): e1005455 (SCI, IF: 4.475, cited 273 times, ESI highly cited paper).

Ø  Xing Chen#,*, Yu-An Huang#, Zhu-Hong You*, Gui-Ying Yan, Xue-Song Wang*. A Novel Approach based on KATZ measure to Predict Associations of Human Microbiota with Non-Infectious Diseases. Bioinformatics. 2017 33(5):733-739 (SCI, IF: 6.937, cited 149 times)

Ø  Xing Chen#,*, Li Huang#. LRSSLMDA: Laplacian Regularized Sparse Subspace Learning for MiRNA-Disease Association prediction. PLoS Computational Biology. 2017 13(12): e1005912 (SCI, IF: 4.475, cited 177 times, ESI highly cited paper).

Ø  Xing Chen#,*, Qiaofeng Wu#, Gui-Ying Yan. RKNNMDA: Ranking-based KNN for MiRNA-Disease Association prediction. RNA Biology. 2017 14(7): 952-962 (SCI, IF: 4.652, cited 110 times).

Ø  Jian-Qiang Li, Zhu-Hong You*, Xiao Li, Ming Zhong, Xing Chen*. PSPEL: In Silico Prediction of Self-interacting Proteins from Amino Acids Sequences using Ensemble Learning. IEEE-ACM Transactions on Computational Biology and Bioinformatics. 2017 14(5):1165-1172 (SCI, IF: 3.710, cited 43 times).

Ø  Xing Chen*, Ya-Wei Niu, Guang-Hui Wang*, Gui-Ying Yan. MKRMDA: multiple kernel learning-based Kronecker regularized least squares for MiRNA–disease association prediction. Journal of Translational Medicine. 2017 15:251 (SCI, IF: 5.531, cited 35 times).

Ø  Xing Chen*, Ya-Wei Niu, Guang-Hui Wang*, Gui-Ying Yan. HAMDA: Hybrid Approach for MiRNA-Disease Association prediction. Journal of Biomedical Informatics. 2017 76(2017): 50-58 (SCI, IF: 6.317, cited 40 times).

Ø  Zhi-An Huang#, Xing Chen#,*, Ze-Xuan Zhu*, Hongsheng Liu, Gui-Ying Yan, Zhu-Hong You, Zhenkun Wen. PBHMDA: Path-Based Human Microbe-Disease Association prediction. Frontiers in Microbiology. 2017 8:233 (SCI, IF: 5.64, cited 56 times) .

Ø  Yu-An Huang, ZhuHong You*, Xing Chen*, Zhi-An Huang, Shanwen Zhang, Gui-Ying Yan. Prediction of microbe–disease association from the integration of neighbor and graph with collaborative recommendation model. Journal of Translational Medicine. 2017 15:209 (SCI, IF: 5.531, cited 50 times).

2016

Ø  Xing Chen#,* Chenggang Clarence Yan#, Xiaotian Zhang, Xu Zhang, Feng Dai, Jian Yin, Yongdong Zhang. Drug–target interaction prediction: databases, web servers and computational models. Briefings in Bioinformatics. 2016 17(4):696-712 (SCI, IF: 11.622, cited 348 times, ESI highly cited paper)

Ø  Xing Chen#, Biao Ren#, Ming Chen, Quanxin Wang, lixin Zhang*, Guiying Yan*. NLLSS: Predicting Synergistic Drug Combinations based on semi-supervised learning. PLoS Computational Biology. 2016 12(7): e1004975 (SCI, IF: 4.475, cited 182 times)

Ø  Xing Chen#,*, Chenggang Clarence Yan#, Xu Zhang, Zhu-Hong You, Lixi Deng, Ying Liu*, Yongdong Zhang, Qionghai Dai. WBSMDA: Within and Between Score for MiRNA-Disease Association prediction. Scientific Reports. 2016 6:21106 (SCI, IF: 4.379, cited 264 times).

Ø  Xing Chen#,*, Chenggang Clarence Yan#, Xu Zhang, Zhu-Hong You, Yu-An Huang, Gui-Ying Yan*. HGIMDA: Heterogeneous Graph Inference for MiRNA-Disease Association prediction. Oncotarget. 2016 7(40): 65257-65269 (SCI, cited 179 times).

Ø  Yu-An Huang#, Zhu-Hong You#,*, Xing Chen*, Keith Chan, Xin Luo. Sequence-based Prediction of Protein-Protein Interactions Using Weighted Sparse Representation Model Combined with Global Encoding. BMC Bioinformatics. 2016 17:184 (SCI, IF: 3.169, cited 119 times).

Ø  Zheng-Wei Li#, Zhu-Hong You#, *, Xing Chen*, Jie Gui, Ru Nie. Highly Accurate Prediction of Protein-Protein Interactions via Incorporating Evolutionary Information and Physicochemical Characteristics. International Journal of Molecular Sciences. 2016 17(9): 1396 (SCI, IF: 5.924, cited 27 times).

2015

Ø  Xing Chen*. Predicting lncRNA-disease associations and constructing lncRNA functional similarity network based on the information of miRNA. Scientific Reports. 2015 5:13186 (SCI, IF: 4.379, cited 176 times)

Ø  Xing Chen#,*, Chenggang Clarence Yan#, Xiaotian Zhang, Zhaohui Li, Lixi Deng, Yongdong Zhang, Qionghai Dai. RBMMMDA: predicting multiple types of disease-microRNA associations. Scientific Reports. 2015 5: 13877 (SCI, IF: 4.379, cited 141 times).

Ø  Xing Chen#,*, Chenggang Clarence Yan#, Cai Luo, Wen Ji, Yongdong Zhang, Qionghai Dai. Constructing lncRNA functional similarity network based on lncRNA-disease associations and disease semantic similarity. Scientific Reports. 2015 5:11338 (SCI, IF: 4.379, cited 139 times)

Ø  Xing Chen*. KATZLDA: KATZ measure for the lncRNA-disease association prediction. Scientific Reports. 2015 5:16840 (SCI, IF: 4.379, cited 159 times)

2014

Ø  Xing Chen* and Gui-ying Yan*. Semi-supervised learning for potential human microRNA-disease associations inference. Scientific Reports. 2014 4:5501 (SCI, IF: 4.379, cited 294 times)

2013

Ø  Xing Chen* and Gui-ying Yan*. Novel human lncRNA-disease association inference based on lncRNA expression profiles. Bioinformatics. 2013 29(20): 2617-2624 (SCI, IF: 6.937, cited 390 times, ESI highly cited paper).

2012

Ø  Xing Chen, Ming-xi Liu and Gui-ying Yan*. Drug-target interaction prediction by random walk on the heterogeneous network. Molecular BioSystems. 2012 8(7): 1970-1978 (SCI, IF: 3.743, cited 416 times. Top ten most accessed articles in June 2012; Featured in the top 10% of the most highly cited articles published in the latest Impact Factor window (2011-2012)).

Ø  Xing Chen, Ming-xi Liu and Gui-ying Yan*. RWRMDA: predicting novel human microRNA–disease associations. Molecular BioSystems. 2012 8(10): 2792-2798 (SCI, IF: 3.743, cited 321 times).