All
2018
- Guangyuan Fu, Jun Wang, Carlotta Domeniconi, Guoxian Yu*. Matrix factorization based data fusion for the prediction of lncRNA-disease associations, Bioinformatics, 2018, 34(9):1529-1537. Codes.
- Guoxian Yu#*, Yuan Jiang#, Jun Wang, Hao Zhang, Haiwei Luo*. BMC3C: Binning Metagenomic Contigs using Codon usage, sequence Composition and read Coverage, Bioinformatics, In Print. Codes.
- Yuying Xing+, Guoxian Yu*, Carlotta Domeniconi, Jun Wang, Zili Zhang. Multi-Label Co-Training, 27th International Joint Conference on Artificial Intelligence(IJCAI), 2018, pp.2882-2888. Codes.
- Qiaoyu Tan+, Guoxian Yu*, Carlotta Domeniconi, Jun Wang, Zili Zhang. Incomplete Multi-View Weak-Label Learning, 27th International Joint Conference on Artificial Intelligence(IJCAI), 2018, pp.2703-2709. Codes.
- Qiaoyu Tan+, Guoxian Yu*, Jun Wang, Zili Zhang, Carlotta Domeniconi. Multi-view Weak-label Learning based on Matrix Completion, SIAM Conference on Data Mining(SDM), 2018, pp.450-458.
- inzheng Tu+, Guoxian Yu*, Carlotta Domeniconi, Jun Wang, Guoqiang Xiao, and Maozu Guo. Multi-Label Answer Aggregation based on Joint Matrix Factorization, International Conference on Data Mining (ICDM), In Print. Codes.
- Xing Wang+, Guoxian Yu, Carlotta Domeniconi, Jun Wang*, Zhiwen Yu, and Zili Zhang. Multiple Co-Clusterings, International Conference on Data Mining (ICDM), In Print. Codes.
- Xia Chen+, Guoxian Yu*, Carlotta Domeniconi, Jun Wang, Zhao Li, and Zili Zhang. Cost Effective Multi-label Active Learning via Querying Subexamples, International Conference on Data Mining(ICDM), In Print. Codes.
- Guoxian Yu*, Xia Chen+, Carlotta Domeniconi, Jun Wang, Zhao Li, Zili Zhang, and Xindong Wu+ Feature-induced Partial Multi-label Learning, International Conference on Data Mining (ICDM), In Print Codes.
- Guoxian Yu*, Guangyuan Fu+, Jun Wang, Yingwen Zhao+. NewGOA: predicting new GO annotations of proteins by bi-random walks on a hybrid graph, IEEE/ACM Transactions on Computational Biology and Bioinformatics, 2018, 15(4): 1390-1402 Codes.
- Guoxian Yu, Keyao Wang, Guangyuan Fu, Maozu Guo, Jun Wang*. NMFGO: Gene function prediction via nonnegative matrix factorization with Gene Ontology, IEEE/ACM Transactions on Computational Biology and Bioinformatics, In Print. Codes.
- Yingwen Zhao+#, Guangyuan Fu+#, Jun Wang, Maozu Guo, Guoxian Yu*. Gene function prediction based on Gene Ontology Hierarchy Preserving Hashing, Genomics, In Print. Codes.
- Jie Liu, Guoxian Yu, Yazhou Ren, Maozu Guo, Jun Wang*. TrioMDR: detecting SNP interactions in trio families with model-based multifactor dimensionality reduction, Genomics, In Print. Codes.
- Long Zhang+, Guoxian Yu, Dawen Xia, Jun Wang*. Protein-Protein Interactions Prediction based on Ensemble Deep Neural Networks, Neurocomputing, In Print.
- Xia Cao+, Guoxian Yu, Jie Liu, Lianyin Jia, Jun Wang*. ClusterMI: Detecting High-Order SNP Interactions based on Clustering and Mutual Information, International Journal of Molecular Sciences, 2018, 19(8), 2267
- Xia Chen, Guoxian Yu*, Carlotta Domeniconi, Jun Wang, Zili Zhang. Matrix Factorization for Identifying Noisy Labels of Multi-label Instances, 15th Pacific Rim International Conference on Artificial Intelligence (PRICAI), 2018, pp.508-517
- Yuehui Wang+, Maozu Guo, Yazhou Ren, Lianyin Jia, Guoxian Yu*. Drug Repositioning based on Individual Bi-random Walks on a Heterogenous Network, 14th International Symposium on Bioinformatics Research and Applications (ISBRA), In Print.
- Xia Cao+, Jie Liu, Maozu Guo, Jun Wang*. HiSSI: High-order SNP-SNP Interactions Detection based on Efficient Significant Pattern and Differential Evolution, 14th International Symposium on Bioinformatics Research and Applications (ISBRA), In Print.
- Long Zhang+, Guoxian Yu, Maozu Guo, Jun Wang*. Predicting protein-protein interactions using high-quality non-interacting pairs, 29th International Conference on Genome Informatics(BMC Bioinformatics), 2018, In Print.
- Xing Wang+, Jun Wang*, Guoxian Yu, Maozu Guo. Network Regularized Bi-Clustering for Cancer Subtype Categorization, Chinese Journal of Computers, In Print, 2018.
- Lin Jiang+, Jun Wang*, Guoxian Yu. Semi-Supervised Multi-Label Feature Selection based on Sparsity Regularization Dependence Maximization, 9th International Conference on Intelligent Control and Information Processing, In Print, 2018.
- Ziying Yang+, Guoxian Yu, Maozu Guo, Jun Wang*. CDPath: Cooperative driver pathways discovery using integer linear programming and Markov clustering, Asia Pacific Bioinformatics Conference(APBC), In Print
- Guoxian Yu, Yuehui Wang+, Jun Wang*, Guangyuan Fu+, Maozu Guo, and Carlotta Domeniconi. Weighted matrix factorization based data fusion for predicting lncRNA-disease associations, IEEE International Conference on Bioinformatics and Biomedicine (BIBM), In Print
2017
- Chang Lu+, Xia Chen, Jun Wang, Guoxian Yu*, Zhiwen Yu. Identifying noisy functional annotations of proteins using sparse semantic similarity, SCIENTIA SINICA Informationis, 2017, 47(12): 2000-2015
- Guoxian Yu*, Guangyuan Fu+, Jun Wang, MaoZu Guo. Predicting irrelevant functions of proteins based on dimensionality reduction, SCIENTIA SINICA Informationis, 2017, 47(10): 1349-1368.
- Qiaoyu Tan+, Guoxian Yu, Jun Wang*, MaoZu Guo. Ensemble Weak-Label Classification by Maximizing Dependency Between Label and Feature, Journal of Software, 2017,28(11): 2851-2864.
- Guoxian Yu, Keyao Wang, Guangyuan Fu, Jun Wang*, An Zen. Protein Function Prediction Based on Multiple Networks Collaborative Matrix Factorization, Journal of Computer Research and Development, 2017, 54(12): 2660-2673.
- Yanming Yu+, Guoxian Yu*, Xia Chen+ and Yazhou Ren. Semi-supervised Multi-label Linear Discriminant Analysis, 24th International Conference on Neural Information Processing (CCF Rank C), 2017, pp. 688-698.
- Yanming Yu+, Jun Wang*, Qiaoyu Tan+, Lianyin Jia, Guoxian Yu. Semi-supervised Multi-label Dimensionality Reduction based on Dependence Maximization, IEEE ACCESS, 2017, 5: 21927-21940.
- Guoxian Yu, Yingwen Zhao+, Chang Lu+, Jun Wang*. HashGO: Hashing Gene Ontology for protein function prediction, Computational Biology and Chemistry, 2017, 71:264-273.
- Jun Wang, Long Zhang, Lianyin Jia, Yazhou Ren, Guoxian Yu*. Protein-Protein Interactions Prediction using a Novel Local Conjoint Triad Descriptor of Amino Acids Sequence, International Journal of Molecular Sciences, 2017, 18(11), 2373.
- Guoxian Yu*, Chang Lu+, Jun Wang. NoGOA: predicting noisy GO annotations using evidences and sparse representation, BMC Bioinformatics (CCF Rank C), 2017, 18: 350. Codes.
- Qiaoyu Tan+, Yanming Yu+, Guoxian Yu, Jun Wang*. Semi-supervised multi-label classification using incomplete label information, Neurcomputing (CCF Rank C), 2017, 260: 192-202.
- Jun Wang ,Guangjun Yao+, Guoxian Yu*. Semi-supervised classification by discriminative regularization, Applied Soft Computing, 2017, 58: 245-255.
- Guoxian Yu*, Guangyuan Fu+, Chang Lu+, Yazhou Ren, Jun Wang*. BRWLDA: Bi-random walks for predicting lncRNA-disease associations, Oncotarget, 2017, 8(36): 60429-60446.
- Jie Liu+, Guoxian Yu, Yuan Jiang+, Jun Wang*. HiSeeker: Detecting High-Order SNP Interactions Based on Pairwise SNP Combinations, Genes, 2017, 8(6): 153.
- Qiaoyu Tan, Yezi Liu, Xia Chen, Guoxian Yu. Multi-Label Classification Based on Low Rank Representation for Image Annotation, Remote Sensing, 2017, 9(2): 109.
- Yuan Jiang, Jun Wang, Dawen Xia, Guoxian Yu. EnSVMB: Metagenomics Fragments Classification using Ensemble SVM and BLAST, Scientific Reports, 2017, 7: 9440.
- Guoxian Yu, Xianxue Yu, Jun Wang*. Network-aided Bi-Clustering for discovering cancer subtypes, Scientific Reports, 2017, 7: 1046. Codes.
- Xianchun Zou, Guijun Wang, Guoxian Yu*. Protein Function Prediction Using Deep Restricted Boltzmann Machines, BioMed Research International, 2017, 2017(4): 1729301.
- Xianxue Yu, Guoxian Yu, Jun Wang*. Clustering cancer gene expression data by projective clustering ensemble, PLoS ONE, 2017, 12(2): e0171429.
- Xia Chen+, Chang Lu+, Qiaoyu Tan+, Guoxian Yu*. Semi-Supervised Classification based on Clustering Adjusted Similarity, International Journal of Computers and Applications, 2017, 38(4): 210-219.
2016
- Guangyuan Fu, Guoxian Yu, Jun Wang, Maozu Guo. Protein Function Prediction Using Positive and Negative Examples, Journal of Computer Research and Development, 2016, 53(8): 1753-1765.
- Guangyuan Fu, Guoxian Yu*, Jun Wang, Zili Zhang. Novel protein-function prediction using a directed hybrid graph, SCIENTIA SINICA Informationis, 2016, 46(4): 461-475.
- Guangyuan Fu, Jun Wang, Bo Yang, Guoxian Yu*. NegGOA: Negative GO Annotations Selection using Ontology Structure, Bioinformatics, 2016, 32(19): 2996-3004.
- Guoxian Yu*, Guangyuan Fu+, Jun Wang, Hailong Zhu. Predicting Protein Function via Semantic Integration of Multiple Networks, IEEE/ACM Transactions on Computational Biology and Bioinformatics (TCBB), 2016, 13(2): 220-232. Codes.
- Guoxian Yu, Wei Luo, Guangyuan Fu, Jun Wang. Interspecies gene function prediction using semantic similarity, BMC Systems Biology, 2016, 10: 361.
- Jie Liu, Jun Wang, Guoxian Yu. Protein Function Prediction by Random Walks on a Hybrid Graph, Current Proteomics, 2016, 13(2): 130-142.
- Chang Lu, Jun Wang, Zili Zhang, Pengyi Yang, Guoxian Yu. NoisyGOA: Noisy GO annotations prediction using taxonomic and semantic similarity, Computational Biology and Chemistry, 2016, 65: 203-211.
- Yuan Jiang+, Yuliang Liao, Guoxian Yu*. Affinity Propagation Clustering Using Path Based Similarity, Algorithms, 2016, 9(3): 46.
- Xuan Hou, Guangjun Yao, Jun Wang*. Semi-Supervised Classification based on Low Rank Representation, Algorithms, 2016, 9(3): 48.
- Guoxian Yu, Lei Feng, Guangjun Yao, Jun Wang*. Semi-supervised classification using multiple clusterings, Pattern Recognition and Image Analysis, 2016, 26(4): 681-687.
2015
- Guoxian Yu, Guoji Zhang, Zili Zhang, Zhiwen Yu, Lin Deng. Semi-Supervised Classification based on Subspace Sparse Representation, Knowledge and Information Systems (CCF Rank B), 2015, 43 (1): 81-101.
- Guoxian Yu, Huzefa Rangwala, Carlotta Domeniconi, Guoji Zhang, Zili Zhang. Predicting Protein Function using Multiple Kernels, IEEE/ACM Transactions on Computational Biology and Bioinformatics (TCBB) (CCF Rank C), 2015, 12(1): 219-233. Codes.
- Guoxian Yu, Hailong Zhu, Carlotta Domeniconi. Predicting Protein Function using Incomplete Hierarchical Labels, BMC Bioinformatics (CCF Rank C), 2015, 16: 1. Codes.
- Guoxian Yu, Hailong Zhu, Carlotta Domeniconi, Jiming Liu. Predicting protein function via downward random walks on a gene ontology, BMC Bioinformatics (CCF Rank C), 2015, 16: 271. Codes.
- Guoxian Yu, Hailong Zhu, Carlotta Domeniconi, Maozu Guo. Integrating Multiple Networks for Protein Function Prediction, BMC Systems Biology, 2015, 9(S1): S3. Codes.
- Lei Feng, Guoxian Yu*. Semi-Supervsied Classification using Mixture Graph, Algorithms, 2015, 8(4): 1021-1034.
2014
- Guoxian Yu, Huzefa Rangwala, Carlotta Domeniconi, Guoji Zhang, Zhiwen Yu. Protein Function Prediction with Incomplete Annotations, IEEE/ACM Transactions on Computational Biology and Bioinformatics (TCBB), 2014, 11(3): 579-591.
- Yazhou Ren, Carlotta Domeniconi, Guoji Zhang, Guoxian Yu. A Weighted Adaptive Mean Shift Clustering Algorithm, SIAM Conference on Data Mining, 2014, 794-802.
- Zhiwen Yu, Le Li, HauSan Wong, Jane You, Guoqiang Han, Yunjun Guo, Guoxian Yu. Probabilistic Cluster Structure Ensemble, Information Sciences, 2014, 267:16-34.
- Jun Wang, Le Zhang, Quan Zou, Jun Tan, Xiaowei Chen, Yukun Wu. Association studies on mtDNA and Parkinsons disease population discrimination using the statistical classification, Current Bioinformatics, 2014, 9:481-489.
2013
- Guoxian Yu ,Huzefa Rangwala, Carlotta Domeniconi, Guoji Zhang, Zili Zhang. Protein Function Prediction by Integrating Multiple Kernels, Proceedings of the 23rd IJCAI (International Joint Conference on Artificial Intelligence)(CCF Rank A), 2013, 1869-1875.
- Guoxian Yu, Carlotta Domeniconi, Huzefa Rangwala, Guoji Zhang. Protein Function Prediction using Dependence Maximization, Proceedings of the ECML/PKDD(23rd European Conference on Machine Learning and Principles and Practice of Knowledge Discovery in Databases) (CCF Rank B), 2013, 8188 :574-589.
- Guoxian Yu, Huzefa Rangwala, Carlotta Domeniconi, Guoji Zhang, Zhiwen Yu. Protein Function Prediction using Multi-label Ensemble Classification, IEEE/ACM Transactions on Computational Biology and Bioinformatics (TCBB) (CCF Rank C), 2013, 10(4): 1045-1057. Codes.
- Yazhou Ren, Carlotta Domeniconi, Guoji Zhang, Guoxian Yu. Weighted-Object Ensemble Clustering, Proceedings of IEEE International Conference on Data Mining (ICDM), 2013, 1-29.
- Jun Wang, Le Zhang, Chengyang Jing, Gang Ye, Hulin Wu, Hongyu Miao, Yukun Wu, Xiaobo Zhou. Multi-scale Agent-based Modeling on melanoma and its related angiogenesis analysis, Theoretical Biology and Medical Modelling, 2013, 10: 41.
- Jun Wang, Yong Sun. A Sliding Window and Keyword Tree Based Algorithm for Multiple Sequence Alignment, The 9th International Conference on Fuzzy Systems and Knowledge Discovery, 2013, 3: 1109-1113.
2012
- Guoxian Yu, Carlotta Domeniconi, Huzefa Rangwala, Guoji Zhang, Zhiwen Yu. Transductive Multi-label Ensemble Classification for Protein Function Prediction, Proceedings of the 18th ACM SIGKDD (Knowledge Discovery and Data Mining) (CCF Rank A), 2012, 1077-1085.
- Guoxian Yu, Guoji Zhang, Carlotta Domeniconi, Zhiwen Yu, Jane You. Semi-Supervised Classification based on Random Subspace Dimensionality Reduction, Pattern Recognition (CCF Rank B), 2012, 45(3): 1119-1135.
- Guoxian Yu, Guoji Zhang, Huzefa Rangwala, Carlotta Domeniconi, Zhiwen Yu. Protein Function Prediction using Weak-label Learning, Proceedings of 3rd ACM Conference on Bioinformatics, Computational Biology and Biomedicine (ACM BCB), 2012, 202-209.
- Guoxian Yu, Guoji Zhang, Zhiwen Yu, Carlotta Domeniconi, Jane You, Guoqiang Han. Semi-Supervised Ensemble Classification in Subspaces, Applied Soft Computing, Applied Soft Computing, 2012, 12(5): 1511-1522.
- Yazhou Ren, Guoji Zhang, Guoxian Yu, Xuan Li. Local and Global Structure Preserving based Feature Selection, Neurocomputing (CCF Rank C), 2012, 89: 147-157.
- Zhiwen Yu, HauSan Wong, Jane You, Guoxian Yu, Guoqiang Han. Hybrid Cluster Ensemble Framework based on the Random Combination of Data Transformation Operators, Pattern Recognition (CCF Rank B), 2012, 45(5): 1826-1837.
2011
- Guoxian Yu, Guoji Zhang, Jia Wei, Yazhou Ren. A Multi Graphs Based Transductive Ensemble Classification Method, Journal of Electronics & Information Technology, 2011, 31(8): 1883-1888.
- Guoxian Yu, Hong Peng, Jia Wei, Qianli Ma, Enhanced Locality Preserving Projections with Robust Path based Similarity, Neurocomputing, 2011, 74(4): 598-605.
- Guoxian Yu, Zhiwen Yu, Jing Hua, Xuan Li and Jane You, Sparse Representation based Spectral Regression, in Proceedings of the IEEE 10th International Conference on Machine Learning and Cybernetic (ICMLC), 2011, 2: 532-537.
2010
- Guoxian Yu, Hong Peng, Jia Wei, Qianli Ma. Mixture Graph based Semi-Supervised Dimensionality Reduction, Pattern Recognition and Image Analysis, 2010, 20(4): 536-541.
- Quan Zou, Maozu Guo, Yang Liu, Jun Wang. A Classification Method for Class-Imbalanced Data and Its Application on Bioinformatics, Journal of Computer Research and Development, 2010, 47(8): 1407-1414.
- Jun Wang, Quan Zou, Maozu Guo. Mining SNPs from EST Sequences Using Filters and Ensemble Classifiers, Genetics and Molecular Research, 2010, 9(2): 820-834.
- Jun Wang, Maozu Guo. SNPs and Entropy based Hierarchical Clustering Method for Genetic Phylogeny Analysis, 7th International Conference on Fuzzy Systems and Knowledge Discovery, FSKD?10, 2010, 5: 2229-2233.
- Jun Wang, Maozu Guo. A Graph and Hierarchical Clustering based Approach for Population Structure Inference, 2010 ACM International Conference on Bioinformatics and Computational Biology, 2010, 346-349.
2009
- Jun Wang, Maozu Guo, Quan Zou. An mtSNPs based method for disease population discrimination, China National Computer Conference 2009, 2009, 739-746.
- Guoxian Yu, Hong Peng, Qianli Ma, Jia Wei. Robust Path Based Semi-Supervised Dimensionality Reduction, in Proceedings of the IEEE 6th International Conference on Information and Automation (ICIA), 2009, 1258-1263.
- Jun Wang, Maozu Guo, Chunyu Wang. CGTS: A Site-clustering Graph Based TagSNP Selection Algorithm in Genotype Data, BMC Bioinformatics, 2009, 10(1): S71.
- MaoZu Guo, Jun Wang, Chunyu Wang, Yang Liu. A Hybrid Clustering and Graph Based Algorithm for TagSNP Selection, Soft Computing, 2009, 13(12):1143-1151.
2008
- Jun Wang, Maozu Guo, Juan Chen, Yang Liu. TagSNPs Selection Using Maximum Density Subgraph, The Fourth International Conference on Natural Computation, 2008, 5:128-132.
2007
- Jun Wang, Maozu Guo. Study on Transcription Factor Binding Sites Discovery Algorithms, Acta Electronica Sinica, 2007, 35(12):83-89.