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Xiang-Sun Zhang
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Journal Articles
- 2019
- [j66]Yong Wang, Xiang-Sun Zhang, Luonan Chen:
Systems biology intertwines with single cell and AI. BMC Bioinform. 20-S(7): 204:1-204:3 (2019) - 2018
- [j65]Yong Wang, Xiang-Sun Zhang, Luonan Chen:
Integrating data- and model-driven strategies in systems biology. BMC Syst. Biol. 12(4): 38:1-38:3 (2018) - 2017
- [j64]Duanchen Sun, Yinliang Liu, Xiang-Sun Zhang, Ling-Yun Wu:
NetGen: a novel network-based probabilistic generative model for gene set functional enrichment analysis. BMC Syst. Biol. 11(S-4): 61-74 (2017) - [j63]Yong Wang, Xiang-Sun Zhang, Luonan Chen:
Understanding biological systems through the lens of data. BMC Syst. Biol. 11(S-4): 77:1-77:2 (2017) - 2016
- [j62]Zhen-Ping Li, Rui-Sheng Wang, Shihua Zhang
, Xiang-Sun Zhang:
Quantitative function and algorithm for community detection in bipartite networks. Inf. Sci. 367-368: 874-889 (2016) - 2015
- [j61]Meng Zou, Zhaoqi Liu, Xiang-Sun Zhang, Yong Wang:
NCC-AUC: an AUC optimization method to identify multi-biomarker panel for cancer prognosis from genomic and clinical data. Bioinform. 31(20): 3330-3338 (2015) - 2014
- [j60]Junhua Zhang, Ling-Yun Wu, Xiang-Sun Zhang, Shihua Zhang:
Discovery of co-occurring driver pathways in cancer. BMC Bioinform. 15: 271 (2014) - 2013
- [j59]Yong Wang, Xiang-Sun Zhang, Luonan Chen:
Computational systems biology in the big data era. BMC Syst. Biol. 7(S-2): S1 (2013) - [j58]Junhua Zhang, Shi-Hua Zhang, Yong Wang, Xiang-Sun Zhang:
Identification of mutated core cancer modules by integrating somatic mutation, copy number variation, and gene expression data. BMC Syst. Biol. 7(S-2): S4 (2013) - [j57]Qiang Huang, Ling-Yun Wu, Xiang-Sun Zhang:
Corbi: a new R package for biological network alignment and querying. BMC Syst. Biol. 7(S-2): S6 (2013) - [j56]Zhixia Yang, Yuan-Hai Shao, Xiang-Sun Zhang:
Multiple birth support vector machine for multi-class classification. Neural Comput. Appl. 22(Supplement-1): 153-161 (2013) - 2012
- [j55]Junfei Zhao, Shi-Hua Zhang, Ling-Yun Wu, Xiang-Sun Zhang:
Efficient methods for identifying mutated driver pathways in cancer. Bioinform. 28(22): 2940-2947 (2012) - [j54]Xian-Wen Ren, Yong Wang, Jiguang Wang
A unified computational model for revealing and predicting subtle subtypes of cancers. BMC Bioinform. 13: 70 (2012) - [j53]Zhi-Ping Liu, Jiguang Wang
Inferring a protein interaction map of Mycobacterium tuberculosis based on sequences and interologs. BMC Bioinform. 13(S-7): S6 (2012) - [j52]Yong Wang, Xiang-Sun Zhang, Luonan Chen:
Modelling biological systems from molecules to dynamical networks. BMC Syst. Biol. 6(S-1): S1 (2012) - [j51]Yong Wang, Qiao-Feng Wu
Revealing metabolite biomarkers for acupuncture treatment by linear programming based feature selection. BMC Syst. Biol. 6(S-1): S15 (2012) - [j50]Chen Chen, Junfei Zhao, Qiang Huang, Rui-Sheng Wang
Inferring domain-domain interactions from protein-protein interactions in the complex network conformation. BMC Syst. Biol. 6(S-1): S7 (2012) - [j49]Xiang-Sun Zhang, Zhen-Ping Li, Rui-Sheng Wang, Yong Wang:
A combinatorial model and algorithm for globally searching community structure in complex networks. J. Comb. Optim. 23(4): 425-442 (2012) - 2011
- [j48]Qiang Huang, Ling-Yun Wu, Xiang-Sun Zhang:
An efficient network querying method based on conditional random fields. Bioinform. 27(22): 3173-3178 (2011) - [j47]Xian-Wen Ren, Yong-Cui Wang, Yong Wang, Xiang-Sun Zhang, Nai-Yang Deng:
Improving accuracy of protein-protein interaction prediction by considering the converse problem for sequence representation. BMC Bioinform. 12: 409 (2011) - [j46]Yong Wang, Xiang-Sun Zhang, Luonan Chen:
Computational systems biology: integration of sequence, structure, network, and dynamics. BMC Syst. Biol. 5(S-1): S1 (2011) - [j45]Zhen-Ping Li, Rui-Sheng Wang
Two-stage flux balance analysis of metabolic networks for drug target identification. BMC Syst. Biol. 5(S-1): S11 (2011) - 2010
- [j44]Zhi-Ping Liu, Ling-Yun Wu, Yong Wang, Xiang-Sun Zhang, Luonan Chen:
Prediction of protein-RNA binding sites by a random forest method with combined features. Bioinform. 26(13): 1616-1622 (2010) - [j43]Yu-Qing Qiu, Shi-Hua Zhang, Xiang-Sun Zhang, Luonan Chen:
Detecting disease associated modules and prioritizing active genes based on high throughput data. BMC Bioinform. 11: 26 (2010) - [j42]Xian-Wen Ren, Xiaobo Zhou, Ling-Yun Wu, Xiang-Sun Zhang:
An information-flow-based model with dissipation, saturation and direction for active pathway inference. BMC Syst. Biol. 4: 72 (2010) - [j41]Yong Wang, Xiang-Sun Zhang, Luonan Chen:
Optimization meets systems biology. BMC Syst. Biol. 4(S-2): S1 (2010) - [j40]Shi-Hua Zhang, Xue-Mei Ning, Chris H. Q. Ding, Xiang-Sun Zhang:
Determining modular organization of protein interaction networks by maximizing modularity density. BMC Syst. Biol. 4(S-2): S10 (2010) - [j39]Zhi-Ping Liu, Yong Wang, Xiang-Sun Zhang, Luonan Chen:
Identifying dysfunctional crosstalk of pathways in various regions of Alzheimer's disease brains. BMC Syst. Biol. 4(S-2): S11 (2010) - [j38]Zhongyuan Zhang, Tao Li, Chris H. Q. Ding, Xian-Wen Ren, Xiang-Sun Zhang:
Binary matrix factorization for analyzing gene expression data. Data Min. Knowl. Discov. 20(1): 28-52 (2010) - [j37]Luonan Chen, Xiang-Sun Zhang:
Editorial. J. Syst. Sci. Complex. 23(5): 883 (2010) - [j36]Zhen-Ping Li, Rui-Sheng Wang, Xiang-Sun Zhang, Luonan Chen:
Self-organizing map of complex networks for community detection. J. Syst. Sci. Complex. 23(5): 931-941 (2010) - [j35]Xian-Wen Ren, Xiang-Sun Zhang:
A linear programming model based on network flow for pathway inference. J. Syst. Sci. Complex. 23(5): 971-977 (2010) - [j34]Junhua Zhang, Yu-Qing Qiu, Xiang-Sun Zhang:
Detecting community structure: From parsimony to weighted parsimony. J. Syst. Sci. Complex. 23(5): 1024-1036 (2010) - 2009
- [j33]Rui-Sheng Wang
Modeling post-transcriptional regulation activity of small non-coding RNAs in Escherichia coli. BMC Bioinform. 10(S-4) (2009) - [j32]Shi-Hua Zhang, Hong-Wei Liu, Xue-Mei Ning, Xiang-Sun Zhang:
A hybrid graph-theoretic method for mining overlapping functional modules in large sparse protein interaction networks. Int. J. Data Min. Bioinform. 3(1): 68-84 (2009) - [j31]Ling-Yun Wu, Zhen-Ping Li, Rui-Sheng Wang, Xiang-Sun Zhang, Luonan Chen:
Self-organizing map approaches for the haplotype assembly problem. Math. Comput. Simul. 79(10): 3026-3037 (2009) - [j30]Jiguang Wang
Disease-Aging Network Reveals Significant Roles of Aging Genes in Connecting Genetic Diseases. PLoS Comput. Biol. 5(9) (2009) - [j29]Yong Wang, Ling-Yun Wu, Ji-Hong Zhang, Zhong-Wei Zhan, Xiang-Sun Zhang, Luonan Chen:
Evaluating Protein Similarity from Coarse Structures. IEEE ACM Trans. Comput. Biol. Bioinform. 6(4): 583-593 (2009) - 2008
- [j28]Shihua Zhang, Xiang-Sun Zhang, Luonan Chen:
Biomolecular network querying: a promising approach in systems biology. BMC Syst. Biol. 2: 5 (2008) - [j27]Ji-Hong Zhang, Ling-Yun Wu, Jian Chen, Xiang-Sun Zhang:
A fast haplotype inference method for large population genotype data. Comput. Stat. Data Anal. 52(11): 4891-4902 (2008) - [j26]Zhi-Ping Liu, Ling-Yun Wu, Yong Wang, Xiang-Sun Zhang, Luonan Chen:
Protein cavity clustering based on community structure of pocket similarity network. Int. J. Bioinform. Res. Appl. 4(4): 445-460 (2008) - [j25]Rui-Sheng Wang, Shi-Hua Zhang, Yong Wang, Xiang-Sun Zhang, Luonan Chen:
Clustering complex networks and biological networks by nonnegative matrix factorization with various similarity measures. Neurocomputing 72(1-3): 134-141 (2008) - [j24]Jiguang Wang, Yu-Qing Qiu, Rui-Sheng Wang, Xiang-Sun Zhang:
Remarks on Network Community Properties. J. Syst. Sci. Complex. 21(4): 637-644 (2008) - [j23]Lin Wang, Yu-Qing Qiu, Jiguang Wang
Recognition of Structure Similarities in Proteins. J. Syst. Sci. Complex. 21(4): 665-675 (2008) - 2007
- [j22]Zhen-Ping Li, Shi-Hua Zhang, Yong Wang, Xiang-Sun Zhang, Luonan Chen:
Alignment of molecular networks by integer quadratic programming. Bioinform. 23(13): 1631-1639 (2007) - [j21]Rui-Sheng Wang
Inferring transcriptional regulatory networks from high-throughput data. Bioinform. 23(22): 3056-3064 (2007) - [j20]Zhi-Ping Liu, Ling-Yun Wu, Yong Wang, Luonan Chen, Xiang-Sun Zhang:
Predicting gene ontology functions from protein's regional surface structures. BMC Bioinform. 8 (2007) - [j19]Rui-Sheng Wang
Analysis on multi-domain cooperation for predicting protein-protein interactions. BMC Bioinform. 8 (2007) - [j18]Ji-Hong Zhang, Ling-Yun Wu, Yu-Ying Zhao, Xiang-Sun Zhang:
An optimization approach to the reconstruction of positional DNA sequencing by hybridization with errors. Eur. J. Oper. Res. 182(1): 413-427 (2007) - [j17]Yong Wang, Ling-Yun Wu, Luonan Chen, Xiang-Sun Zhang:
Supervised classification of protein structures based on convex hull representation. Int. J. Bioinform. Res. Appl. 3(2): 123-144 (2007) - [j16]Zhen-Jun Shi, Xiang-Sun Zhang, Jie Shen:
Convergence analysis of adaptive trust region methods. RAIRO Oper. Res. 41(1): 105-121 (2007) - 2006
- [j15]Ju-Liang Zhang, Xiang-Sun Zhang:
A smoothing Levenberg-Marquardt method for NCP. Appl. Math. Comput. 178(2): 212-228 (2006) - [j14]Yong Wang, Trupti Joshi
Inferring gene regulatory networks from multiple microarray datasets. Bioinform. 22(19): 2413-2420 (2006) - [j13]Shi-Hua Zhang, Xue-Mei Ning, Xiang-Sun Zhang:
Identification of functional modules in a PPI network by clique percolation clustering. Comput. Biol. Chem. 30(6): 445-451 (2006) - [j12]Ling-Yun Wu, Xiang-Sun Zhang, Ju-Liang Zhang:
Capacitated facility location problem with general setup cost. Comput. Oper. Res. 33: 1226-1241 (2006) - 2005
- [j11]Rui-Sheng Wang
Haplotype reconstruction from SNP fragments by minimum error correction. Bioinform. 21(10): 2456-2462 (2005) - [j10]Zhen-Ping Li, Wenfeng Zhou, Xiang-Sun Zhang, Luonan Chen:
A parsimonious tree-grow method for haplotype inference. Bioinform. 21(17): 3475-3481 (2005) - [j9]Yu-Ying Zhao, Ling-Yun Wu, Ji-Hong Zhang, Rui-Sheng Wang
Haplotype assembly from aligned weighted SNP fragments. Comput. Biol. Chem. 29(4): 281-287 (2005) - [j8]Xiang-Sun Zhang, Yong Wang, Zhong-Wei Zhan, Ling-Yun Wu, Luonan Chen:
Exploring Protein's Optimal Hp Configurations by Self-organizing Mapping. J. Bioinform. Comput. Biol. 3(2): 385-400 (2005) - [j7]Tianshou Zhou, Luonan Chen, Yun Tang, Xiang-Sun Zhang:
Aligning Multiple Protein Structures by Deterministic Annealing. J. Bioinform. Comput. Biol. 3(4): 837-860 (2005) - 2003
- [j6]Ji-Hong Zhang, Ling-Yun Wu, Xiang-Sun Zhang:
Reconstruction of DNA sequencing by hybridization. Bioinform. 19(1): 14-21 (2003) - 2001
- [j5]Ju-Liang Zhang, Xiang-Sun Zhang:
A Modified SQP Method with Nonmonotone Linesearch Technique. J. Glob. Optim. 21(2): 201-218 (2001) - 2000
- [j4]De-Gang Liu, Xiang-Sun Zhang:
Test Problem Generator by Neural Network for Algorithms that Try Solving Nonlinear Programming Problems Globally. J. Glob. Optim. 16(3): 229-243 (2000) - 1990
- [j3]Xiang-Sun Zhang, De-Gang Liu:
A Note on the Continuity of Solutions of Parametric Linear Programs. Math. Program. 47: 143-153 (1990) - 1989
- [j2]Ding-Zhu Du, Xiang-Sun Zhang:
Global convergence of Rosen's gradient projection method. Math. Program. 44(1-3): 357-366 (1989) - 1986
- [j1]Ding-Zhu Du, Xiang-Sun Zhang:
A convergence theorem of Rosen's gradient projection method. Math. Program. 36(2): 135-144 (1986)
Conference and Workshop Papers
- 2021
- [c16]Can Jin, Xin Peng, Qing Liu, Xinhan Ye, Lang Chen, Qiuyue Yuan, Xiang-Sun Zhang, Ling-Yun Wu, Yong Wang:
An Optimization Method for Calibrating Wireline Conveyance Tension. CSDM Asia / CSDM 2021: 159-174 - 2012
- [c15]Qiang Huang, Ling-Yun Wu, Xiang-Sun Zhang:
CNetA: Network alignment by combining biological and topological features. ISB 2012: 220-225 - [c14]Junhua Zhang, Shi-Hua Zhang, Yong Wang, Junfei Zhao, Xiang-Sun Zhang:
Identifying mutated core modules in glioblastoma by integrative network analysis. ISB 2012: 304-309 - 2011
- [c13]Zhi-Ping Liu, Jiguang Wang
Inferring Protein-Protein Interactions Based on Sequences and Interologs in Mycobacterium Tuberculosis. ICIC (3) 2011: 91-96 - 2010
- [c12]Zhi-Ping Liu, Xiang-Sun Zhang, Luonan Chen:
Inferring gene regulatory networks from expression data with prior knowledge by linear programming. ICMLC 2010: 3067-3072 - 2009
- [c11]Zhi-Ping Liu, Yong Wang, Tieqiao Wen, Xiang-Sun Zhang, Weiming Xia, Luonan Chen:
Dynamically dysfunctional protein interactions in the development of Alzheimer's disease. SMC 2009: 4262-4267 - 2008
- [c10]Rui-Sheng Wang, Guangxu Jin, Xiang-Sun Zhang, Luonan Chen:
Reconstruction of Regulator Activity in E. coli Post-Transcription Processes. BIBM 2008: 339-342 - 2007
- [c9]Zhongyuan Zhang, Tao Li, Chris H. Q. Ding, Xiang-Sun Zhang:
Binary Matrix Factorization with Applications. ICDM 2007: 391-400 - [c8]Rui-Sheng Wang, Shi-Hua Zhang, Xiang-Sun Zhang, Luonan Chen:
Identifying Modules in Complex Networks by a Graph-Theoretical Method and Its Application in Protein Interaction Networks. ICIC (2) 2007: 1090-1101 - [c7]Rui-Sheng Wang, Yong Wang, Xiang-Sun Zhang, Luonan Chen:
Detecting Community Structure in Complex Networks by Optimal Rearrangement Clustering. PAKDD Workshops 2007: 119-130 - 2006
- [c6]Zhen-Ping Li, Yong Wang, Shihua Zhang, Xiang-Sun Zhang, Luonan Chen:
Alignment of Protein Interaction Networks by Integer Quadratic Programming. EMBC 2006: 5527-5530 - [c5]Shi-Hua Zhang, Hong-Wei Liu, Xue-Mei Ning, Xiang-Sun Zhang:
A Graph-Theoretic Method for Mining Functional Modules in Large Sparse Protein Interaction Networks. ICDM Workshops 2006: 130-135 - [c4]Shi-Hua Zhang, Xue-Mei Ning, Hong-Wei Liu, Xiang-Sun Zhang:
Prediction of Protein Complexes Based on Protein Interaction Data and Functional Annotation Data Using Kernel Methods. ICIC (3) 2006: 514-524 - [c3]Yong Wang, Trupti Joshi, Dong Xu, Xiang-Sun Zhang, Luonan Chen:
Supervised Inference of Gene Regulatory Networks by Linear Programming. ICIC (3) 2006: 551-561 - [c2]Yong Wang, Ling-Yun Wu, Xiang-Sun Zhang, Luonan Chen:
Automatic Classification of Protein Structures Based on Convex Hull Representation by Integrated Neural Network. TAMC 2006: 505-514 - 1994
- [c1]Xiang-Sun Zhang, Hui-Can Zhu:
A Neural Network Model for Quadratic Programming with Simple Upper and Lower Bounds and its Application to Linear Programming. ISAAC 1994: 119-127
Parts in Books or Collections
- 2009
- [p1]Shi-Hua Zhang, Rui-Sheng Wang, Xiang-Sun Zhang, Luonan Chen:
Fuzzy System Methods in Modeling Gene Expression and Analyzing Protein Networks. Fuzzy Systems in Bioinformatics and Computational Biology 2009: 165-189
Editorship
- 1994
- [e1]Ding-Zhu Du, Xiang-Sun Zhang:
Algorithms and Computation, 5th International Symposium, ISAAC '94, Beijing, P. R. China, August 25-27, 1994, Proceedings. Lecture Notes in Computer Science 834, Springer 1994, ISBN 3-540-58325-4 [contents]
Informal and Other Publications
- 2015
- [i5]Zhen-Ping Li, Rui-Sheng Wang, Shi-Hua Zhang, Xiang-Sun Zhang:
Quantitative Function and Algorithm for Community Detection in Bipartite Networks. CoRR abs/1501.00432 (2015) - [i4]Hui-Jia Li, Xiang-Sun Zhang:
Analysis of stability of community structure across multiple hierarchical levels. CoRR abs/1503.08018 (2015) - [i3]Hui-Jia Li, Junhua Zhang, Zhi-Ping Liu, Luonan Chen, Xiang-Sun Zhang:
Identifying overlapping communities in social networks using multi-scale local information expansion. CoRR abs/1503.08024 (2015) - [i2]Hui-Jia Li, Yong Wang, Ling-Yun Wu, Junhua Zhang, Xiang-Sun Zhang:
Potts model based on a Markov process computation solves the community structure problem effectively. CoRR abs/1503.08035 (2015) - 2011
- [i1]Shi-Hua Zhang, Junfei Zhao, Xiang-Sun Zhang:
Co-community Structure in Multiple Evolving Networks. CoRR abs/1111.1365 (2011)
Coauthor Index
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