Xiang-Sun Zhang

Publication Activity (10 Years)

Years Active: 1986-2021
Publications (10 Years): 6

Top Topics

Gene Expression

Community Structure

Systems Biology

Optimization Method

Top Venues

BMC Syst. Biol.

Publications

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)
Yong Wang, Xiang-Sun Zhang, Luonan Chen
Systems biology intertwines with single cell and AI. BMC Bioinform. (7) (2019)
Yong Wang, Xiang-Sun Zhang, Luonan Chen
Integrating data- and model-driven strategies in systems biology. BMC Syst. Biol. 12 (4) (2018)
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) (2017)
Yong Wang, Xiang-Sun Zhang, Luonan Chen
Understanding biological systems through the lens of data. BMC Syst. Biol. 11 (S-4) (2017)
Zhen-Ping Li, Rui-Sheng Wang, Shihua Zhang, Xiang-Sun Zhang
Quantitative function and algorithm for community detection in bipartite networks. Inf. Sci. (2016)
Hui-Jia Li, Xiang-Sun Zhang
Analysis of stability of community structure across multiple hierarchical levels. CoRR (2015)
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 (2015)
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) (2015)
Zhen-Ping Li, Rui-Sheng Wang, Shi-Hua Zhang, Xiang-Sun Zhang
Quantitative Function and Algorithm for Community Detection in Bipartite Networks. CoRR (2015)
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 (2015)
Junhua Zhang, Ling-Yun Wu, Xiang-Sun Zhang, Shihua Zhang
Discovery of co-occurring driver pathways in cancer. BMC Bioinform. 15 (2014)
Zhixia Yang, Yuan-Hai Shao, Xiang-Sun Zhang
Multiple birth support vector machine for multi-class classification. Neural Comput. Appl. 22 (Supplement-1) (2013)
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) (2013)
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) (2013)
Yong Wang, Xiang-Sun Zhang, Luonan Chen
Computational systems biology in the big data era. BMC Syst. Biol. 7 (S-2) (2013)
Zhi-Ping Liu, Jiguang Wang, Yu-Qing Qiu, Ross K. K. Leung, Xiang-Sun Zhang, Stephen Kwok-Wing Tsui, Luonan Chen
Inferring a protein interaction map of Mycobacterium tuberculosis based on sequences and interologs. BMC Bioinform. 13 (S-7) (2012)
Junhua Zhang, Shi-Hua Zhang, Yong Wang, Junfei Zhao, Xiang-Sun Zhang
Identifying mutated core modules in glioblastoma by integrative network analysis. ISB (2012)
Yong Wang, Qiao-Feng Wu, Chen Chen, Ling-Yun Wu, Xian-Zhong Yan, ShuGuang Yu, Xiang-Sun Zhang, Fan-Rong Liang
Revealing metabolite biomarkers for acupuncture treatment by linear programming based feature selection. BMC Syst. Biol. 6 (S-1) (2012)
Qiang Huang, Ling-Yun Wu, Xiang-Sun Zhang
CNetA: Network alignment by combining biological and topological features. ISB (2012)
Yong Wang, Xiang-Sun Zhang, Luonan Chen
Modelling biological systems from molecules to dynamical networks. BMC Syst. Biol. 6 (S-1) (2012)
Xian-Wen Ren, Yong Wang, Jiguang Wang, Xiang-Sun Zhang
A unified computational model for revealing and predicting subtle subtypes of cancers. BMC Bioinform. 13 (2012)
Chen Chen, Junfei Zhao, Qiang Huang, Rui-Sheng Wang, Xiang-Sun Zhang
Inferring domain-domain interactions from protein-protein interactions in the complex network conformation. BMC Syst. Biol. 6 (S-1) (2012)
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) (2012)
Junfei Zhao, Shi-Hua Zhang, Ling-Yun Wu, Xiang-Sun Zhang
Efficient methods for identifying mutated driver pathways in cancer. Bioinform. 28 (22) (2012)
Qiang Huang, Ling-Yun Wu, Xiang-Sun Zhang
An efficient network querying method based on conditional random fields. Bioinform. 27 (22) (2011)
Zhi-Ping Liu, Jiguang Wang, Yu-Qing Qiu, Ross K. K. Leung, Xiang-Sun Zhang, Stephen Kwok-Wing Tsui, Luonan Chen
Inferring Protein-Protein Interactions Based on Sequences and Interologs in Mycobacterium Tuberculosis. ICIC (3) (2011)
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 (2011)
Shi-Hua Zhang, Junfei Zhao, Xiang-Sun Zhang
Co-community Structure in Multiple Evolving Networks CoRR (2011)
Zhen-Ping Li, Rui-Sheng Wang, Xiang-Sun Zhang
Two-stage flux balance analysis of metabolic networks for drug target identification. BMC Syst. Biol. 5 (S-1) (2011)
Yong Wang, Xiang-Sun Zhang, Luonan Chen
Computational systems biology: integration of sequence, structure, network, and dynamics. BMC Syst. Biol. 5 (S-1) (2011)
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) (2010)
Yong Wang, Xiang-Sun Zhang, Luonan Chen
Optimization meets systems biology. BMC Syst. Biol. 4 (S-2) (2010)
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) (2010)
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 (2010)
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) (2010)
Luonan Chen, Xiang-Sun Zhang
Editorial. J. Syst. Sci. Complex. 23 (5) (2010)
Zhi-Ping Liu, Xiang-Sun Zhang, Luonan Chen
Inferring gene regulatory networks from expression data with prior knowledge by linear programming. ICMLC (2010)
Xian-Wen Ren, Xiang-Sun Zhang
A linear programming model based on network flow for pathway inference. J. Syst. Sci. Complex. 23 (5) (2010)
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) (2010)
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) (2010)
Junhua Zhang, Yu-Qing Qiu, Xiang-Sun Zhang
Detecting community structure: From parsimony to weighted parsimony. J. Syst. Sci. Complex. 23 (5) (2010)
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 (2010)
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) (2009)
Rui-Sheng Wang, Guangxu Jin, Xiang-Sun Zhang, Luonan Chen
. BMC Bioinform. 10 (S-4) (2009)
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) (2009)
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) (2009)
Jiguang Wang, Shi-Hua Zhang, Yong Wang, Luonan Chen, Xiang-Sun Zhang
Disease-Aging Network Reveals Significant Roles of Aging Genes in Connecting Genetic Diseases. PLoS Comput. Biol. 5 (9) (2009)
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)
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) (2008)
Rui-Sheng Wang, Guangxu Jin, Xiang-Sun Zhang, Luonan Chen
Reconstruction of Regulator Activity in E. coli Post-Transcription Processes. BIBM (2008)
Shihua Zhang, Xiang-Sun Zhang, Luonan Chen
Biomolecular network querying: a promising approach in systems biology. BMC Syst. Biol. 2 (2008)
Jiguang Wang, Yu-Qing Qiu, Rui-Sheng Wang, Xiang-Sun Zhang
Remarks on Network Community Properties. J. Syst. Sci. Complex. 21 (4) (2008)
Lin Wang, Yu-Qing Qiu, Jiguang Wang, Xiang-Sun Zhang
Recognition of Structure Similarities in Proteins. J. Syst. Sci. Complex. 21 (4) (2008)
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) (2008)
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) (2008)
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)
Zhen-Jun Shi, Xiang-Sun Zhang, Jie Shen
Convergence analysis of adaptive trust region methods. RAIRO Oper. Res. 41 (1) (2007)
Rui-Sheng Wang, Yong Wang, Xiang-Sun Zhang, Luonan Chen
Inferring transcriptional regulatory networks from high-throughput data. Bioinform. 23 (22) (2007)
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) (2007)
Zhen-Ping Li, Shi-Hua Zhang, Yong Wang, Xiang-Sun Zhang, Luonan Chen
Alignment of molecular networks by integer quadratic programming. Bioinform. 23 (13) (2007)
Zhongyuan Zhang, Tao Li, Chris H. Q. Ding, Xiang-Sun Zhang
Binary Matrix Factorization with Applications. ICDM (2007)
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) (2007)
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)
Rui-Sheng Wang, Yong Wang, Ling-Yun Wu, Xiang-Sun Zhang, Luonan Chen
Analysis on multi-domain cooperation for predicting protein-protein interactions. BMC Bioinform. 8 (2007)
Rui-Sheng Wang, Yong Wang, Xiang-Sun Zhang, Luonan Chen
Detecting Community Structure in Complex Networks by Optimal Rearrangement Clustering. PAKDD Workshops (2007)
Ling-Yun Wu, Xiang-Sun Zhang, Ju-Liang Zhang
Capacitated facility location problem with general setup cost. Comput. Oper. Res. 33 (2006)
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)
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)
Ju-Liang Zhang, Xiang-Sun Zhang
A smoothing Levenberg-Marquardt method for NCP. Appl. Math. Comput. 178 (2) (2006)
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) (2006)
Yong Wang, Trupti Joshi, Dong Xu, Xiang-Sun Zhang, Luonan Chen
Supervised Inference of Gene Regulatory Networks by Linear Programming. ICIC (3) (2006)
Zhen-Ping Li, Yong Wang, Shihua Zhang, Xiang-Sun Zhang, Luonan Chen
Alignment of Protein Interaction Networks by Integer Quadratic Programming. EMBC (2006)
Yong Wang, Trupti Joshi, Xiang-Sun Zhang, Dong Xu, Luonan Chen
Inferring gene regulatory networks from multiple microarray datasets. Bioinform. 22 (19) (2006)
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)
Zhen-Ping Li, Wenfeng Zhou, Xiang-Sun Zhang, Luonan Chen
A parsimonious tree-grow method for haplotype inference. Bioinform. 21 (17) (2005)
Rui-Sheng Wang, Ling-Yun Wu, Zhen-Ping Li, Xiang-Sun Zhang
Haplotype reconstruction from SNP fragments by minimum error correction. Bioinform. 21 (10) (2005)
Yu-Ying Zhao, Ling-Yun Wu, Ji-Hong Zhang, Rui-Sheng Wang, Xiang-Sun Zhang
Haplotype assembly from aligned weighted SNP fragments. Comput. Biol. Chem. 29 (4) (2005)
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) (2005)
Tianshou Zhou, Luonan Chen, Yun Tang, Xiang-Sun Zhang
Aligning Multiple Protein Structures by Deterministic Annealing. J. Bioinform. Comput. Biol. 3 (4) (2005)
Ji-Hong Zhang, Ling-Yun Wu, Xiang-Sun Zhang
Reconstruction of DNA sequencing by hybridization. Bioinform. 19 (1) (2003)
Ju-Liang Zhang, Xiang-Sun Zhang
A Modified SQP Method with Nonmonotone Linesearch Technique. J. Glob. Optim. 21 (2) (2001)
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) (2000)
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)
Xiang-Sun Zhang, De-Gang Liu
A Note on the Continuity of Solutions of Parametric Linear Programs. Math. Program. 47 (1990)
Ding-Zhu Du, Xiang-Sun Zhang
Global convergence of Rosen's gradient projection method. Math. Program. 44 (1-3) (1989)
Ding-Zhu Du, Xiang-Sun Zhang
A convergence theorem of Rosen's gradient projection method. Math. Program. 36 (2) (1986)