Xiang-Sun Zhang

According to our database1, Xiang-Sun Zhang authored at least 87 papers between 1986 and 2021.

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Bibliography

2021
An Optimization Method for Calibrating Wireline Conveyance Tension.
Proceedings of the 4th International Conference on Complex Systems Design & Management Asia, 2021

2019
Systems biology intertwines with single cell and AI.
BMC Bioinform., 2019

2018
Integrating data- and model-driven strategies in systems biology.
BMC Syst. Biol., 2018

2017
Understanding biological systems through the lens of data.
BMC Syst. Biol., 2017

NetGen: a novel network-based probabilistic generative model for gene set functional enrichment analysis.
BMC Syst. Biol., 2017

2016
Quantitative function and algorithm for community detection in bipartite networks.
Inf. Sci., 2016

2015
Identifying overlapping communities in social networks using multi-scale local information expansion.
CoRR, 2015

Analysis of stability of community structure across multiple hierarchical levels.
CoRR, 2015

Potts model based on a Markov process computation solves the community structure problem effectively.
CoRR, 2015

NCC-AUC: an AUC optimization method to identify multi-biomarker panel for cancer prognosis from genomic and clinical data.
Bioinform., 2015

2014
Discovery of co-occurring driver pathways in cancer.
BMC Bioinform., 2014

2013
Multiple birth support vector machine for multi-class classification.
Neural Comput. Appl., 2013

Identification of mutated core cancer modules by integrating somatic mutation, copy number variation, and gene expression data.
BMC Syst. Biol., 2013

Computational systems biology in the big data era.
BMC Syst. Biol., 2013

Corbi: a new R package for biological network alignment and querying.
BMC Syst. Biol., 2013

2012
A combinatorial model and algorithm for globally searching community structure in complex networks.
J. Comb. Optim., 2012

Modelling biological systems from molecules to dynamical networks.
BMC Syst. Biol., 2012

Revealing metabolite biomarkers for acupuncture treatment by linear programming based feature selection.
BMC Syst. Biol., 2012

Inferring domain-domain interactions from protein-protein interactions in the complex network conformation.
BMC Syst. Biol., 2012

A unified computational model for revealing and predicting subtle subtypes of cancers.
BMC Bioinform., 2012

Inferring a protein interaction map of Mycobacterium tuberculosis based on sequences and interologs.
BMC Bioinform., 2012

Efficient methods for identifying mutated driver pathways in cancer.
Bioinform., 2012

Identifying mutated core modules in glioblastoma by integrative network analysis.
Proceedings of the 6th IEEE International Conference on Systems Biology, 2012

CNetA: Network alignment by combining biological and topological features.
Proceedings of the 6th IEEE International Conference on Systems Biology, 2012

2011
Co-community Structure in Multiple Evolving Networks
CoRR, 2011

Computational systems biology: integration of sequence, structure, network, and dynamics.
BMC Syst. Biol., 2011

Two-stage flux balance analysis of metabolic networks for drug target identification.
BMC Syst. Biol., 2011

Improving accuracy of protein-protein interaction prediction by considering the converse problem for sequence representation.
BMC Bioinform., 2011

An efficient network querying method based on conditional random fields.
Bioinform., 2011

Inferring Protein-Protein Interactions Based on Sequences and Interologs in Mycobacterium Tuberculosis.
Proceedings of the Bio-Inspired Computing and Applications, 2011

2010
Detecting community structure: From parsimony to weighted parsimony.
J. Syst. Sci. Complex., 2010

A linear programming model based on network flow for pathway inference.
J. Syst. Sci. Complex., 2010

Self-organizing map of complex networks for community detection.
J. Syst. Sci. Complex., 2010

Editorial.
J. Syst. Sci. Complex., 2010

Binary matrix factorization for analyzing gene expression data.
Data Min. Knowl. Discov., 2010

Determining modular organization of protein interaction networks by maximizing modularity density.
BMC Syst. Biol., 2010

Optimization meets systems biology.
BMC Syst. Biol., 2010

An information-flow-based model with dissipation, saturation and direction for active pathway inference.
BMC Syst. Biol., 2010

Identifying dysfunctional crosstalk of pathways in various regions of Alzheimer's disease brains.
BMC Syst. Biol., 2010

Detecting disease associated modules and prioritizing active genes based on high throughput data.
BMC Bioinform., 2010

Prediction of protein-RNA binding sites by a random forest method with combined features.
Bioinform., 2010

Inferring gene regulatory networks from expression data with prior knowledge by linear programming.
Proceedings of the International Conference on Machine Learning and Cybernetics, 2010

2009
Fuzzy System Methods in Modeling Gene Expression and Analyzing Protein Networks.
Proceedings of the Fuzzy Systems in Bioinformatics and Computational Biology, 2009

Evaluating Protein Similarity from Coarse Structures.
IEEE ACM Trans. Comput. Biol. Bioinform., 2009

Disease-Aging Network Reveals Significant Roles of Aging Genes in Connecting Genetic Diseases.
PLoS Comput. Biol., 2009

Self-organizing map approaches for the haplotype assembly problem.
Math. Comput. Simul., 2009

A hybrid graph-theoretic method for mining overlapping functional modules in large sparse protein interaction networks.
Int. J. Data Min. Bioinform., 2009

Modeling post-transcriptional regulation activity of small non-coding RNAs in <i>Escherichia coli</i>.
BMC Bioinform., 2009

Dynamically dysfunctional protein interactions in the development of Alzheimer's disease.
Proceedings of the IEEE International Conference on Systems, 2009

2008
Recognition of Structure Similarities in Proteins.
J. Syst. Sci. Complex., 2008

Remarks on Network Community Properties.
J. Syst. Sci. Complex., 2008

Clustering complex networks and biological networks by nonnegative matrix factorization with various similarity measures.
Neurocomputing, 2008

Protein cavity clustering based on community structure of pocket similarity network.
Int. J. Bioinform. Res. Appl., 2008

A fast haplotype inference method for large population genotype data.
Comput. Stat. Data Anal., 2008

Biomolecular network querying: a promising approach in systems biology.
BMC Syst. Biol., 2008

Reconstruction of Regulator Activity in E. coli Post-Transcription Processes.
Proceedings of the 2008 IEEE International Conference on Bioinformatics and Biomedicine, 2008

2007
Convergence analysis of adaptive trust region methods.
RAIRO Oper. Res., 2007

Supervised classification of protein structures based on convex hull representation.
Int. J. Bioinform. Res. Appl., 2007

An optimization approach to the reconstruction of positional DNA sequencing by hybridization with errors.
Eur. J. Oper. Res., 2007

Analysis on multi-domain cooperation for predicting protein-protein interactions.
BMC Bioinform., 2007

Predicting gene ontology functions from protein's regional surface structures.
BMC Bioinform., 2007

Inferring transcriptional regulatory networks from high-throughput data.
Bioinform., 2007

Alignment of molecular networks by integer quadratic programming.
Bioinform., 2007

Detecting Community Structure in Complex Networks by Optimal Rearrangement Clustering.
Proceedings of the Emerging Technologies in Knowledge Discovery and Data Mining, 2007

Identifying Modules in Complex Networks by a Graph-Theoretical Method and Its Application in Protein Interaction Networks.
Proceedings of the Advanced Intelligent Computing Theories and Applications. With Aspects of Artificial Intelligence, 2007

Binary Matrix Factorization with Applications.
Proceedings of the 7th IEEE International Conference on Data Mining (ICDM 2007), 2007

2006
Capacitated facility location problem with general setup cost.
Comput. Oper. Res., 2006

Identification of functional modules in a PPI network by clique percolation clustering.
Comput. Biol. Chem., 2006

Inferring gene regulatory networks from multiple microarray datasets.
Bioinform., 2006

A smoothing Levenberg-Marquardt method for NCP.
Appl. Math. Comput., 2006

Automatic Classification of Protein Structures Based on Convex Hull Representation by Integrated Neural Network.
Proceedings of the Theory and Applications of Models of Computation, 2006

Prediction of Protein Complexes Based on Protein Interaction Data and Functional Annotation Data Using Kernel Methods.
Proceedings of the Computational Intelligence and Bioinformatics, 2006

Supervised Inference of Gene Regulatory Networks by Linear Programming.
Proceedings of the Computational Intelligence and Bioinformatics, 2006

A Graph-Theoretic Method for Mining Functional Modules in Large Sparse Protein Interaction Networks.
Proceedings of the Workshops Proceedings of the 6th IEEE International Conference on Data Mining (ICDM 2006), 2006

Alignment of Protein Interaction Networks by Integer Quadratic Programming.
Proceedings of the 28th International Conference of the IEEE Engineering in Medicine and Biology Society, 2006

2005
Aligning Multiple Protein Structures by Deterministic Annealing.
J. Bioinform. Comput. Biol., 2005

Exploring Protein's Optimal Hp Configurations by Self-organizing Mapping.
J. Bioinform. Comput. Biol., 2005

Haplotype assembly from aligned weighted SNP fragments.
Comput. Biol. Chem., 2005

Haplotype reconstruction from SNP fragments by minimum error correction.
Bioinform., 2005

A parsimonious tree-grow method for haplotype inference.
Bioinform., 2005

2003
Reconstruction of DNA sequencing by hybridization.
Bioinform., 2003

2001
A Modified SQP Method with Nonmonotone Linesearch Technique.
J. Glob. Optim., 2001

2000
Test Problem Generator by Neural Network for Algorithms that Try Solving Nonlinear Programming Problems Globally.
J. Glob. Optim., 2000

1994
A Neural Network Model for Quadratic Programming with Simple Upper and Lower Bounds and its Application to Linear Programming.
Proceedings of the Algorithms and Computation, 5th International Symposium, 1994

1990
A Note on the Continuity of Solutions of Parametric Linear Programs.
Math. Program., 1990

1989
Global convergence of Rosen's gradient projection method.
Math. Program., 1989

1986
A convergence theorem of Rosen's gradient projection method.
Math. Program., 1986


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