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Brief Survey of Biological Network Alignment and a Variant with Incorporation of Functional Annotations 期刊论文
CURRENT BIOINFORMATICS, 2019, 卷号: 14, 期号: 1, 页码: 4-10
Authors:  Jing, Fang;  Zhang, Shao-Wu;  Zhang, Shihua
Favorite  |  View/Download:4/0  |  Submit date:2019/04/02
Biological network  network alignment  gene ontology  alignment graph  optimization  
Revealing transcription factor and histone modification co-localization and dynamics across cell lines by integrating ChIP-seq and RNA-seq data 期刊论文
BMC GENOMICS, 2018, 卷号: 19, 页码: 16
Authors:  Zhang, Lirong;  Xue, Gaogao;  Liu, Junjie;  Li, Qianzhong;  Wang, Yong
Favorite  |  View/Download:6/0  |  Submit date:2019/01/11
Transcription factor  Histone modification  Co-localization  Dynamics  
Predicting disease-related genes by path structure and community structure in protein-protein networks 期刊论文
JOURNAL OF STATISTICAL MECHANICS-THEORY AND EXPERIMENT, 2018, 页码: 22
Authors:  Hu, Ke;  Hu, Jing-Bo;  Tang, Liang;  Xiang, Ju;  Ma, Jin-Long;  Gao, Yuan-Yuan;  Li, Hui-Jia;  Zhang, Yan
Favorite  |  View/Download:3/0  |  Submit date:2019/01/11
random graphs  networks  protein interaction networks  
NetGen: a novel network-based probabilistic generative model for gene set functional enrichment analysis 期刊论文
BMC SYSTEMS BIOLOGY, 2017, 卷号: 11, 页码: 14
Authors:  Sun, Duanchen;  Liu, Yinliang;  Zhang, Xiang-Sun;  Wu, Ling-Yun
Favorite  |  View/Download:6/0  |  Submit date:2018/07/30
Gene ontology  Enrichment analysis  Network-based probabilistic generative model  Integer programming  Complex diseases  
Hybrid method to solve HP model on 3D lattice and to probe protein stability upon amino acid mutations 期刊论文
BMC SYSTEMS BIOLOGY, 2017, 卷号: 11, 页码: 13
Authors:  Guo, Yuzhen;  Tao, Fengying;  Wu, Zikai;  Wang, Yong
Favorite  |  View/Download:7/0  |  Submit date:2018/07/30
Protein structure prediction  HP model  3D lattice  Particle swarm optimization  Protein stability  
RRCRank: a fusion method using rank strategy for residue-residue contact prediction 期刊论文
BMC Bioinformatics, 2017, 卷号: 18, 期号: 1
Authors:  Jing,Xiaoyang;  Dong,Qiwen;  Lu,Ruqian
Favorite  |  View/Download:5/0  |  Submit date:2018/07/30
Protein residue-residue contact prediction  Learning-to-rank  Fusion method  
Structure alignment-based classification of RNA-binding pockets reveals regional RNA recognition motifs on protein surfaces 期刊论文
BMC BIOINFORMATICS, 2017, 卷号: 18, 页码: 13
Authors:  Liu, Zhi-Ping;  Liu, Shutang;  Chen, Ruitang;  Huang, Xiaopeng;  Wu, Ling-Yun
Favorite  |  View/Download:8/0  |  Submit date:2018/07/30
RNA-binding pocket  Local structure classification  Structural alignment  Network clustering  Structure motif  
Improved protein-protein interactions prediction via weighted sparse representation model combining continuous wavelet descriptor and PseAA composition 期刊论文
BMC SYSTEMS BIOLOGY, 2016, 卷号: 10, 页码: 10
Authors:  Huang, Yu-An;  You, Zhu-Hong;  Chen, Xing;  Yan, Gui-Ying
Favorite  |  View/Download:3/0  |  Submit date:2018/07/30
Protein-protein interactions  Protein sequence  Continuous wavelet transform  Sparse representation based classifier  
An effective sequence-alignment-free superpositioning of pairwise or multiple structures with missing data 期刊论文
Algorithms for Molecular Biology, 2016, 卷号: 11, 期号: 1
Authors:  Lu,Jianbo;  Xu,Guoliang;  Zhang,Shihua;  Lu,Benzhuo
Favorite  |  View/Download:2/0  |  Submit date:2018/07/30
Superposition  Protein structure alignment  Iterative closest point  
Graphical Features of Functional Genes in Human Protein Interaction Network 期刊论文
IEEE TRANSACTIONS ON BIOMEDICAL CIRCUITS AND SYSTEMS, 2016, 卷号: 10, 期号: 3, 页码: 707-720
Authors:  Wang, Pei;  Chen, Yao;  Lu, Jinhu;  Wang, Qingyun;  Yu, Xinghuo
Favorite  |  View/Download:9/0  |  Submit date:2018/07/30
Cluster  disease classification  functional gene  human protein interaction network  receiver operating characteristic (ROC) curve  topological structure