Refine gene functional similarity network based on interaction networks
暂无分享,去创建一个
Xiaoyan Liu | Zhen Tian | Chunyu Wang | Maozu Guo | Shiming Wang | Maozu Guo | Chunyu Wang | Xiaoyan Liu | Zhen Tian | Shiming Wang | Shiming Wang
[1] Roded Sharan,et al. Associating Genes and Protein Complexes with Disease via Network Propagation , 2010, PLoS Comput. Biol..
[2] Dong Liu,et al. Inferring plant microRNA functional similarity using a weighted protein-protein interaction network , 2015, BMC Bioinformatics.
[3] Ralf Herwig,et al. ConsensusPathDB: toward a more complete picture of cell biology , 2010, Nucleic Acids Res..
[4] Nicola J. Mulder,et al. Gene Ontology semantic similarity tools: survey on features and challenges for biological knowledge discovery , 2016, Briefings Bioinform..
[5] Fidel Ramírez,et al. Computing topological parameters of biological networks , 2008, Bioinform..
[6] Jiamou Liu,et al. How to Build Your Network? A Structural Analysis , 2016, IJCAI.
[7] Rui Jiang,et al. Constructing a gene semantic similarity network for the inference of disease genes , 2011, BMC Systems Biology.
[8] Yang Liu,et al. Inferring the soybean (Glycine max) microRNA functional network based on target gene network , 2014, Bioinform..
[9] G. Vriend,et al. A text-mining analysis of the human phenome , 2006, European Journal of Human Genetics.
[10] Catia Pesquita,et al. Evaluating GO-based Semantic Similarity Measures , 2007 .
[11] Jinyan Li,et al. Disease gene identification by random walk on multigraphs merging heterogeneous genomic and phenotype data , 2012, BMC Genomics.
[12] Moataz A. Ahmed,et al. Protein complexes predictions within protein interaction networks using genetic algorithms , 2016, BMC Bioinformatics.
[13] Jun Wang,et al. Prioritization of candidate disease genes by topological similarity between disease and protein diffusion profiles , 2013, BMC Bioinformatics.
[14] Xiaoyan Liu,et al. Measuring gene functional similarity based on group-wise comparison of GO terms , 2013, Bioinform..
[15] Piers J. Ingram,et al. Probability models for degree distributions of protein interaction networks , 2005 .
[16] Guangyuan Fu,et al. Predicting Protein Function via Semantic Integration of Multiple Networks , 2016, IEEE/ACM Transactions on Computational Biology and Bioinformatics.
[17] Davide Heller,et al. STRING v10: protein–protein interaction networks, integrated over the tree of life , 2014, Nucleic Acids Res..
[18] Yin Zhang,et al. Constructing an integrated gene similarity network for the identification of disease genes , 2016, Journal of Biomedical Semantics.
[19] Nazar Zaki,et al. Protein complex detection using interaction reliability assessment and weighted clustering coefficient , 2013, BMC Bioinformatics.
[20] Rainer Spang,et al. Inferring cellular networks – a review , 2007, BMC Bioinformatics.
[21] Jian Yang,et al. The integration of weighted human gene association networks based on link prediction , 2017, BMC Systems Biology.
[22] Philip Resnik,et al. Semantic Similarity in a Taxonomy: An Information-Based Measure and its Application to Problems of Ambiguity in Natural Language , 1999, J. Artif. Intell. Res..
[23] Phillip W. Lord,et al. Semantic Similarity in Biomedical Ontologies , 2009, PLoS Comput. Biol..
[24] A. Barabasi,et al. Network medicine : a network-based approach to human disease , 2010 .
[25] Matej Oresic,et al. Systematic construction of gene coexpression networks with applications to human T helper cell differentiation process , 2007, Bioinform..
[26] Yi Pan,et al. Identification of Essential Proteins Based on Edge Clustering Coefficient , 2012, IEEE/ACM Transactions on Computational Biology and Bioinformatics.
[27] Rezvan Ehsani,et al. TopoICSim: a new semantic similarity measure based on gene ontology , 2016, BMC Bioinformatics.
[28] Karthik Ramani,et al. Global Geometric Affinity for Revealing High Fidelity Protein Interaction Network , 2011, PloS one.
[29] Jiajie Peng,et al. InteGO2: a web tool for measuring and visualizing gene semantic similarities using Gene Ontology , 2016, BMC Genomics.
[30] M E J Newman,et al. Community structure in social and biological networks , 2001, Proceedings of the National Academy of Sciences of the United States of America.
[31] Karthik Ramani,et al. The Intrinsic Geometric Structure of Protein-Protein Interaction Networks for Protein Interaction Prediction , 2014, TCBB.
[32] C. Stam,et al. Small-world networks and functional connectivity in Alzheimer's disease. , 2006, Cerebral cortex.
[33] E. Marcotte,et al. Prioritizing candidate disease genes by network-based boosting of genome-wide association data. , 2011, Genome research.
[34] Guojun Liu,et al. Identify bilayer modules via pseudo-3D clustering: applications to miRNA-gene bilayer networks , 2016, Nucleic acids research.
[35] Xiaoyan Liu,et al. SGFSC: speeding the gene functional similarity calculation based on hash tables , 2016, BMC Bioinformatics.
[36] Jagdish Chandra Patra,et al. Genome-wide inferring gene-phenotype relationship by walking on the heterogeneous network , 2010, Bioinform..
[37] Raya Khanin,et al. How Scale-Free Are Biological Networks , 2006, J. Comput. Biol..
[38] Thomas Lengauer,et al. Improving disease gene prioritization using the semantic similarity of Gene Ontology terms , 2010, Bioinform..
[39] Michael A. Langston,et al. Threshold selection in gene co-expression networks using spectral graph theory techniques , 2009, BMC Bioinformatics.
[40] Ying Yin,et al. Inferring human miRNA functional similarity based on gene ontology annotations , 2016, 2016 12th International Conference on Natural Computation, Fuzzy Systems and Knowledge Discovery (ICNC-FSKD).
[41] De-Shuang Huang,et al. A Two-Stage Geometric Method for Pruning Unreliable Links in Protein-Protein Networks , 2015, IEEE Transactions on NanoBioscience.
[42] Tao Zhou,et al. Link prediction in weighted networks: The role of weak ties , 2010 .
[43] Dong Wang,et al. Inferring the human microRNA functional similarity and functional network based on microRNA-associated diseases , 2010, Bioinform..
[44] Mario Albrecht,et al. Recent approaches to the prioritization of candidate disease genes , 2012, Wiley interdisciplinary reviews. Systems biology and medicine.
[45] A. Barabasi,et al. Interactome Networks and Human Disease , 2011, Cell.
[46] Igor Jurisica,et al. Modeling interactome: scale-free or geometric? , 2004, Bioinform..
[47] Hans-Werner Mewes,et al. CORUM: the comprehensive resource of mammalian protein complexes , 2007, Nucleic Acids Res..
[48] Chun-Yu Wang,et al. CPL: Detecting Protein Complexes by Propagating Labels on Protein-Protein Interaction Network , 2014, Journal of Computer Science and Technology.
[49] Jing Zhao,et al. Prediction of Links and Weights in Networks by Reliable Routes , 2015, Scientific Reports.
[50] 唐翌,et al. Link prediction based on a semi-local similarity index , 2011 .
[51] Masanori Arita,et al. Scale-freeness and biological networks. , 2005, Journal of biochemistry.
[52] Xiaoyan Liu,et al. An improved method for functional similarity analysis of genes based on Gene Ontology , 2016, BMC Systems Biology.
[53] Philip S. Yu,et al. A new method to measure the semantic similarity of GO terms , 2007, Bioinform..
[54] Xiangxiang Zeng,et al. Prediction and Validation of Disease Genes Using HeteSim Scores , 2017, IEEE/ACM Transactions on Computational Biology and Bioinformatics.