Protein-protein interaction networks
Modularity detection in protein protein interaction networks
... biological networks, and its role in functional and structural characterization of constituent ...large networks such as Protein-Protein Interaction ...
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Construction and Analysis of Tissue-Specific Protein-Protein Interaction Networks in Humans
... in protein-protein interaction network of 38 different tissues of the human ...human protein-protein interaction ...different protein-protein interaction ...
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Design principles for cancer therapy guided by changes in complexity of protein-protein interaction networks
... KEGG networks are available from the KEGG web- site ...represent protein-DNA interactions we do not focus on ...the protein-protein interaction network as generated by R-script ...
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Complex tree: the basic framework of protein protein interaction networks
... into protein- protein interaction networks ...complex networks theory to analyze the protein-protein interactions from Database of Interacting Prot- ...
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Modular organization in the reductive evolution of protein protein interaction networks
... throughput protein interaction maps of ...Buchnera interaction networks was based on the assumed low rate of protein interaction turnover [16] and the weak probability that new ...
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Evaluating Joint Modeling of Yeast Biology Literature and Protein Protein Interaction Networks
... In the context of this paper, de-noising the protein-protein interaction networks studied is an important application. The joint model permits in- formation from the large text corpus of yeast ...
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Identification of Candidate Genes related to Bovine Marbling using Protein-Protein Interaction Networks
... scale-free networks such as the internet, human collaboration networks, or metabolic networks ...our networks have scale-free topology like the other biological ...
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A novel functional module detection algorithm for protein-protein interaction networks
... between protein function and PPI is characterized by weak connectivity and unexpected topological phenomena, such as low intraconnectivity and longish shapes of actual topological shapes of MIPS functional ...
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Detecting Protein Complexes by an Improved Affinity Propagation Algorithm in Protein-Protein Interaction Networks
... of protein complexes in protein-protein interaction (PPI) networks is important in understanding cellular ...discover protein complexes with high precision by compared with the ...
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CoreAlign: Core based Global Alignment for Protein Protein Interaction Networks
... The proposed algorithm (CoreAlign) is a pairwise global aligner that uses the concept of k-cores or k-shells network decomposition on the smallest PPI network. The search space of CoreAlign is the nodes of each shell ...
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Protein-protein interaction networks: probing disease mechanisms using model systems
... suppressor protein, caused by mutations in its gene, are well established [3,4]; disruptions in the desmosome-mediated interactions between cells have been implicated in a variety of diseases [5]; aberrant PPIs ...
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Time Evolving Undirected Graphical Model for Protein-Protein Interaction Networks
... CRF is the best graphic representation to model biological networks like PPINs on the above review. The advantage of CRFs is that it can integrate both rich state features and transition features between label ...
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Prediction and characterization of protein-protein interaction networks in swine
... a protein binding a protein at the same ...the protein interaction of pig. If a porcine protein matches with one motif group, and another protein matches with another motif group ...
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Analysis of gene expression profiles and protein-protein interaction networks in multiple tissues of systemic sclerosis
... represents the average edge weight within the cluster if missing edges are supposed to have a weight of zero, and edge weights determine the weight of each edge [28]. In the networks, the nodes correspond to the ...
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A fast approach to global alignment of protein protein interaction networks
... From an evolutionary standpoint, one can argue that the set of orthologous genes in the pair of species could have diverged and either gained or lost specific functions. These functional adaptations are reflected in the ...
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Ontology integration to identify protein complex in protein interaction networks
... of protein-protein interactions with the data from other sources can be leveraged for improving the effectiveness of protein complexes detection ...of protein-protein interactions. The ...
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Using graph theory to analyze biological networks
... are networks such as protein-protein interaction networks in which two proteins might be evolutionary related, co-occur in the literature or co-express in some experiments, resulting by ...
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Simplified Swarm Optimization Based Function Modules Detection in Protein-to-Protein Interaction Networks
... Abstract. Proteomics research has become one of the most important topics in the fields of life science and natural science. At present, research on protein–protein interaction networks ...
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Revealing Alzheimer’s disease genes spectrum in the whole-genome by machine learning
... integrating protein- protein interaction networks with information such as protein subcellular localization, gene expression quanti- fication, or gene functional annotation [5–8]; ...
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Friedel, Caroline Christina (2009): Analysis of High-Throughput Data - Protein-Protein Interactions, Protein Complexes and RNA Half-life. Dissertation, LMU München: Fakultät für Mathematik, Informatik und Statistik
... Although protein-protein interaction (PPI) networks identified in large-scale experiments are characterized by large false positive and false negative rates, the topology of these experimental ...
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