interaction networks
The Self-Organization of Interaction Networks for Nature-Inspired Optimization
... Other Interaction Networks in Evolutionary Algorithms In this initial investigation of self-organizing interaction networks in an Evolutionary Algorithm, we have intentionally focused on the ...
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Complex tree: the basic framework of protein protein interaction networks
... In living cells, proteins are dynamically connec- ted through biochemical reactions, so its functi- onal features are properly encoded into protein- protein interaction networks (PINs). Up to pres- ent, ...
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Modeling human dynamics of face-to-face interaction networks
... Face-to-face interaction networks describe social interactions in human gatherings, and are the substrate for processes such as epidemic spreading and gossip ...
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Multiple Alignment of Protein Interaction Networks by Three-Index Assignment Algorithm
... the functional similarity of protein interaction networks across species. Since there is a significant difference in the values of NI and NC when we compare both the algorithms we find the ratio NI/NC to ...
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Interaction networks for identifying coupled molecular processes in microbial communities
... such networks represent co-annotation of genes in more than one COG ...an interaction. On a gene level interaction networks are derived by making use of gene interaction ...with ...
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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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Bounded Diameter Clustering Scheme For Protein Interaction Networks
... So far, one of the most successful clustering proce- dures used in deriving complexes from protein interac- tion networks seems to be the Markov Cluster algorithm, MCL[9]. Unlike most hierarchical clustering ...
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Ontology integration to identify protein complex in protein interaction networks
... To resolve the inaccuracy resulting from false connec- tions, other functional knowledge can be integrated into the protein interaction networks. For example, many groups [6-8] have investigated the ...
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IN browser : a graphical browser for interaction networks
... Chapter 8 Conclusions The main aims of the project were to develop a graphical browser to display interaction networks INs, to deal with the size and the complexity of large INs, and to [r] ...
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Prediction and characterization of protein-protein interaction networks in swine
... protein interaction of ...have interaction, which means two proteins were predicted to interact with each other if they matched the interaction ...
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Drug-Target Interaction Networks Prediction Using Short-linear Motifs
... We propose a new feature-based method to predict drug-target interaction which firstly introduces short-linear motifs (SLiMs) as protein features into this field. Dif- ferent from n-gram, SLiMs have biological ...
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Centralities in simplicial complexes. Applications to protein interaction networks
... protein-protein interaction (PPI) networks. In these networks nodes represent proteins and undirected links represent the interaction between two proteins determined ...The networks ...
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Agreement dynamics on interaction networks with diverse topologies
... the interaction (success); • if the hearer does not possess the uttered word, the latter is added to those already stored in the hearer’s inventory (failure), ...
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Wormpath: searching for molecular interaction networks in Caenorhabditis elegans
... for networks is closely related to the problem of finding the connected components of G de- fined as all connected subgraphs which are not subgraphs of any larger connected graph, where a graph is called connected ...
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A fast approach to global alignment of protein protein interaction networks
... systematically, and naturally encoded into networks [1]. The diversity of species, cellular processes, abstractions, and volume of interaction data generated from high- throughput techniques strongly ...
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Extraction of biological interaction networks from scientific literature
... precision and effectiveness in single phrases, sentences or the whole abstracts. Interestingly, some relation types can best be extracted at the sentence level, whereas others perform better when whole abstracts are ...
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A graph modification approach for finding core–periphery structures in protein interaction networks
... Running times and objective function. For SCE, the ILP approach failed to solve the cell cycle and tran- scription network, and for ME, it failed to solve the transcription network, with CPLEX running out of mem- ory in ...
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The cohesin complex: sequence homologies, interaction networks and shared motifs
... Results: Searches of protein sequence databases have revealed new homologs of cohesin proteins. In mouse, Mmip1 (Mad member interacting protein 1) and Smc3 share 99% sequence identity and are products of the same gene. A ...
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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 this way in ...
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IUCN Red List of Ecosystems: Implications for Public Policy
... • Studies must be conducted that seek to explain the structures of the interaction networks in ecosystems threatened by the biotic disruption of processes and interactions. [r] ...
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