Protein interaction networks (PINs)
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- ...Complex ...
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Construction and Analysis of Tissue-Specific Protein-Protein Interaction Networks in Humans
... Studying Protein- Protein Interaction Networks (PINs) on a genome-scale has become possible through advances in high-throughput experimental ...of interaction data for several species ...
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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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Unified Alignment of Protein-Protein Interaction Networks
... of Protein- Protein Interaction Networks Noël Malod-Dognin 1 , Kristina Ban 2 & Nataša Pržulj 1 Paralleling the increasing availability of protein-protein interaction ...
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Modular decomposition of protein protein interaction networks
... tein-protein interaction networks as a group of proteins that share the same interactors outside the ...module. Networks can be decomposed into a hierarchy of nested modules in a canonical ...
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A fast approach to global alignment of protein protein interaction networks
... Conclusions: We have demonstrated significant reductions in global network alignment computation times by coupling heuristic bipartite matching methods with the similarity scoring step of the IsoRank procedure. Our ...
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Protein annotation from protein interaction networks and Gene Ontology
... annotating protein function that combines Naïve Bayes and association rules, and takes advantage of the underlying topology in protein interaction networks and the structure of graphs in the ...
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Modular organization in the reductive evolution of protein protein interaction networks
... E. coli is a free-living bacteria known to be capable of adapt- ing to very different environments [18-20]. In contrast, Buch- nera is an endosymbiotic bacteria living in a very stable medium. As a result, we would ...
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Ontology integration to identify protein complex in protein interaction networks
... the protein interaction ...improve protein complexes ...cognate protein expression may be modest at ...of protein- protein ...the protein interac- tion ...
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The role of protein interaction networks in systems biomedicine
... through protein interactions, hence there is a need to understand the chaotic network that forms these processes in pursuance of understanding human ...of protein interaction networks to ...
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Optimizing a global alignment of protein interaction networks
... of protein interaction networks, based on a local optimization heuristic that has previously demonstrated its effective- ness for a variety of other intractable ...in protein ...
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Context-based retrieval of functional modules in protein-protein interaction networks
... in protein-protein interaction networks Dobay, Maria Pamela ; Stertz, Silke ; Delorenzi, Mauro Abstract: Various techniques have been developed for identifying the most probable interactants ...
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Time Evolving Undirected Graphical Model for Protein-Protein Interaction Networks
... PPI networks, performance and scalability issues are becoming a critical limiting factor [4, ...scale protein-protein interaction networks to address above ...molecules, protein ...
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Protein complex detection with semi-supervised learning in protein interaction networks
... detected protein com- plexes in protein-protein interaction networks from a different ...PPI networks, we proposed a semi-supervised prediction model with neural ...represent ...
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Recent Advances in Clustering Methods for Protein Interaction Networks
... large-scale protein-protein interaction data has made it possible to understand the basic components and organization of cell machinery from the network ...clustering protein ...
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Bounded Diameter Clustering Scheme For Protein Interaction Networks
... For Protein Interaction Networks Nassim Sohaee, Christian ...of Protein-Protein In- teraction (PPI) graphs are assumed to be potential functional modules and play an important role in ...
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Computational analysis of protein interaction networks for infectious diseases
... different high-throughput data generating manually curated databases . The other possibilities causing such error, down the line of network analyses , could be low reliability of literature curation and difficulties ...
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Protein Protein Interaction Networks
... Removes vertices on cluster inner boundary iteratively to decrease graph entropy until it is minimal. Adds vertices on cluster outer boundary iteratively to decrease graph entropy until [r] ...
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Evolution of protein-protein interaction networks in yeast
... OSLOM cluster analysis Dense subgraphs of an interactome can represent functionally-related proteins or proteins that interact to form protein clusters. OSLOM (Order Statistics Local Optimization Method) [44] is a ...
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Algorithms for the analysis of protein interaction networks
... Given the inputs, we search for the simplest arrangement of nodes in a directed graph, such that (1) the nodes correspond to proteins, (2) the directed edges correspond [r] ...
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