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Computing topological parameters of biological networks
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| Zeitschriftentitel: | Bioinformatics |
|---|---|
| Personen und Körperschaften: | , , , , |
| In: | Bioinformatics, 24, 2008, 2, S. 282-284 |
| Format: | E-Article |
| Sprache: | Englisch |
| veröffentlicht: |
Oxford University Press (OUP)
|
| Schlagwörter: |
| author_facet |
Assenov, Yassen Ramírez, Fidel Schelhorn, Sven-Eric Lengauer, Thomas Albrecht, Mario Assenov, Yassen Ramírez, Fidel Schelhorn, Sven-Eric Lengauer, Thomas Albrecht, Mario |
|---|---|
| author |
Assenov, Yassen Ramírez, Fidel Schelhorn, Sven-Eric Lengauer, Thomas Albrecht, Mario |
| spellingShingle |
Assenov, Yassen Ramírez, Fidel Schelhorn, Sven-Eric Lengauer, Thomas Albrecht, Mario Bioinformatics Computing topological parameters of biological networks Computational Mathematics Computational Theory and Mathematics Computer Science Applications Molecular Biology Biochemistry Statistics and Probability |
| author_sort |
assenov, yassen |
| spelling |
Assenov, Yassen Ramírez, Fidel Schelhorn, Sven-Eric Lengauer, Thomas Albrecht, Mario 1367-4811 1367-4803 Oxford University Press (OUP) Computational Mathematics Computational Theory and Mathematics Computer Science Applications Molecular Biology Biochemistry Statistics and Probability http://dx.doi.org/10.1093/bioinformatics/btm554 <jats:title>Abstract</jats:title> <jats:p>Summary: Rapidly increasing amounts of molecular interaction data are being produced by various experimental techniques and computational prediction methods. In order to gain insight into the organization and structure of the resultant large complex networks formed by the interacting molecules, we have developed the versatile Cytoscape plugin NetworkAnalyzer. It computes and displays a comprehensive set of topological parameters, which includes the number of nodes, edges, and connected components, the network diameter, radius, density, centralization, heterogeneity, and clustering coefficient, the characteristic path length, and the distributions of node degrees, neighborhood connectivities, average clustering coefficients, and shortest path lengths. NetworkAnalyzer can be applied to both directed and undirected networks and also contains extra functionality to construct the intersection or union of two networks. It is an interactive and highly customizable application that requires no expert knowledge in graph theory from the user.</jats:p> <jats:p>Availability: NetworkAnalyzer can be downloaded via the Cytoscape web site: http://www.cytoscape.org</jats:p> <jats:p>Contact: mario.albrecht@mpi-inf.mpg.de</jats:p> <jats:p>Supplementary information: Supplementary data are available at Bioinformatics online.</jats:p> Computing topological parameters of biological networks Bioinformatics |
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Computing topological parameters of biological networks |
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Computing topological parameters of biological networks |
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Computing topological parameters of biological networks |
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Computing topological parameters of biological networks |
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Computing topological parameters of biological networks |
| title_short |
Computing topological parameters of biological networks |
| title_sort |
computing topological parameters of biological networks |
| topic |
Computational Mathematics Computational Theory and Mathematics Computer Science Applications Molecular Biology Biochemistry Statistics and Probability |
| url |
http://dx.doi.org/10.1093/bioinformatics/btm554 |
| publishDate |
2008 |
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282-284 |
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<jats:title>Abstract</jats:title>
<jats:p>Summary: Rapidly increasing amounts of molecular interaction data are being produced by various experimental techniques and computational prediction methods. In order to gain insight into the organization and structure of the resultant large complex networks formed by the interacting molecules, we have developed the versatile Cytoscape plugin NetworkAnalyzer. It computes and displays a comprehensive set of topological parameters, which includes the number of nodes, edges, and connected components, the network diameter, radius, density, centralization, heterogeneity, and clustering coefficient, the characteristic path length, and the distributions of node degrees, neighborhood connectivities, average clustering coefficients, and shortest path lengths. NetworkAnalyzer can be applied to both directed and undirected networks and also contains extra functionality to construct the intersection or union of two networks. It is an interactive and highly customizable application that requires no expert knowledge in graph theory from the user.</jats:p>
<jats:p>Availability: NetworkAnalyzer can be downloaded via the Cytoscape web site: http://www.cytoscape.org</jats:p>
<jats:p>Contact: mario.albrecht@mpi-inf.mpg.de</jats:p>
<jats:p>Supplementary information: Supplementary data are available at Bioinformatics online.</jats:p> |
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| author | Assenov, Yassen, Ramírez, Fidel, Schelhorn, Sven-Eric, Lengauer, Thomas, Albrecht, Mario |
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| description | <jats:title>Abstract</jats:title> <jats:p>Summary: Rapidly increasing amounts of molecular interaction data are being produced by various experimental techniques and computational prediction methods. In order to gain insight into the organization and structure of the resultant large complex networks formed by the interacting molecules, we have developed the versatile Cytoscape plugin NetworkAnalyzer. It computes and displays a comprehensive set of topological parameters, which includes the number of nodes, edges, and connected components, the network diameter, radius, density, centralization, heterogeneity, and clustering coefficient, the characteristic path length, and the distributions of node degrees, neighborhood connectivities, average clustering coefficients, and shortest path lengths. NetworkAnalyzer can be applied to both directed and undirected networks and also contains extra functionality to construct the intersection or union of two networks. It is an interactive and highly customizable application that requires no expert knowledge in graph theory from the user.</jats:p> <jats:p>Availability: NetworkAnalyzer can be downloaded via the Cytoscape web site: http://www.cytoscape.org</jats:p> <jats:p>Contact: mario.albrecht@mpi-inf.mpg.de</jats:p> <jats:p>Supplementary information: Supplementary data are available at Bioinformatics online.</jats:p> |
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| spelling | Assenov, Yassen Ramírez, Fidel Schelhorn, Sven-Eric Lengauer, Thomas Albrecht, Mario 1367-4811 1367-4803 Oxford University Press (OUP) Computational Mathematics Computational Theory and Mathematics Computer Science Applications Molecular Biology Biochemistry Statistics and Probability http://dx.doi.org/10.1093/bioinformatics/btm554 <jats:title>Abstract</jats:title> <jats:p>Summary: Rapidly increasing amounts of molecular interaction data are being produced by various experimental techniques and computational prediction methods. In order to gain insight into the organization and structure of the resultant large complex networks formed by the interacting molecules, we have developed the versatile Cytoscape plugin NetworkAnalyzer. It computes and displays a comprehensive set of topological parameters, which includes the number of nodes, edges, and connected components, the network diameter, radius, density, centralization, heterogeneity, and clustering coefficient, the characteristic path length, and the distributions of node degrees, neighborhood connectivities, average clustering coefficients, and shortest path lengths. NetworkAnalyzer can be applied to both directed and undirected networks and also contains extra functionality to construct the intersection or union of two networks. It is an interactive and highly customizable application that requires no expert knowledge in graph theory from the user.</jats:p> <jats:p>Availability: NetworkAnalyzer can be downloaded via the Cytoscape web site: http://www.cytoscape.org</jats:p> <jats:p>Contact: mario.albrecht@mpi-inf.mpg.de</jats:p> <jats:p>Supplementary information: Supplementary data are available at Bioinformatics online.</jats:p> Computing topological parameters of biological networks Bioinformatics |
| spellingShingle | Assenov, Yassen, Ramírez, Fidel, Schelhorn, Sven-Eric, Lengauer, Thomas, Albrecht, Mario, Bioinformatics, Computing topological parameters of biological networks, Computational Mathematics, Computational Theory and Mathematics, Computer Science Applications, Molecular Biology, Biochemistry, Statistics and Probability |
| title | Computing topological parameters of biological networks |
| title_full | Computing topological parameters of biological networks |
| title_fullStr | Computing topological parameters of biological networks |
| title_full_unstemmed | Computing topological parameters of biological networks |
| title_short | Computing topological parameters of biological networks |
| title_sort | computing topological parameters of biological networks |
| title_unstemmed | Computing topological parameters of biological networks |
| topic | Computational Mathematics, Computational Theory and Mathematics, Computer Science Applications, Molecular Biology, Biochemistry, Statistics and Probability |
| url | http://dx.doi.org/10.1093/bioinformatics/btm554 |