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  Topological Analysis and Interactive Visualization of Biological Networks and Protein Structures

Doncheva, N. T., Assenov, Y., Domingues, F. S., & Albrecht, M. (2012). Topological Analysis and Interactive Visualization of Biological Networks and Protein Structures. Nature Protocols, 7(4), 670-685. doi:10.1038/nprot.2012.004.

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 Urheber:
Doncheva, Nadezhda Tsankova1, Autor           
Assenov, Yassen1, Autor           
Domingues, Francisco S.2, Autor           
Albrecht, Mario1, Autor           
Affiliations:
1Computational Biology and Applied Algorithmics, MPI for Informatics, Max Planck Society, ou_40046              
2External Organizations, ou_persistent22              

Inhalt

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Schlagwörter: Models, Biological Protein Interaction Mapping/*methods Protein Interaction Maps Protein Structure, Tertiary Proteins/*chemistry *Software
 Zusammenfassung: Computational analysis and interactive visualization of biological networks and protein structures are common tasks for gaining insight into biological processes. This protocol describes three workflows based on the NetworkAnalyzer and RINalyzer plug-ins for Cytoscape, a popular software platform for networks. NetworkAnalyzer has become a standard Cytoscape tool for comprehensive network topology analysis. In addition, RINalyzer provides methods for exploring residue interaction networks derived from protein structures. The first workflow uses NetworkAnalyzer to perform a topological analysis of biological networks. The second workflow applies RINalyzer to study protein structure and function and to compute network centrality measures. The third workflow combines NetworkAnalyzer and RINalyzer to compare residue networks. The full protocol can be completed in approximately 2 h.

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Sprache(n): eng - English
 Datum: 2012-03-152012
 Publikationsstatus: Erschienen
 Seiten: -
 Ort, Verlag, Ausgabe: -
 Inhaltsverzeichnis: -
 Art der Begutachtung: -
 Identifikatoren: PMID: 22422314
DOI: 10.1038/nprot.2012.004
URI: http://www.ncbi.nlm.nih.gov/pubmed/22422314
BibTex Citekey: Albrecht2012a
Anderer: Local-ID: 60C74A3540567C51C1257AD4005BE1AA-Albrecht2012a
 Art des Abschluß: -

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Titel: Nature Protocols
  Kurztitel : Nat. Protoc.
Genre der Quelle: Zeitschrift
 Urheber:
Affiliations:
Ort, Verlag, Ausgabe: Basingstoke : Nature Publishing Group
Seiten: - Band / Heft: 7 (4) Artikelnummer: - Start- / Endseite: 670 - 685 Identifikator: ISSN: 1750-2799
ISSN: 1754-2189
CoNE: https://pure.mpg.de/cone/journals/resource/1000000000223800_1