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Author, Editor(s)

Author(s):

Doncheva, Nadezhda T
Assenov, Yassen
Domingues, Francisco S.
Albrecht, Mario

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Not MPG Author(s):

Domingues, Francisco S.

BibTeX cite key*:

Albrecht2012a

Title

Title*:

Topological analysis and interactive visualization of biological networks and protein structures

Journal

Journal Title*:

Nature Protocols

Journal's URL:

http://www.nature.com/nprot/index.html

Download URL
for the article:

http://www.nature.com/nprot/journal/v7/n4/pdf/nprot.2012.004.pdf

Language:

English

Publisher

Publisher's
Name:

Nature Publishing Group

Publisher's URL:

http://www.nature.com/npg_/index_npg.html

Publisher's
Address:

Nature

ISSN:

1754-2189

Vol, No, pp, Date

Volume*:

7

Number:

4

Publishing Date:

2012

Pages*:

670-685

Number of
VG Pages:


Page Start:

670

Page End:

685

Sequence Number:


DOI:

10.1038/nprot.2012.004

Note, Abstract, ©

Note:


(LaTeX) Abstract:

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 ~2 h.

URL for the Abstract:

http://www.nature.com/nprot/journal/v7/n4/full/nprot.2012.004.html

Categories,
Keywords:

bioinformatics, network analysis

HyperLinks / References / URLs:


Copyright Message:


Personal Comments:


Download
Access Level:

Internal

Correlation

MPG Unit:

Max-Planck-Institut für Informatik



MPG Subunit:

Computational Biology and Applied Algorithmics

Appearance:

MPII WWW Server, MPII FTP Server, MPG publications list, university publications list, working group publication list, Fachbeirat, VG Wort


BibTeX Entry:

@ARTICLE{Albrecht2012a,
AUTHOR = {Doncheva, Nadezhda T and Assenov, Yassen and Domingues, Francisco S. and Albrecht, Mario},
TITLE = {Topological analysis and interactive visualization of biological networks and protein structures},
JOURNAL = {Nature Protocols},
PUBLISHER = {Nature Publishing Group},
YEAR = {2012},
NUMBER = {4},
VOLUME = {7},
PAGES = {670--685},
ADDRESS = {Nature},
ISBN = {1754-2189},
DOI = {10.1038/nprot.2012.004},
}


Entry last modified by Anja Becker, 02/12/2013
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Editor(s)
[Library]
Created
12/14/2012 05:43:35 PM
Revisions
4.
3.
2.
1.
0.
Editor(s)
Anja Becker
Mario Albrecht
Manuel Lamotte-Schubert
Mario Albrecht
Mario Albrecht
Edit Dates
12.02.2013 13:30:46
01/05/2013 01:16:46 AM
21.12.2012 08:38:39
12/18/2012 04:02:45 PM
12/14/2012 05:43:35 PM