NetworkAnalyzer statistics

To access cutting-edge analytics on consensus tools, life science contexts and associated fields, you will need to subscribe to our premium service.

Subscribe
info

Citations per year

Citations chart
info

Popular tool citations

chevron_left Centrality exploration chevron_right
Popular tools chart
info

Tool usage distribution map

Tool usage distribution map
info

Associated diseases

Associated diseases

Protocols

To access compelling stats and trends, optimize your time and resources and pinpoint new correlations, you will need to subscribe to our premium service.

Subscribe

NetworkAnalyzer specifications

Information


Unique identifier OMICS_12238
Name NetworkAnalyzer
Software type Package/Module
Interface Graphical user interface
Restrictions to use None
Operating system Unix/Linux, Mac OS, Windows
Programming languages Java
Computer skills Medium
Stability Stable
Requirements
Cytoscape
Maintained Yes

Versioning


Add your version

Documentation


Maintainer


  • person_outline Mario Albrecht <>

Publications for NetworkAnalyzer

NetworkAnalyzer in pipelines

 (11)
2018
PMCID: 5902543
PMID: 29692775
DOI: 10.3389/fmicb.2018.00733

[…] thousand permutations and bootstrap scores were generated. edges with merged p-values < 0.01 were kept (benjamini–hochberg correction). networks were visualized via cytoscape 3.4 (), applying the networkanalyzer plugin analysis for network characteristics., the mann–whitney u-test was used to examine the statistical significance of the alpha and beta diversities and the degree of networks via […]

2018
PMCID: 5941338
PMID: 29760609
DOI: 10.1186/s41065-018-0061-9

[…] of the degs []. the interaction score of not < 0.7 (high confidence score) was considered significant and the ppi was visualized., the relationships among the degs were analyzed by plug-in networkanalyzer of cytoscape software for the characteristics of small-world network through calculating the network properties such as distribution of network node degree, distribution […]

2017
PMCID: 5828656
PMID: 29246518
DOI: 10.1016/j.gpb.2017.04.006

[…] and merged using the merge networks plugin [http://www.cytoscape.org/plugins2.php] included in cytoscape by default. the following integrated network topology parameters were obtained using the networkanalyzer plugin: level (k, degree), indicating how one node is connected with the others; intermediation (bc), indicating the number of shortest paths that pass through a node; cc, indicating […]

2015
PMCID: 4458573
PMID: 26106402
DOI: 10.3389/fpls.2015.00421

[…] enrichments of go categories (p < 1e-03) among the input genes. cytoscape (http://www.cytoscape.org) program was applied to visualize the co-expression relationships among genes and the tool of networkanalyzer was employed to extract connected components (sub-network). in the present study, we mainly focused on the up-regulated genes in rh and on finding novel modules, when compared […]

2015
PMCID: 4458573
PMID: 26106402
DOI: 10.3389/fpls.2015.00421

[…] of equal to or greater than 0.83 based on the go enrichment analysis. the generated co-expression networks were visualized by cytoscape (http://www.cytoscape.org), and the cytoscape tool of networkanalyzer was employed to extract connected components (sub-network)., mcode plugin in cytoscape software was employed to extract functional modules as previous report (rivera et al., ). first, […]


To access a full list of citations, you will need to upgrade to our premium service.

NetworkAnalyzer in publications

 (162)
PMCID: 5941338
PMID: 29760609
DOI: 10.1186/s41065-018-0061-9

[…] david database. protein–protein interaction (ppi) network was constructed by string and visualized in cytoscape. the relationships among the degs and module in ppi network were analyzed by plug-in networkanalyzer and mcode seperately. through the targetscan and comparing target genes with degs, the mirna-mrna regulation network was established., totally 346 degs and 90 demis were found […]

PMCID: 5902692
PMID: 29692794
DOI: 10.3389/fpls.2018.00470

[…] best fit of the scale-free topology, as described previously (). the gene co-expression network was visualized using cytoscape v3.4 (), and the network topology parameters were calculated using the networkanalyzer plugin (). co-expression modules were identified using dynamic tree cut software ()., gene ontology (go) enrichment analyses were performed using bingo software (). hypergeometric […]

PMCID: 5902543
PMID: 29692775
DOI: 10.3389/fmicb.2018.00733

[…] thousand permutations and bootstrap scores were generated. edges with merged p-values < 0.01 were kept (benjamini–hochberg correction). networks were visualized via cytoscape 3.4 (), applying the networkanalyzer plugin analysis for network characteristics., the mann–whitney u-test was used to examine the statistical significance of the alpha and beta diversities and the degree of networks via […]

PMCID: 5884779
PMID: 29618826
DOI: 10.1038/s41598-018-21515-6

[…] specified network of the selected disease was rebuild and cytoscape v3.2 was applied to visualize and analyse the network. the topological features of each node in the network were calculated using networkanalyzer in the cytoscape software and the most possible diseases targets that liuweiwuling might act on were screened with three topologic parameters: “degree”, “betweenness centrality” […]


To access a full list of publications, you will need to upgrade to our premium service.

NetworkAnalyzer institution(s)
Max Planck Institute for Informatics, Saarbrücken, Germany; Center for Biomedicine, EURAC research, Bolzano, Italy; Institute of Biometrics and Medical Informatics, University Medicine Greifswald, Greifswald, Germany
NetworkAnalyzer funding source(s)
Supported by the BMBF through the German National Genome Research Network (NGFN) and the Greifswald Approach to Individualized Medicine (GANI_MED), in the context of the DFG-funded Cluster of Excellence for Multimodal Computing and Interaction.

NetworkAnalyzer reviews

star_border star_border star_border star_border star_border
star star star star star

Be the first to review NetworkAnalyzer