CytoNCA protocols

View CytoNCA computational protocol

CytoNCA 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

CytoNCA specifications

Information


Unique identifier OMICS_12243
Name CytoNCA
Software type Package/Module
Interface Graphical user interface
Restrictions to use None
Operating system Unix/Linux, Windows
Computer skills Medium
Version 2.1.6
Stability Stable
Requirements
Cytoscape
Maintained Yes

Versioning


Add your version

Documentation


Maintainer


  • person_outline Yu Tang <>

Publication for CytoNCA

CytoNCA in pipeline

2017
PMCID: 5600194
PMID: 28880852
DOI: 10.12659/MSM.903272

[…] comparing the following parameters: degree of centrality [], betweenness centrality [], subgraph centrality [], and closeness centrality) []. the parameters were calculated using a cytoscape plug-in cytonca []., next, module analysis was performed to indent the subnetwork from the ppi network using clusterone []. pathway enrichment analysis of the genes in the module was also performed using […]


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

CytoNCA in publications

 (38)
PMCID: 5952699
PMID: 29764446
DOI: 10.1186/s12967-018-1510-y

[…] we identified several hub genes of mir-106a and mir-106b targets by using three different methods including betweenness centrality, closeness centrality and degree centrality based on the plug-in cytonca []. in addition, the significant modules in the ppi network were screened by plug-in molecular complex detection (mcode) of cytoscape. as for a further comment, kegg pathway analysis […]

PMCID: 5889820
PMID: 29632421
DOI: 10.3748/wjg.v24.i13.1398

[…] confirm the candidate targets of amp against uc, an intersection of the above networks was conducted, which consisted of 2543 nodes and 70816 edges, and the dc values of 35 and 70 were computed by cytonca to identify the putative targets during the process (figure )., in order to further elucidate the possible effects of amp on uc, the biological processes and signaling pathways […]

PMCID: 5894672
PMID: 29670360
DOI: 10.2147/OTT.S148776

[…] the ppi network. three methods including degree centrality, betweenness centrality, and closeness centrality were used to analyze network topological features of nodes in the ppi network using the cytonca plug-in (http://apps.cytoscape.org/apps/cytonca) in cytoscape software. hub nodes with higher topology scores were identified. significant modules (densely connected subnetwork regions) […]

PMCID: 5875410
PMID: 29618931
DOI: 10.2147/OTT.S150565

[…] and then the degs were mapped into the background to obtain their ppi pairs. subsequently, the ppi network for the degs was visualized by cytoscape software (http://www.cytoscape.org). using the cytonca plugin (version 2.1.6, http://apps.cytoscape.org/apps/cytonca) in cytoscape software, betweenness centrality (bc), degree centrality (dc), and closeness centrality (cc) of the nodes in ppi […]

PMCID: 5864740
PMID: 29567951
DOI: 10.1038/s41598-018-23492-2

[…] network according to previous studies. however, in the network, c1qa and c1qb only interacted with each other, but not with the other 14 genes (fig. , table ).figure 3figure 4table 1, in the cytonca analysis, every deg was scored according to degree centrality, betweenness centrality and subgraph centrality respectively (table ). based on the results of cytonca analysis, cxcl10, egf […]


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

CytoNCA institution(s)
School of Information Science and Engineering, Central South University, Changsha, China; Department of Computer Science, Georgia State University, Atlanta, GA, USA; Division of Biomedical Engineering and Department of Mechanical Engineering, University of Saskatchewan, Saskatoon, SK, Canada

CytoNCA reviews

star_border star_border star_border star_border star_border
star star star star star

Be the first to review CytoNCA