CluePedia Cytoscape plugin: pathway insights using integrated experimental and in silico data

被引：848

作者：

Bindea, Gabriela ^{[1
,2
,3
]}

Galon, Jerome ^{[1
,2
,3
]}

Mlecnik, Bernhard ^{[1
,2
,3
]}

机构：

[1] INSERM, Lab Integrat Canc Immunol, F-75006 Paris, France

[2] Univ Paris 05, Cordeliers Res Ctr, F-75006 Paris, France

[3] Univ Paris 06, Cordeliers Res Ctr, F-75005 Paris, France

来源：

BIOINFORMATICS | 2013年 / 29卷 / 05期

关键词：

GENE ONTOLOGY; NETWORKS; PROTEINS;

D O I：

10.1093/bioinformatics/btt019

中图分类号：

Q5 [生物化学];

学科分类号：

071010 ; 081704 ;

摘要：

The CluePedia Cytoscape plugin is a search tool for new markers potentially associated to pathways. CluePedia calculates linear and non-linear statistical dependencies from experimental data. Genes, proteins and miRNAs can be connected based on in silico and/or experimental information and integrated into a ClueGO network of terms/pathways. Interrelations within each pathway can be investigated, and new potential associations may be revealed through gene/protein/miRNA enrichments. A pathway-like visualization can be created using the Cerebral plugin layout. Combining all these features is essential for data interpretation and the generation of new hypotheses. The CluePedia Cytoscape plugin is user-friendly and has an expressive and intuitive visualization.

引用

页码：661 / 663

页数：3

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