Format

Send to

Choose Destination
Bioinformatics. 2016 Dec 15;32(24):3847-3849. Epub 2016 Aug 24.

PhenomeScape: a cytoscape app to identify differentially regulated sub-networks using known disease associations.

Author information

1
Faculty of Biology, Medicine and Health, University of Manchester, Manchester M13 9PT, UK.

Abstract

PhenomeScape is a Cytoscape app which provides easy access to the PhenomeExpress algorithm to interpret gene expression data. PhenomeExpress integrates protein interaction networks with known phenotype to gene associations to find active sub-networks enriched in differentially expressed genes. It also incorporates cross-species phenotypes and associations to include results from animal models of disease. With expression data imported into PhenomeScape, the user can quickly generate and visualise interactive sub-networks. PhenomeScape thus enables researchers to use prior knowledge of a disease to identify differentially regulated sub-networks and to generate an overview of altered biologically processes specific to that disease.

AVAILABILITY AND IMPLEMENTATION:

Freely available for download at https://github.com/soulj/PhenomeScape CONTACT: jamie.soul@postgrad.manchester.ac.uk or jean-marc.schwartz@manchester.ac.uk.

PMID:
27559157
PMCID:
PMC5167065
DOI:
10.1093/bioinformatics/btw545
[Indexed for MEDLINE]
Free PMC Article

Supplemental Content

Full text links

Icon for Silverchair Information Systems Icon for PubMed Central
Loading ...
Support Center