PINBPA: cytoscape app for network analysis of GWAS data

Lili Wang; Takuya Matsushita; Lohith Madireddy; Parvin Mousavi; Sergio E Baranzini

doi:10.1093/bioinformatics/btu644

PINBPA: cytoscape app for network analysis of GWAS data

Bioinformatics. 2015 Jan 15;31(2):262-4. doi: 10.1093/bioinformatics/btu644. Epub 2014 Sep 25.

Authors

Lili Wang¹, Takuya Matsushita¹, Lohith Madireddy¹, Parvin Mousavi¹, Sergio E Baranzini¹

Affiliation

¹ School of Computing, Queen's University, 25 Union Street, Goodwin Hall, Kingston, Ontario K7L 3N6, Canada and Department of Neurology, University of California San Francisco, 675 Nelson Rising Lane, Room 215, San Francisco, CA 94158, USA.

PMID: 25260698
DOI: 10.1093/bioinformatics/btu644

Abstract

Protein interaction network-based pathway analysis (PINBPA) for genome-wide association studies (GWAS) has been developed as a Cytoscape app, to enable analysis of GWAS data in a network fashion. Users can easily import GWAS summary-level data, draw Manhattan plots, define blocks, prioritize genes with random walk with restart, detect enriched subnetworks and test the significance of subnetworks via a user-friendly interface.

Availability and implementation: PINBPA app is freely available in Cytoscape app store.

Supplementary information: Supplementary data are available at Bioinformatics online.

Publication types

Research Support, Non-U.S. Gov't

MeSH terms

Algorithms
Data Mining / methods*
Genome-Wide Association Study*
Humans
Protein Interaction Maps*
Proteomics
Software*