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Bioinformatics. 2016 Dec 1;32(23):3688-3690. Epub 2016 Aug 8.

PathScore: a web tool for identifying altered pathways in cancer data.

Author information

1
Department of Biostatistics, Yale School of Public Health, Yale University, New Haven, CT 06511, USA.
2
Program in Computational Biology and Bioinformatics, Yale University, New Haven, CT 06511, USA.

Abstract

PathScore quantifies the level of enrichment of somatic mutations within curated pathways, applying a novel approach that identifies pathways enriched across patients. The application provides several user-friendly, interactive graphic interfaces for data exploration, including tools for comparing pathway effect sizes, significance, gene-set overlap and enrichment differences between projects.

AVAILABILITY AND IMPLEMENTATION:

Web application available at pathscore.publichealth.yale.edu. Site implemented in Python and MySQL, with all major browsers supported. Source code available at: github.com/sggaffney/pathscore with a GPLv3 license.

CONTACT:

stephen.gaffney@yale.edu.

PMID:
27503224
DOI:
10.1093/bioinformatics/btw512
[Indexed for MEDLINE]

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