HyperModules: identifying clinically and phenotypically significant network modules with disease mutations for biomarker discovery.
CONCLUSIONS
Correlating disease mutations with clinical and phenotypic information such as drug response or patient survival is an important goal of personalized cancer genomics and a first step in biomarker discovery. HyperModules is a network search algorithm that finds frequently mutated gene modules with significant clinical or phenotypic signatures from biomolecular interaction networks.


METHODS
HyperModules is available in Cytoscape App Store and as a command line tool at www.baderlab.org/Sofware/HyperModules.


BACKGROUND
Juri.Reimand@utoronto.ca or Gary.Bader@utoronto.ca


BACKGROUND
Supplementary data are available at Bioinformatics online.
The Donnelly Centre, University of Toronto, 160 College Street, M5S 3E1 Toronto, Ontario, Canada.
Alvin
A
Leung
The Donnelly Centre, University of Toronto, 160 College Street, M5S 3E1 Toronto, Ontario, Canada.
Gary D
GD
Bader
The Donnelly Centre, University of Toronto, 160 College Street, M5S 3E1 Toronto, Ontario, Canada.
Jüri
J
Reimand
D000465:Algorithms; D014408:Biomarkers, Tumor / Q000235:genetics; D003196:Computer Graphics; D053263:Gene Regulatory Networks; D023281:Genomics; D006801:Humans; D020407:Internet; D009154:Mutation; D009369:Neoplasms / Q000235:genetics* / Q000378:metabolism*; D010641:Phenotype; D060066:Protein Interaction Maps; D012984:Software; D049490:Systems Biology / Q000379:methods*
D014408:Biomarkers, Tumor