CePa: an R package for finding significant pathways weighted by multiple network centralities

Centrality-based pathway enrichment: a systematic approach for finding significant pathways dominated by key genes

(2012) Zuguang Gu et al.   BMC Systems Biology

TopoGSA: network topological gene set analysis

(2010) E. Glaab et al.   BIOINFORMATICS

Cytoscape Web: an interactive web-based network browser

(2010) Christian T. Lopes et al.   BIOINFORMATICS

A general modular framework for gene set enrichment analysis

(2009) Marit Ackermann et al.   BMC BIOINFORMATICS

Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources

(2009) Da Wei Huang et al.   Nature Protocols

PID: the Pathway Interaction Database

(2008) Carl F. Schaefer et al.   NUCLEIC ACIDS RESEARCH