graphite - a Bioconductor package to convert pathway topology to gene network

The Biological Connection Markup Language: a SBGN-compliant format for visualization, filtering and analysis of biological pathways

(2011) Luca Beltrame et al.   BIOINFORMATICS

Cytoscape 2.8: new features for data integration and network visualization

(2010) M. E. Smoot et al.   BIOINFORMATICS

Transcription of LIPE gene encoding hormone-sensitive lipase/cholesteryl esterase is regulated by SF-1 in human adrenocortical cells: involvement of protein kinase A signal transduction pathway

(2010) M. Holysz et al.   JOURNAL OF MOLECULAR ENDOCRINOLOGY

The role of the inositol polyphosphate 5-phosphatases in cellular function and human disease

(2009) Lisa M. Ooms et al.   BIOCHEMICAL JOURNAL

KEGGgraph: a graph approach to KEGG PATHWAY in R and bioconductor

(2009) Jitao David Zhang et al.   BIOINFORMATICS

A general modular framework for gene set enrichment analysis

(2009) Marit Ackermann et al.   BMC BIOINFORMATICS

Multiple testing on the directed acyclic graph of gene ontology

(2008) Jelle J. Goeman et al.   BIOINFORMATICS

Gene-set approach for expression pattern analysis

(2008) D. Nam et al.   BRIEFINGS IN BIOINFORMATICS

Gene-set analysis and reduction

(2008) I. Dinu et al.   BRIEFINGS IN BIOINFORMATICS