The MSigDB Cancer Neighborhood1 ontology contains gene sets from mining large collections of cancer-oriented microarray data. Each gene set is defined by correlated expression with one of 380 cancer-associated genes2 .
The human hg19 ontology contains 427 gene sets, 4,351 genes, and 38,586 total term <--> gene associations.
The human hg18 ontology contains 427 gene sets, 4,363 genes, and 38,679 total term <--> gene associations.
All data for this ontology was downloaded on September 30, 2010 (MSigDB version 3.0).
GREAT v1.2 MSigDB Cancer Neighborhood statistics are available here.
|1||Subramanian, A., et al. Gene set enrichment analysis: a knowledge-based approach for interpreting genome-wide expression profiles, Proc Natl Acad Sci U S A. 2005 Oct 25; 102(43):15545-50.|
|2||Brentani, H., et al. The generation and utilization of a cancer-oriented representation of the human transcriptome by using expressed sequence tags, Proc Natl Acad Sci U S A. 2003 Nov 11; 100(23):13418-23.|