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Description

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 .

Statistics

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.

Download

All data for this ontology was downloaded on September 30, 2010 (MSigDB version 3.0).

GREAT v1.2

GREAT v1.2 MSigDB Cancer Neighborhood statistics are available here.

References

Footnotes
Ref Notes
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.
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