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Bioinformatics. 2006 Dec 1;22(23):2926-33. Epub 2006 Sep 25.

GATHER: a systems approach to interpreting genomic signatures.

Author information

1
Department of Molecular Genetics and Microbiology, Duke Institute for Genome Sciences and Policy, Duke University Medical Center, Durham, NC 27710, USA.

Abstract

MOTIVATION:

Understanding the full meaning of the biology captured in molecular profiles, within the context of the entire biological system, cannot be achieved with a simple examination of the individual genes in the signature. To facilitate such an understanding, we have developed GATHER, a tool that integrates various forms of available data to elucidate biological context within molecular signatures produced from high-throughput post-genomic assays.

RESULTS:

Analyzing the Rb/E2F tumor suppressor pathway, we show that GATHER identifies critical features of the pathway. We further show that GATHER identifies common biology in a series of otherwise unrelated gene expression signatures that each predict breast cancer outcome. We quantify the performance of GATHER and find that it successfully predicts 90% of the functions over a broad range of gene groups. We believe that GATHER provides an essential tool for extracting the full value from molecular signatures generated from genome-scale analyses.

AVAILABILITY:

GATHER is available at http://gather.genome.duke.edu/

PMID:
17000751
DOI:
10.1093/bioinformatics/btl483
[Indexed for MEDLINE]
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