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Bioinformatics. 2011 Mar 1;27(5):736-8. doi: 10.1093/bioinformatics/btq721. Epub 2010 Dec 24.

PUGSVM: a caBIG™ analytical tool for multiclass gene selection and predictive classification.

Author information

1
Bradley Department of Electrical and Computer Engineering, Virginia Polytechnic Institute and State University, Arlington, VA 22203, USA.

Abstract

Phenotypic Up-regulated Gene Support Vector Machine (PUGSVM) is a cancer Biomedical Informatics Grid (caBIG™) analytical tool for multiclass gene selection and classification. PUGSVM addresses the problem of imbalanced class separability, small sample size and high gene space dimensionality, where multiclass gene markers are defined by the union of one-versus-everyone phenotypic upregulated genes, and used by a well-matched one-versus-rest support vector machine. PUGSVM provides a simple yet more accurate strategy to identify statistically reproducible mechanistic marker genes for characterization of heterogeneous diseases.

AVAILABILITY:

http://www.cbil.ece.vt.edu/caBIG-PUGSVM.htm.

PMID:
21186245
PMCID:
PMC3042183
DOI:
10.1093/bioinformatics/btq721
[Indexed for MEDLINE]
Free PMC Article
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