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OMICS. 2009 Dec;13(6):477-87. doi: 10.1089/omi.2009.0069.

GeneDecks: paralog hunting and gene-set distillation with GeneCards annotation.

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  • 1Departments of Molecular Genetics, Weizmann Institute of Science , Rehovot 76100, Israel. gil.stelzer@weizmann.ac.il

Abstract

Sophisticated genomic navigation strongly benefits from a capacity to establish a similarity metric among genes. GeneDecks is a novel analysis tool that provides such a metric by highlighting shared descriptors between pairs of genes, based on the rich annotation within the GeneCards compendium of human genes. The current implementation addresses information about pathways, protein domains, Gene Ontology (GO) terms, mouse phenotypes, mRNA expression patterns, disorders, drug relationships, and sequence-based paralogy. GeneDecks has two modes: (1) Paralog Hunter, which seeks functional paralogs based on combinatorial similarity of attributes; and (2) Set Distiller, which ranks descriptors by their degree of sharing within a given gene set. GeneDecks enables the elucidation of unsuspected putative functional paralogs, and a refined scrutiny of various gene-sets (e.g., from high-throughput experiments) for discovering relevant biological patterns.

PMID:
20001862
[PubMed - indexed for MEDLINE]
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