Departments of Molecular Genetics, Weizmann Institute of Science , Rehovot 76100, Israel.
OMICS. 2009 Dec;13(6):477-87. doi: 10.1089/omi.2009.0069.
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.
复杂的基因组导航受益于建立基因间相似性度量的能力。GeneDecks 是一种新颖的分析工具，通过突出 GeneCards 人类基因综合集中基因对之间的共享描述符，提供了这样的度量标准。当前的实现方法涉及途径、蛋白质结构域、基因本体论 (GO) 术语、小鼠表型、mRNA 表达模式、疾病、药物关系和基于序列的同源性等信息。GeneDecks 有两种模式：(1) 功能同源搜索器 (Paralog Hunter)，它根据属性的组合相似性来寻找功能同源物；(2) 集合蒸馏器 (Set Distiller)，它根据在给定基因集合内的共享程度对描述符进行排序。GeneDecks 可以阐明意想不到的潜在功能同源物，并对各种基因集（例如，来自高通量实验）进行精细审查，以发现相关的生物学模式。
