Using the COG database to improve gene recognition in complete genomes

被引：45

作者：

Natale, DA ^{[1
]}

Galperin, MY ^{[1
]}

Tatusov, RL ^{[1
]}

Koonin, EV ^{[1
]}

机构：

[1] Natl Lib Med, Natl Ctr Biotechnol Informat, NIH, Bethesda, MD 20894 USA

来源：

GENETICA | 2000年 / 108卷 / 01期

关键词：

essential genes; microbial genomes; phylogenetic patterns; short proteins;

D O I：

10.1023/A:1004031323748

中图分类号：

Q3 [遗传学];

学科分类号：

071007 ; 090102 ;

摘要：

A complete understanding of the biology of an organism necessarily starts with knowledge of its genetic makeup. Proteins encoded in a genome must be identified and characterized, and the presence or absence of specific sets of proteins must be noted in order to determine the possible biochemical pathways or functional systems utilized by that organism. The COG database presents a set of tools suited to these purposes, including the ability to select protein families (COGs) that contain proteins from a specified set of species. The selection is based upon a phylogenetic pattern, which is a shorthand representation of the presence or absence of a particular species in a COG. Here we present the use of phylogenetic patterns as a means to perform targeted searches for undetected protein-coding genes in complete genomes.

引用

页码：9 / 17

页数：9

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