The DOE-JGI Standard Operating Procedure for the Annotations of Microbial Genomes

被引：179

作者：

Mavromatis, Konstantinos ^{[1
]}

Ivanova, Natalia N. ^{[1
]}

Chen, I-Min A. ^{[2
]}

Szeto, Ernest ^{[2
]}

Markowitz, Victor M. ^{[2
]}

Kyrpides, Nikos C. ^{[1
]}

机构：

[1] Joint Genome Inst, Dept Energy, Genome Biol Program, Walnut Creek, CA USA

[2] Lawrence Berkeley Natl Lab, Biol Data Management & Technol Ctr, Berkeley, CA USA

来源：

STANDARDS IN GENOMIC SCIENCES | 2009年 / 1卷 / 01期

关键词：

Joint Genome Institute; gene prediction; functional annotation; GeneMark; Metagene; tRNA-Scan; RNAmmer; Rfam; IMG-ER;

D O I：

10.4056/sigs.632

中图分类号：

Q3 [遗传学];

学科分类号：

071007 ; 090102 ;

摘要：

The DOE-JGI Microbial Annotation Pipeline (DOE-JGI MAP) supports gene prediction and/or functional annotation of microbial genomes towards comparative analysis with the Integrated Microbial Genome [1] (IMG) system. DOE-JGI MAP annotation is applied on nucleotide sequence datasets included in the IMG-ER (Expert Review) version of IMG via the IMG ER submission site. Users can submit the sequence datasets consisting of one or more contigs in a multi-fasta file. DOE-JGI MAP annotation includes prediction of protein coding and RNA genes, as well as repeats and assignment of product names to these genes.

引用

页码：63 / 67

页数：5

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