The DOE-JGI Standard Operating Procedure for the Annotations of Microbial GenomesReport as inadecuate




The DOE-JGI Standard Operating Procedure for the Annotations of Microbial Genomes - Download this document for free, or read online. Document in PDF available to download.

Standards in Genomic Sciences

, Volume 1, Issue 1, pp 63–67

First Online: 20 July 2009

Abstract

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.

KeywordsJoint Genome Institute gene prediction functional annotation GeneMark Metagene tRNA-Scan RNAmmer Rfam IMG-ER AbbreviationsDOE-JGIDepartment of Energy, Joint Genome Institute

IMGIntegrated Microbial Genomes

IMG-ERIMG Expert Review

CRISPRClustered Regularly Interspaced Short Palindromic Repeats

MAPMicrobial Annotation Pipeline

K. Mavromatis and N. Ivanova contributed equally to this work.

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Author: Konstantinos Mavromatis - Natalia N. Ivanova - I-Min A. Chen - Ernest Szeto - Victor M. Markowitz - Nikos C. Kyrpides

Source: https://link.springer.com/







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