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. 2015 Oct 26:10:86.
doi: 10.1186/s40793-015-0077-y. eCollection 2015.

The standard operating procedure of the DOE-JGI Microbial Genome Annotation Pipeline (MGAP v.4)

Marcel Huntemann  1 , Natalia N Ivanova  1 , Konstantinos Mavromatis  2 , H James Tripp  1 , David Paez-Espino  1 , Krishnaveni Palaniappan  3 , Ernest Szeto  3 , Manoj Pillay  3 , I-Min A Chen  3 , Amrita Pati  1 , Torben Nielsen  1 , Victor M Markowitz  3 , Nikos C Kyrpides  1
Affiliations

The standard operating procedure of the DOE-JGI Microbial Genome Annotation Pipeline (MGAP v.4)

Marcel Huntemann et al. Stand Genomic Sci. .

Erratum in

Abstract

The DOE-JGI Microbial Genome Annotation Pipeline performs structural and functional annotation of microbial genomes that are further included into the Integrated Microbial Genome comparative analysis system. MGAP is applied to assembled nucleotide sequence datasets that are provided via the IMG submission site. Dataset submission for annotation first requires project and associated metadata description in GOLD. The MGAP sequence data processing consists of feature prediction including identification of protein-coding genes, non-coding RNAs and regulatory RNA features, as well as CRISPR elements. Structural annotation is followed by assignment of protein product names and functions.

Keywords: IMG; JGI; Microbial Genome Annotation; SOP.

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Figures

Fig. 1
Fig. 1
Genome sequence data preprocessing (i), structural (ii) and functional annotation (iii) steps of the MGAP v.4
See this image and copyright information in PMC

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