Journal Article

FZJ-2019-00093

http://join2-wiki.gsi.de/foswiki/pub/Main/Artwork/join2_logo100x88.png MapMan4: a refined protein classification and annotation framework applicable to multi-omics data analysis

Schwacke, R.FZJ* ; Ponce-Soto, G. Y.FZJ* ; Krause, K. ; Bolger, A. M. ; Arsova, B.FZJ* ; Hallab, A.FZJ* ; Gruden, K. ; Stitt, M. ; Bolger, M. (Corresponding author)FZJ* ; Usadel, B.FZJ*

2019
Oxford Univ. Press Oxford

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Please use a persistent id in citations: http://hdl.handle.net/2128/22390  doi:10.1016/j.molp.2019.01.003

Abstract: Genome sequences from over 200 plant species have already been published, with this number expected to increase rapidly due to advances in sequencing technologies. Once a new genome has been assembled and the genes identified, the functional annotation of their proteins using ontologies is of key importance as it places the sequencing data in a biological context. Furthermore, in order to keep pace with rapid production of genome sequences, this functional annotation process must be fully automated.Here we present a redesigned and significantly enhanced MapMan4 framework, together with a revised version of the associated online Mercator annotation tool. Compared to the original MapMan, the new ontology has been expanded almost threefold and now enforces stricter assignment rules. This ontology has been incorporated into Mercator4, which has been upgraded to reflect current knowledge across the land plant group and thus provides protein annotations for all embryophytes with a comparably high quality. The annotation process has been optimized to allow a plant genome to be annotated in a matter of minutes. The output results continue to be compatible with the established MapMan desktop application.

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Contributing Institute(s):

1. Pflanzenwissenschaften (IBG-2)

Research Program(s):

1. 582 - Plant Science (POF3-582) (POF3-582)
2. 583 - Innovative Synergisms (POF3-583) (POF3-583)

Appears in the scientific report 2019

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Database coverage:
; ; ; BIOSIS Previews ; Clarivate Analytics Master Journal List ; Current Contents - Agriculture, Biology and Environmental Sciences ; Current Contents - Life Sciences ; Ebsco Academic Search ; IF >= 5 ; JCR ; NCBI Molecular Biology Database ; PubMed Central ; SCOPUS ; Science Citation Index Expanded ; Web of Science Core Collection

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