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dc.contributor.authorKlemetsen, Terje
dc.contributor.authorRaknes, Inge A.
dc.contributor.authorFu, Juan
dc.contributor.authorAgafonov, Alexander
dc.contributor.authorBalasundaram, Sudhagar V.
dc.contributor.authorTartari, Giacomo
dc.contributor.authorRobertsen, Espen
dc.contributor.authorWillassen, Nils Peder
dc.date.accessioned2018-08-23T07:57:07Z
dc.date.available2018-08-23T07:57:07Z
dc.date.issued2017-11-02
dc.description.abstractWe introduce the marine databases; <i>MarRef, MarDB</i> and <i>MarCat</i> (https://mmp.sfb.uit.no/databases/), which are publicly available resources that promote marine research and innovation. These data resources, which have been implemented in the Marine Metagenomics Portal (MMP) (https://mmp.sfb.uit.no/), are collections of richly annotated and manually curated contextual (metadata) and sequence databases representing three tiers of accuracy. While <i>MarRef</i> is a database for completely sequenced marine prokaryotic genomes, which represent a marine prokaryote reference genome database, <i>MarDB</i> includes all incomplete sequenced prokaryotic genomes regardless level of completeness. The last database, <i>MarCat</i>, represents a gene (protein) catalog of uncultivable (and cultivable) marine genes and proteins derived from marine metagenomics samples. The first versions of <i>MarRef</i> and <i>MarDB</i> contain 612 and 3726 records, respectively. Each record is built up of 106 metadata fields including attributes for sampling, sequencing, assembly and annotation in addition to the organism and taxonomic information. Currently, <i>MarCat</i> contains 1227 records with 55 metadata fields. Ontologies and controlled vocabularies are used in the contextual databases to enhance consistency. The user-friendly web interface lets the visitors browse, filter and search in the contextual databases and perform BLAST searches against the corresponding sequence databases. All contextual and sequence databases are freely accessible and downloadable from https://s1.sfb.uit.no/public/mar/.en_US
dc.description.sponsorshipUiT The Arctic University of Norwayen_US
dc.identifier.citationKlemetsen, T., Raknes, I.A., Fu, J., Agafonov, A., Balasundaram, S.V., Tartari, G., ... Willassen, N.P. (2018). The MAR databases: development and implementation of databases specific for marine metagenomics. Nucleic Acids Research, 46(D1), D692-D699. https://doi.org/10.1093/nar/gkx1036en_US
dc.identifier.cristinIDFRIDAID 1513098
dc.identifier.doi10.1093/nar/gkx1036
dc.identifier.issn0305-1048
dc.identifier.issn1362-4962
dc.identifier.urihttps://hdl.handle.net/10037/13567
dc.language.isoengen_US
dc.publisherOxford University Press (OUP)en_US
dc.relation.ispartofKlemetsen, T. (2021). Developing the MAR databases – Augmenting Genomic Versatility of Sequenced Marine Microbiota. (Doctoral thesis). <a href=https://hdl.handle.net/10037/23232>https://hdl.handle.net/10037/23232 </a>.
dc.relation.journalNucleic Acids Research
dc.relation.projectIDinfo:eu-repo/grantAgreement/RCN/FORINFRA/208481/Norway/ELIXIR.NO - a Norwegian ELIXIR node//en_US
dc.relation.projectIDinfo:eu-repo/grantAgreement/EC/ H2020-EU.1.4.1.1. - Developing new world-class research infrastructures/676559/EU/ELIXIR-EXCELERATE: Fast-track ELIXIR implementation and drive early user exploitation across the life-sciences/ELIXIR-EXCELERATE/en_US
dc.rights.accessRightsopenAccessen_US
dc.subjectVDP::Matematikk og Naturvitenskap: 400::Kjemi: 440en_US
dc.subjectVDP::Mathematics and natural science: 400::Chemistry: 440en_US
dc.titleThe MAR databases: development and implementation of databases specific for marine metagenomicsen_US
dc.typeJournal articleen_US
dc.typeTidsskriftartikkelen_US
dc.typePeer revieweden_US


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