BiomeNet: a database for construction and analysis of functional interaction networks for any species with a sequenced genome

Cited 4 time in scopus
Metadata Downloads

Full metadata record

DC FieldValueLanguage
dc.contributor.authorE Kim-
dc.contributor.authorD Bae-
dc.contributor.authorS Yang-
dc.contributor.authorGunhwan Ko-
dc.contributor.authorS Lee-
dc.contributor.authorByungwook Lee-
dc.contributor.authorI Lee-
dc.date.accessioned2020-04-24T16:30:27Z-
dc.date.available2020-04-24T16:30:27Z-
dc.date.issued2020-
dc.identifier.issn13674803-
dc.identifier.uri10.1093/bioinformatics/btz776ko
dc.identifier.urihttps://oak.kribb.re.kr/handle/201005/19406-
dc.description.abstractMOTIVATION: Owing to advanced DNA sequencing and genome assembly technology, the number of species with sequenced genomes is rapidly increasing. The aim of the recently launched Earth BioGenome Project is to sequence genomes of all eukaryotic species on Earth over the next 10?years, making it feasible to obtain genomic blueprints of the majority of animal and plant species by this time. Genetic models of the sequenced species will later be subject to functional annotation, and a comprehensive molecular network should facilitate functional analysis of individual genes and pathways. However, network databases are lagging behind genome sequencing projects as even the largest network database provides gene networks for less than 10% of sequenced eukaryotic genomes, and the knowledge gap between genomes and interactomes continues to widen. RESULTS: We present BiomeNet, a database of 95 scored networks comprising over 8 million co-functional links, which can build and analyze gene networks for any species with the sequenced genome. BiomeNet transfers functional interactions between orthologous proteins from source networks to the target species within minutes and automatically constructs gene networks with the quality comparable to that of existing networks. BiomeNet enables assembly of the first-in-species gene networks not available through other databases, which are highly predictive of diverse biological processes and can also provide network analysis by extracting subnetworks for individual biological processes and network-based gene prioritizations. These data indicate that BiomeNet could enhance the benefits of decoding the genomes of various species, thus improving our understanding of the Earth' biodiversity. AVAILABILITY AND IMPLEMENTATION: The BiomeNet is freely available at http://kobic.re.kr/biomenet/. SUPPLEMENTARY INFORMATION: Supplementary data are available at Bioinformatics online.-
dc.publisherOxford Univ Press-
dc.titleBiomeNet: a database for construction and analysis of functional interaction networks for any species with a sequenced genome-
dc.title.alternativeBiomeNet: a database for construction and analysis of functional interaction networks for any species with a sequenced genome-
dc.typeArticle-
dc.citation.titleBioinformatics-
dc.citation.number5-
dc.citation.endPage1589-
dc.citation.startPage1584-
dc.citation.volume36-
dc.contributor.affiliatedAuthorGunhwan Ko-
dc.contributor.affiliatedAuthorByungwook Lee-
dc.contributor.alternativeName김의루-
dc.contributor.alternativeName배다솜-
dc.contributor.alternativeName양선모-
dc.contributor.alternativeName고건환-
dc.contributor.alternativeName이성호-
dc.contributor.alternativeName이병욱-
dc.contributor.alternativeName이인석-
dc.identifier.bibliographicCitationBioinformatics, vol. 36, no. 5, pp. 1584-1589-
dc.identifier.doi10.1093/bioinformatics/btz776-
dc.description.journalClassY-
Appears in Collections:
Korea Bioinformation Center > 1. Journal Articles
Files in This Item:
  • There are no files associated with this item.


Items in OpenAccess@KRIBB are protected by copyright, with all rights reserved, unless otherwise indicated.