Reefgenomics.Org - a repository for marine genomics data

Handle URI:
http://hdl.handle.net/10754/622094
Title:
Reefgenomics.Org - a repository for marine genomics data
Authors:
Liew, Yi Jin ( 0000-0003-2553-8870 ) ; Aranda, Manuel ( 0000-0001-6673-016X ) ; Voolstra, Christian R. ( 0000-0003-4555-3795 )
Abstract:
Over the last decade, technological advancements have substantially decreased the cost and time of obtaining large amounts of sequencing data. Paired with the exponentially increased computing power, individual labs are now able to sequence genomes or transcriptomes to investigate biological questions of interest. This has led to a significant increase in available sequence data. Although the bulk of data published in articles are stored in public sequence databases, very often, only raw sequencing data are available; miscellaneous data such as assembled transcriptomes, genome annotations etc. are not easily obtainable through the same means. Here, we introduce our website (http://reefgenomics.org) that aims to centralize genomic and transcriptomic data from marine organisms. Besides providing convenient means to download sequences, we provide (where applicable) a genome browser to explore available genomic features, and a BLAST interface to search through the hosted sequences. Through the interface, multiple datasets can be queried simultaneously, allowing for the retrieval of matching sequences from organisms of interest. The minimalistic, no-frills interface reduces visual clutter, making it convenient for end-users to search and explore processed sequence data.
KAUST Department:
Biological and Environmental Sciences and Engineering (BESE) Division; Red Sea Research Center (RSRC)
Citation:
Liew YJ, Aranda M, Voolstra CR (2016) Reefgenomics.Org - a repository for marine genomics data. Database 2016: baw152. Available: http://dx.doi.org/10.1093/database/baw152.
Publisher:
Oxford University Press (OUP)
Journal:
Database
Issue Date:
1-Nov-2016
DOI:
10.1093/database/baw152
Type:
Article
ISSN:
1758-0463
Sponsors:
We would like to thank the numerous labs that contributed data hosted on our website, and the three anonymous reviewers that helped improve our article. Research reported in this publication was supported by KAUST.
Additional Links:
http://database.oxfordjournals.org/content/2016/baw152
Appears in Collections:
Articles; Red Sea Research Center (RSRC); Biological and Environmental Sciences and Engineering (BESE) Division

Full metadata record

DC FieldValue Language
dc.contributor.authorLiew, Yi Jinen
dc.contributor.authorAranda, Manuelen
dc.contributor.authorVoolstra, Christian R.en
dc.date.accessioned2016-12-29T13:20:21Z-
dc.date.available2016-12-29T13:20:21Z-
dc.date.issued2016-11-01en
dc.identifier.citationLiew YJ, Aranda M, Voolstra CR (2016) Reefgenomics.Org - a repository for marine genomics data. Database 2016: baw152. Available: http://dx.doi.org/10.1093/database/baw152.en
dc.identifier.issn1758-0463en
dc.identifier.doi10.1093/database/baw152en
dc.identifier.urihttp://hdl.handle.net/10754/622094-
dc.description.abstractOver the last decade, technological advancements have substantially decreased the cost and time of obtaining large amounts of sequencing data. Paired with the exponentially increased computing power, individual labs are now able to sequence genomes or transcriptomes to investigate biological questions of interest. This has led to a significant increase in available sequence data. Although the bulk of data published in articles are stored in public sequence databases, very often, only raw sequencing data are available; miscellaneous data such as assembled transcriptomes, genome annotations etc. are not easily obtainable through the same means. Here, we introduce our website (http://reefgenomics.org) that aims to centralize genomic and transcriptomic data from marine organisms. Besides providing convenient means to download sequences, we provide (where applicable) a genome browser to explore available genomic features, and a BLAST interface to search through the hosted sequences. Through the interface, multiple datasets can be queried simultaneously, allowing for the retrieval of matching sequences from organisms of interest. The minimalistic, no-frills interface reduces visual clutter, making it convenient for end-users to search and explore processed sequence data.en
dc.description.sponsorshipWe would like to thank the numerous labs that contributed data hosted on our website, and the three anonymous reviewers that helped improve our article. Research reported in this publication was supported by KAUST.en
dc.publisherOxford University Press (OUP)en
dc.relation.urlhttp://database.oxfordjournals.org/content/2016/baw152en
dc.rightsThis is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0/), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited.en
dc.rights.urihttp://creativecommons.org/licenses/by/4.0/en
dc.titleReefgenomics.Org - a repository for marine genomics dataen
dc.typeArticleen
dc.contributor.departmentBiological and Environmental Sciences and Engineering (BESE) Divisionen
dc.contributor.departmentRed Sea Research Center (RSRC)en
dc.identifier.journalDatabaseen
dc.eprint.versionPublisher's Version/PDFen
kaust.authorLiew, Yi Jinen
kaust.authorAranda, Manuelen
kaust.authorVoolstra, Christian R.en
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