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Ensembl BioMarts: a hub for data retrieval across taxonomic space
For a number of years the BioMart data warehousing system has proven to be a valuable resource for scientists seeking a fast and versatile means of accessing the growing volume of genomic data provided by the Ensembl project. The launch of the Ensembl Genomes project in 2009 complemented the Ensembl...
Autores principales: | , , , , , , , , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Oxford University Press
2011
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3170168/ https://www.ncbi.nlm.nih.gov/pubmed/21785142 http://dx.doi.org/10.1093/database/bar030 |
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author | Kinsella, Rhoda J. Kähäri, Andreas Haider, Syed Zamora, Jorge Proctor, Glenn Spudich, Giulietta Almeida-King, Jeff Staines, Daniel Derwent, Paul Kerhornou, Arnaud Kersey, Paul Flicek, Paul |
author_facet | Kinsella, Rhoda J. Kähäri, Andreas Haider, Syed Zamora, Jorge Proctor, Glenn Spudich, Giulietta Almeida-King, Jeff Staines, Daniel Derwent, Paul Kerhornou, Arnaud Kersey, Paul Flicek, Paul |
author_sort | Kinsella, Rhoda J. |
collection | PubMed |
description | For a number of years the BioMart data warehousing system has proven to be a valuable resource for scientists seeking a fast and versatile means of accessing the growing volume of genomic data provided by the Ensembl project. The launch of the Ensembl Genomes project in 2009 complemented the Ensembl project by utilizing the same visualization, interactive and programming tools to provide users with a means for accessing genome data from a further five domains: protists, bacteria, metazoa, plants and fungi. The Ensembl and Ensembl Genomes BioMarts provide a point of access to the high-quality gene annotation, variation data, functional and regulatory annotation and evolutionary relationships from genomes spanning the taxonomic space. This article aims to give a comprehensive overview of the Ensembl and Ensembl Genomes BioMarts as well as some useful examples and a description of current data content and future objectives. Database URLs: http://www.ensembl.org/biomart/martview/; http://metazoa.ensembl.org/biomart/martview/; http://plants.ensembl.org/biomart/martview/; http://protists.ensembl.org/biomart/martview/; http://fungi.ensembl.org/biomart/martview/; http://bacteria.ensembl.org/biomart/martview/ |
format | Online Article Text |
id | pubmed-3170168 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2011 |
publisher | Oxford University Press |
record_format | MEDLINE/PubMed |
spelling | pubmed-31701682011-09-12 Ensembl BioMarts: a hub for data retrieval across taxonomic space Kinsella, Rhoda J. Kähäri, Andreas Haider, Syed Zamora, Jorge Proctor, Glenn Spudich, Giulietta Almeida-King, Jeff Staines, Daniel Derwent, Paul Kerhornou, Arnaud Kersey, Paul Flicek, Paul Database (Oxford) Original Article For a number of years the BioMart data warehousing system has proven to be a valuable resource for scientists seeking a fast and versatile means of accessing the growing volume of genomic data provided by the Ensembl project. The launch of the Ensembl Genomes project in 2009 complemented the Ensembl project by utilizing the same visualization, interactive and programming tools to provide users with a means for accessing genome data from a further five domains: protists, bacteria, metazoa, plants and fungi. The Ensembl and Ensembl Genomes BioMarts provide a point of access to the high-quality gene annotation, variation data, functional and regulatory annotation and evolutionary relationships from genomes spanning the taxonomic space. This article aims to give a comprehensive overview of the Ensembl and Ensembl Genomes BioMarts as well as some useful examples and a description of current data content and future objectives. Database URLs: http://www.ensembl.org/biomart/martview/; http://metazoa.ensembl.org/biomart/martview/; http://plants.ensembl.org/biomart/martview/; http://protists.ensembl.org/biomart/martview/; http://fungi.ensembl.org/biomart/martview/; http://bacteria.ensembl.org/biomart/martview/ Oxford University Press 2011-07-23 /pmc/articles/PMC3170168/ /pubmed/21785142 http://dx.doi.org/10.1093/database/bar030 Text en © The Author(s) 2011. Published by Oxford University Press. http://creativecommons.org/licenses/by-nc/2.5 This is Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/2.5), which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited. |
spellingShingle | Original Article Kinsella, Rhoda J. Kähäri, Andreas Haider, Syed Zamora, Jorge Proctor, Glenn Spudich, Giulietta Almeida-King, Jeff Staines, Daniel Derwent, Paul Kerhornou, Arnaud Kersey, Paul Flicek, Paul Ensembl BioMarts: a hub for data retrieval across taxonomic space |
title | Ensembl BioMarts: a hub for data retrieval across taxonomic space |
title_full | Ensembl BioMarts: a hub for data retrieval across taxonomic space |
title_fullStr | Ensembl BioMarts: a hub for data retrieval across taxonomic space |
title_full_unstemmed | Ensembl BioMarts: a hub for data retrieval across taxonomic space |
title_short | Ensembl BioMarts: a hub for data retrieval across taxonomic space |
title_sort | ensembl biomarts: a hub for data retrieval across taxonomic space |
topic | Original Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3170168/ https://www.ncbi.nlm.nih.gov/pubmed/21785142 http://dx.doi.org/10.1093/database/bar030 |
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