Back to Search Start Over

BioMart Central Portal: An open database network for the biological community

Authors :
Brett R Whitty
Marie Wong-Erasmus
Richard Baldock
Michael Lush
François Moreews
Jun Wang
Ken Youens-Clark
Philip Jones
Gunes Gundem
Nuria Lopez-Bigas
Junjun Zhang
Nelson Ndegwa
Toshiaki Katayama
L. Yao
Arek Kasprzyk
S. Rosanoff
Jianxin Wang
Michael Primig
Anthony Cros
Claude Chelala
Jack Hsu
Emanuela Gadaleta
Lei Kong
J. Ai
Shen Hu
Robin Haw
Vivek Iyer
Rosalind J. Cutts
Reinhard Simon
William Spooner
Rebecca Shepherd
Takatomo Fujisawa
Christina K. Yung
Jeremy Mason
Linda Sperling
Simon J. Hubbard
Bernard Haggarty
B. Skarnes
Todd W. Harris
Joachim Baran
Damian Smedley
Simon A. Forbes
Yong Liang
Syed Haider
Kevin R. Stone
Christian Perez-Llamas
Matthew Hall
Elena Rivkin
Daniel Lawson
Peter Stevenson
Darren J. Oakley
D. T. Wong
Jie Luo
Andrew Blake
A. Di Génova
Olivier Arnaiz
Rhoda Kinsella
Jon W. Teague
Jonathan M. Guberman
David Goodstein
David Croft
Ontario Institute for Cancer Research [Canada] (OICR)
Ontario Institute for Cancer Research
School of Dentistry and Dental Research Institute [UCLA]
University of California [Los Angeles] (UCLA)
University of California-University of California
Centre de génétique moléculaire (CGM)
Université Paris-Sud - Paris 11 (UP11)-Université Pierre et Marie Curie - Paris 6 (UPMC)-Centre National de la Recherche Scientifique (CNRS)
Medical Research Coucil Harwell [Oxford, UK] (MRC Harwell)
MRC Harwell
MRC Human Genetics Unit
University of Edinburgh-Western General Hospital
Centre for Molecular Oncology and Imaging
Centre for Molecular Oncology and Imaging, Barts Cancer Institute
European Bioinformatics Institute [Hinxton] (EMBL-EBI)
EMBL Heidelberg
Center for Mathematical Modeling (CMM)
Universidad de Santiago de Chile [Santiago] (USACH)
Cancer Genome Project
The Wellcome Trust Sanger Institute [Cambridge]
Kasuza DNA Research Institute
DOE Joint Genome Institute [Walnut Creek]
Genomics Division [LBNL Berkeley]
Lawrence Berkeley National Laboratory [Berkeley] (LBNL)
Research Unit on Biomedical Informatics (GRIB)
Universitat Pompeu Fabra [Barcelona]
Computer Laboratory [Cambridge]
University of Cambridge [UK] (CAM)
Mouse Genomic Informatics Group (MGI)
The Jackson Laboratory
Cold Spring Harbor Laboratory (CSHL)
Faculty of Life Sciences [Manchester]
University of Manchester [Manchester]
The University of Tokyo
Center for Bioinformatics [Pekin]
Peking University [Beijing]
Biological systems and models, bioinformatics and sequences (SYMBIOSE)
Institut de Recherche en Informatique et Systèmes Aléatoires (IRISA)
Université de Rennes 1 (UR1)
Université de Rennes (UNIV-RENNES)-Université de Rennes (UNIV-RENNES)-Institut National des Sciences Appliquées - Rennes (INSA Rennes)
Institut National des Sciences Appliquées (INSA)-Université de Rennes (UNIV-RENNES)-Institut National des Sciences Appliquées (INSA)-Institut National de Recherche en Informatique et en Automatique (Inria)-Centre National de la Recherche Scientifique (CNRS)-Université de Rennes 1 (UR1)
Institut National des Sciences Appliquées (INSA)-Université de Rennes (UNIV-RENNES)-Institut National des Sciences Appliquées (INSA)-Institut National de Recherche en Informatique et en Automatique (Inria)-Centre National de la Recherche Scientifique (CNRS)-Inria Rennes – Bretagne Atlantique
Institut National de Recherche en Informatique et en Automatique (Inria)
Système d'Information des GENomes des Animaux d'Elevage (SIGENAE)
Institut National de la Recherche Agronomique (INRA)
Groupe d'Etude de la Reproduction Chez l'Homme et les Mammiferes (GERHM)
Université de Rennes (UNIV-RENNES)-Université de Rennes (UNIV-RENNES)-IFR140-Institut National de la Santé et de la Recherche Médicale (INSERM)
International Potato Center
Eagle Genomics Ltd
Eagle Genomics
the Ontario Institute for Cancer Research
the Ontario Ministry for Research and Innovation
University of California (UC)-University of California (UC)
Universidad de Chile = University of Chile [Santiago] (UCHILE)
Universitat Pompeu Fabra [Barcelona] (UPF)
The Jackson Laboratory [Bar Harbor] (JAX)
The University of Tokyo (UTokyo)
Center for Bioinformatics [Peking]
Université de Rennes (UR)-Institut National des Sciences Appliquées - Rennes (INSA Rennes)
Institut National des Sciences Appliquées (INSA)-Institut National des Sciences Appliquées (INSA)-Institut National de Recherche en Informatique et en Automatique (Inria)-Centre National de la Recherche Scientifique (CNRS)-Université de Rennes (UR)-Institut National des Sciences Appliquées - Rennes (INSA Rennes)
Institut National des Sciences Appliquées (INSA)-Institut National des Sciences Appliquées (INSA)-Institut National de Recherche en Informatique et en Automatique (Inria)-Centre National de la Recherche Scientifique (CNRS)-Inria Rennes – Bretagne Atlantique
Université de Rennes (UR)-Institut National de la Santé et de la Recherche Médicale (INSERM)
International Potato Center [Lima] (CIP)
Consultative Group on International Agricultural Research [CGIAR] (CGIAR)
Université de Rennes (UNIV-RENNES)-Université de Rennes (UNIV-RENNES)-Institut National de la Santé et de la Recherche Médicale (INSERM)
Source :
Guberman, JM; Ai, J; Arnaiz, O; Baran, J; Blake, A; Baldock, R; et al.(2011). BioMart Central Portal: An open database network for the biological community. Database, 2011. doi: 10.1093/database/bar041. Lawrence Berkeley National Laboratory: Retrieved from: http://www.escholarship.org/uc/item/46g8h470, Database-The journal of Biological Databases and Curation, Database-The journal of Biological Databases and Curation, Oxford University Press, 2011, pp.bar041. ⟨10.1093/database/bar041⟩, Database : the journal of biological databases and curation, vol 2011, iss 0, Database-The journal of Biological Databases and Curation, 2011, pp.bar041. ⟨10.1093/database/bar041⟩, Guberman, J M, Ai, J, Arnaiz, O, Baran, J, Blake, A, Baldock, R, Chelala, C, Croft, D, Cros, A, Cutts, R J, Di Génova, A, Forbes, S, Fujisawa, T, Gadaleta, E, Goodstein, D M, Gundem, G, Haggarty, B, Haider, S, Hall, M, Harris, T, Haw, R, Hu, S, Hubbard, S, Hsu, J, Iyer, V, Jones, P, Katayama, T, Kinsella, R, Kong, L, Lawson, D, Liang, Y, Lopez-Bigas, N, Luo, J, Lush, M, Mason, J, Moreews, F, Ndegwa, N, Oakley, D, Perez-Llamas, C, Primig, M, Rivkin, E, Rosanoff, S, Shepherd, R, Simon, R, Skarnes, B, Smedley, D, Sperling, L, Spooner, W, Stevenson, P, Stone, K, Teague, J, Wang, J, Wang, J, Whitty, B, Wong, D T, Wong-Erasmus, M, Yao, L, Youens-Clark, K, Yung, C, Zhang, J & Kasprzyk, A 2011, ' BioMart Central Portal : an open database network for the biological community ', Database: The Journal of Biological Databases and Curation, vol. 2011, pp. bar041 . https://doi.org/10.1093/database/bar041, Database, 1-9. (2011), Recercat. Dipósit de la Recerca de Catalunya, instname, Database: The Journal of Biological Databases and Curation, Database, Artículos CONICYT, CONICYT Chile, instacron:CONICYT
Publication Year :
2011
Publisher :
eScholarship, University of California, 2011.

Abstract

International audience; BioMart Central Portal is a first of its kind, community-driven effort to provide unified access to dozens of biological databases spanning genomics, proteomics, model organisms, cancer data, ontology information and more. Anybody can contribute an independently maintained resource to the Central Portal, allowing it to be exposed to and shared with the research community, and linking it with the other resources in the portal. Users can take advantage of the common interface to quickly utilize different sources without learning a new system for each. The system also simplifies cross-database searches that might otherwise require several complicated steps. Several integrated tools streamline common tasks, such as converting between ID formats and retrieving sequences. The combination of a wide variety of databases, an easy-to-use interface, robust programmatic access and the array of tools make Central Portal a one-stop shop for biological data querying. Here, we describe the structure of Central Portal and show example queries to demonstrate its capabilities. Database URL: http://central.biomart.org.

Details

Language :
English
ISSN :
17580463
Database :
OpenAIRE
Journal :
Guberman, JM; Ai, J; Arnaiz, O; Baran, J; Blake, A; Baldock, R; et al.(2011). BioMart Central Portal: An open database network for the biological community. Database, 2011. doi: 10.1093/database/bar041. Lawrence Berkeley National Laboratory: Retrieved from: http://www.escholarship.org/uc/item/46g8h470, Database-The journal of Biological Databases and Curation, Database-The journal of Biological Databases and Curation, Oxford University Press, 2011, pp.bar041. ⟨10.1093/database/bar041⟩, Database : the journal of biological databases and curation, vol 2011, iss 0, Database-The journal of Biological Databases and Curation, 2011, pp.bar041. ⟨10.1093/database/bar041⟩, Guberman, J M, Ai, J, Arnaiz, O, Baran, J, Blake, A, Baldock, R, Chelala, C, Croft, D, Cros, A, Cutts, R J, Di Génova, A, Forbes, S, Fujisawa, T, Gadaleta, E, Goodstein, D M, Gundem, G, Haggarty, B, Haider, S, Hall, M, Harris, T, Haw, R, Hu, S, Hubbard, S, Hsu, J, Iyer, V, Jones, P, Katayama, T, Kinsella, R, Kong, L, Lawson, D, Liang, Y, Lopez-Bigas, N, Luo, J, Lush, M, Mason, J, Moreews, F, Ndegwa, N, Oakley, D, Perez-Llamas, C, Primig, M, Rivkin, E, Rosanoff, S, Shepherd, R, Simon, R, Skarnes, B, Smedley, D, Sperling, L, Spooner, W, Stevenson, P, Stone, K, Teague, J, Wang, J, Wang, J, Whitty, B, Wong, D T, Wong-Erasmus, M, Yao, L, Youens-Clark, K, Yung, C, Zhang, J & Kasprzyk, A 2011, ' BioMart Central Portal : an open database network for the biological community ', Database: The Journal of Biological Databases and Curation, vol. 2011, pp. bar041 . https://doi.org/10.1093/database/bar041, Database, 1-9. (2011), Recercat. Dipósit de la Recerca de Catalunya, instname, Database: The Journal of Biological Databases and Curation, Database, Artículos CONICYT, CONICYT Chile, instacron:CONICYT
Accession number :
edsair.doi.dedup.....6b98ec9bc036b09f91583392807c6ba1
Full Text :
https://doi.org/10.1093/database/bar041.