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

Jonathan M. Guberman 1 J. Ai 2 O. Arnaiz 3 Baran Joachim 1 Andrew Blake 4 Richard Baldock 5 Claude Chelala 6 David Croft 7 Anthony Cros 1 Rosalind J. Cutts 6 A. Di Génova 8 Simon Forbes 9 T. Fujisawa 10 E. Gadaleta 6 M. Goodstein D. 11, 12 Gunes Gundem 13 Bernard Haggarty 5 Syed Haider 14 Matthew D. Hall 15 Todd Harris 16 Robin Haw 1 S. Hu 2 Simon Hubbard 17 Jack Hsu 1 Vivek Iyer 18 Philip Jones 7 Toshiaki Katayama 19 R. Kinsella 7 Lei Kong 20 Daniel Lawson 7 Yong Liang 1 Núria López-Bigas 13 J. Luo 7 Michael Lush 7 Jeremy Mason 15 François Moreews 21, 22 Nelson Ndegwa 7 Darren Oakley 18 Christian Perez-Llamas 13 Michael Primig 23 Elena Rivkin 1 S. Rosanoff 7 Rebecca Shepherd 9 Reinhard Simon 24 B. Skarnes 18 Damian Smedley 7 Linda Sperling 3 William Spooner 16, 25 Peter Stevenson 5 Kevin Stone 15 J. Teague 9 Jun Wang 20 Jianxin Wang 1 Brett Whitty 1 T. Wong D. 2 Marie Wong-Erasmus 1 L. Yao 1 Ken Youens-Clark 16 Christina Yung 1 Junjun Zhang 1 Arek Kasprzyk 1, * 
Abstract : 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:
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Jonathan M. Guberman, J. Ai, O. Arnaiz, Baran Joachim, Andrew Blake, et al.. BioMart Central Portal: an open database network for the biological community. Database - The journal of Biological Databases and Curation, 2011, pp.bar041. ⟨10.1093/database/bar041⟩. ⟨inria-00638749⟩



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