View source for BioMart

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<center>{{#icon: Biomart250.png|BioMart||http://www.biomart.org/}}</center>


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[http://www.biomart.org/ BioMart] is a robust, query-oriented data integration system, based on distributed data warehousing ideas. The system can be applied to a single or multiple databases. It supports scalable large scale querying of individual databases as well as query-chaining between them. All datasources in the system comply with the BioMart data model - a simple, query optimised database schema. The system consists of database schema specification, administration tools for deploying and configuring mart-spec databases and data access software, which includes web and standalone interfaces.


==Demo & Screenshots==

The BioMart web interface at OICR can be found [http://www.biomart.org/biomart/martview here]. For Ensembl implemetation look [http://www.ensembl.org/biomart/martview here]. The screenshots of standalone interfaces and admin tools can be found [http://www.biomart.org/user-docs.pdf here]


==Requirements==

The requirements will differ dependent on which part of the BioMart suite you want to install. For more details look http://www.biomart.org/install-overview.html


==Documentation==

* [http://www.biomart.org/install.html BioMart Documentation]
* [[BioMart Tutorial]]

=== How to Load a [[Chado]] Database into BioMart ===

A detailed document on how to load a [[Chado]] database into BioMart was written by Aminah Olivia KELIET, Joëlle Amselem, Sandra DEROZIE, and Delphine Steinbach, all of [http://www.urgi.versailles.inra.fr INRA URGI].  This document is available in [[Media:How to load chado to biomart.pdf|PDF]] and [[Media:How to load chado to biomart.doc|Microsoft Word]] formats.

Contact: Aminah Olivia KELIET <[mailto:aminah-olivia.keliet@versailles.inra.fr aminah-olivia.keliet@versailles.inra.fr]> if you have specific questions.

''Note: the eventual plan is to wikify this document.''

=== Presentations ===

* [[:Image:Jan2009BioMart.pdf|BioMart]], by Arek Kasprzyk at the [[January 2009 GMOD Meeting#BioMart|January 2009 GMOD Meeting]].
* [[:Image:Kasprzyk-050516.ppt‎|BioMart and Chado]], by Arek Kasprzyk at [[May 2005 GMOD Meeting]].
* [[:Image:Kasprzyk_040526.ppt‎|BioMart: A Federated Query Architecture]], by Arek Kasprzyk at the [[April 2004 GMOD Meeting]].

== Mailing Lists ==

{{MailingListsFor|BioMart}}

==Downloads==

The download/installation instructions can be found http://www.biomart.org/install-overview.html

[[Category:BioMart]]
[[Category:Database Tools]]
[[Category:GMOD Components]]
Available on platform	linux +, unix +, os x +, windows + and web +
Has URL	http://www.biomart.org/download.html +, http://www.biomart.org/ + and http://www.biomart.org/community.html +
Has description	Links to BioMart installations in the wild + and BioMart is a freely available, open source … BioMart is a freely available, open source, federated database system that provides unified access to disparate, geographically distributed data sources. It is designed to be data agnostic and platform independent, such that existing databases can easily be incorporated into the BioMart framework.e incorporated into the BioMart framework. +
Has development status	active +
Has input format	Any data that can be stored in the relational database +
Has licence	LGPL +
Has logo	Biomart250.png +
Has output format	APIs: REST/SOAP +, JAVA + and SPARQL +
Has software maturity status	mature +
Has support status	active +
Has title	BioMart user community +
Has topic	BioMart +
Interaction type	provides data for +
Interactor	BioMart +
Interacts with	GBrowse +
Is open source	Yes +
Link type	download +, website + and wild URL +
Release date	1 January 2001 +
Tool functionality or classification	Community Annotation +, Database schema +, Database tools +, Genome Annotation +, Middleware +, Tool Integration + and Data federation software +
Has subobjectThis property is a special property in this wiki.	BioMart#http://www.biomart.org/download.html +, BioMart#http://www.biomart.org/ +, BioMart#http://www.biomart.org/community.html + and BioMart +