BioMart - Data Integration and Interoperability
BioMart is a data-management and integration system for large scale biological data.
Project page: http://www.biomart.org
Team
- Arek Kasprzyk
- Syed Haider
Goals
- To collaborate with data visualisation & workflow system writers towards better integration of BioMart resources over the web services.
Summary
- Collaborated with Galaxy, GBrowse (2 way communication) and Cytoscape developers for an improved BioMart Client to access BioMart databases using BioMart web services.
- Hands-on session on how to use BioMart and which databases are available on BioMart Central Portal http://www.biomart.org/biomart/martview
For details, see the use cases featuring BioMart:
Hands-on
Room
- Chura Hall (3F)
Attendees
- James Taylor
- Tobias Gattermayer
- Raoul Bonnal
- Mitsuteru Nakao
- Takashi Hatakeyama
- Atsuko Yamaguchi
- Kozo Nishida
- Hong-woo Chun
- Yasunori Yamamoto
- Todd Harris
- Shin Kawano
- Takatomo Fujisawa
- Yunsun Nam
Notes
- have to know dataset, filter, attribute
- can use Perl API, URL Access, Web service access (REST as well as SOAP)
- DAS access
- can set up in-house server and federate your data with publicly available databases such as: http://www.biomart.org/biomart/martview
