The BioBricks Foundation:Standards/Technical/Exchange

Synthetic Biology Data Exchange

This working group is developing standards and technologies for the description of standard biological parts and the exchange (or networking) of part-related data.

Contact and Participate

Synthetic Biology Data Exchange Group

Meetings

We keep track of our meetings here: http://www.sbolstandard.org/team/meetings

Synthetic Biology Open Language (SBOL)

SBOL Website: http://www.sbolstandard.org/

SBOL is designed to:

• Allow synthetic biologists and genetic engineers to electronically exchange designs.
• Send and receive genetic designs to and from biofabrication centers.
• Facilitate storage of genetic designs in repositories.
• Embed genetic designs in publications.

Read more about SBOL in the introduction

Find the technical details on the specification page

Development History

2010 May -

• The SBOL project moved to its own website http://www.sbolstandard.org

2009 December - 2010 April

• Galdzicki, M., Rodriguez, C., Chandran, D., Gennari, J.H., and Sauro, H.M. A Semantic Knowledge Base of Standard Biological Parts. International Workshop on Bio-Design and Automation 2010, Anaheim, CA pg 30

2009 August - November

We have divided the working group into sub-topics, each with their own "Nurturer".

• Application Scenarios -- Deepak Chandran
• Synthetic Biology Open Language (SBOL)
  • Core Data Model -- Raik Gruenberg
  • SBOL Script -- Doug Densmore
    • Eugene (1st pass at a human readable script)
    • Spectacles (visualization environment using SBOL Visual symbols)
  • SBOL Visual - Cesar Rodriguez and Suzie Bartram
  • SBOL Semantic -- Michal Galdzicki
• Data exchange API (programming interfaces) -- Become a Nurturer!

Further Suggestions:

• Part Sequence Annotation -- Tim?

2009 June - July

• July 27, 2009 Galdzicki, M., Chandran, D., Sauro, H.M, Cook, D., and Gennari, J. Bridging Synthetic Biology Models and Experiments using PoBoL. International Workshop on Bio-Design and Automation 2009, San Francisco, CA
• July 26, 2009 Synthetic Biology Data Exchange Working Group Meeting Stanford, CA 2009

2008 Feb - 2009 May

• PoBol: Provisional BioBrick™ Language
  • Final RFC document submited "Provisional BioBrick™ Language (PoBoL)" BBF RFC 31 (2009-05-15)
• Draft of an RDF-based framework for the exchange and integration of Synthetic Biology data. BBF RFC 30 (2009-04-24)
• April 26, 2008 Standards and Specifications in Synthetic Biology Workshop Seattle, WA 2008

The document describing the the first round of discussions (February - April) can be found here:

• Old Discussion