Saturday 24 July 2010

Parts Database

In order to form a synthetic cell, certain biological parts are required. I will research what these parts are and what their purpose is in a later post.

For now, I wanted to check out the 'Registry of Standard Biological Parts'. This is an online compendium of known biological parts and is a colloborative effort to index all such parts. Sara had shown me this website and for now, I was mainly concerned to see what sort of options were available for getting hold of the parts data.

It seems the ROSBP has set-up something called a 'DAS' - a Distributed Annotation System, described as being:

The distributed annotation system (DAS) is a client-server system in which a single client integrates information from multiple servers. It allows a single machine to gather up genome annotation information from multiple distant web sites, collate the information, and display it to the user in a single view. Little coordination is needed among the various information providers.

From initial inspection, the DAS can provide me with XML output of all the parts and specifics on each part. This would allow me to populate a Database of my own with Parts data, however it seems - and is noted on the website - that the data is sparse and a work in progress.

The following link provides the URLs for accessing the DAS: http://partsregistry.org/DAS_-_Distributed_Annotation_System

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