James Glazier, Indiana University: Towards a CBO (CBO Workshop 2009)

There is plenty of rain this week, but no-one seemed to have been washed away. After a round of introductions of the attendees, James Glazier gave a brief introduction to the goals of the workshop.

GO, OPB, SBML, CellML are examples of standards currently in the biological community. Why does the community he’s a part of feel that this is a necessary project? The understanding of tissue processes is still in its early stages, especially for tissue misbehaviour. The field is rapidly growing, and so by coming in early now, we can avoid later inconsistencies that can bedevil standards development. Further, the hope is that standards can help bootstrap development.

Personal note: Many people at this workshop seem to be talking about syntax / formats as standards, and ontologies as something else that is separate from these standards. Instead, it’s best to think of formats as just one type of standards, with ontologies being semantic standards and minimal checklists such as those listed in MIBBI as content standards. They all perform standardizing functions, and should be considered as standards. See a great post by Frank Gibson (and another post by Frank with slides) for more information.

Please note that this post is merely my notes on the presentation. They are not guaranteed to be correct, and unless explicitly stated are not my opinions. They do not reflect the opinions of my employers. Any errors you can happily assume to be mine and no-one else’s. I’m happy to correct any errors you may spot – just let me know!

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