[DAS] DAS and bacterial genomes

Adam Witney awitney at sgul.ac.uk
Wed Aug 18 10:02:44 UTC 2010

>> Yes I am aware of the some of the idiosyncrasies of the Ensembl Genomes naming conventions. But is there a reason that the DAS registry should be constrained by Ensembl Genomes? Could the Registry entry refer to a specific taxonomy iD and its corresponding entry in EG, despite EG using a different taxonomy ID?
>> I'd like to be able to export our microarray designs and data via DAS for others to use (including EnsemblBacteria). This if for 16 or so species with multiple strains thereof.
> Just to say that I think we should get this as straight as we can; just to
> state the obvious - EG is not trying to be deliberately complex here, it is
> just that the concept of "one taxid == one species == one assembly series" just
> breaks down in bacteria.

Could it be treated as "one taxid == one strain == one assembly"?

> I've brought in the three key people here on the EG side - Eugene (does the web
> side of this); Dan (main data production manager) and Paul Kersey (the EG PI) -
> some of them are on holiday now, but I suggest perhaps setting up a phone
> conference (and/or Adam could you come for a visit?) to get this as straight as
> we can - I suspect there will both be short term fixes and more longer term
> infrastructural fixes here.

I'm happy to help any way I can. I am registered on the Ensembl developers workshop next month so could chat to you guys then?



More information about the DAS mailing list