Re: [Gmod-schema] Interspecific genetic maps

[Sook J. <so...@gm...>]

Hi Ethy,

Our databases (GDR, CGD, CottonGen,etc) stores genetic maps from
interspecific crosses and we just use featuremap_organism table (which is
one of our custom tables that we recently submitted to Scott to be included
in the next version of Chdo). For the interspecific population stored in
stock table, we just use organism id for 'spp.' as species. 'spp.' is
commonly used for multispecies and 'sp.' is for single species (when exact
species not known)..

I think we need to do something to directly store interspecific crosses to
multiple species. We could create stock_organism table to store individual
species and then store .spp for stock.organism_id but it could be
confusing..

Cheers
Sook



On Wed, Mar 18, 2015 at 10:19 AM, Cannon, Ethalinda K [E CPE] <
ekc...@ia...> wrote:

>  Hello,
>
>
>  We are storing genetic maps at PeanutBase that are created from multiple
> species. Our favorite option at the moment is to attach the multiple
> species to the stock record for the mapping population via a
> new stock_organism linker table and leaving the field, stock.organism_id
> blank.
>
>
>  Alternatively, we have considered creating a genus-level organism record
> and using that for stock.organism_id (and potentially feature.organism_id,
> which is a required field), then attaching multiple species via our
> new stock_organism table.
>
>
>  Any better suggestions? Has anyone else out there had to deal with
> interspecific crosses?
>
>
>  Ethy
>
>
>
>
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