[Gramene] Re: TAIR9 vs TAIR10 - mixup on naming, was: RE: Old versions?

[Jonathan Warren]

Thanks for clarifying this Anne

"_" between the authority and version number is a DAS coordinate  
convention, so for us that would stay the same.
This works ok for DAS as long as the clients people are using to  
access the Data allow people to attach DAS tracks to a different  
coodinate system.
It also relies on people knowing the difference between the two (or in  
this case lack of difference for the majority of mappings).

It maybe a good idea to have a mapping/pseudonym table and  
descriptions for coordinate systems in the DAS registry. This will  
still rely on people "in the know" putting data into these tables  
though. I've avoided pseudonyms as I think it makes things more  
complicated.

We are hoping to have the problem solved by the GCA accessions. http://www.ncbi.nlm.nih.gov/projects/genome/assembly/model.shtml

On 1 Jul 2011, at 12:59, Ann Loraine wrote:

> Hi,
>
> I have an answer.
>
> I corresponded with curators at TAIR.
>
> They would like the name of the genome release to be:
>
> TAIR10
>
> Note the letters are all caps and there is no space or underscore  
> separating
> the number and the R.
>
> Quoting Eva Huala, PI of TAIR:
>
> "I prefer to keep using TAIR10 for both the assembly and annotation  
> although
> no changes were made to the assembly for this release."
>
> Sincerely,
>
> Ann Loraine
>
>
> On 7/1/11 5:58 AM, "Dan Staines" <dstaines at ebi.ac.uk> wrote:
>
>> Any news on this? As I've said, I'm happy to make a change, but the
>> window for doing so in the next release is closing rapidly!
>>
>> Many thanks,
>>
>> Dan.
>>
>> On 06/30/2011 02:48 PM, Ann Loraine wrote:
>>> I contacted TAIR to get their input.
>>>
>>> Probably I can give you a final answer as to what name to use  
>>> later on
>>> today.
>>>
>>> Thanks for offering to make the change!
>
> -- 
> Ann Loraine
> Associate Professor
> Dept. of Bioinformatics and Genomics, UNCC
> North Carolina Research Campus
> 600 Laureate Way
> Kannapolis, NC 28081
> 704-250-5750 (office)
> http://www.transvar.org
>
>

Jonathan Warren
Senior Developer and DAS coordinator
blog: http://biodasman.wordpress.com/
jw12 at sanger.ac.uk
Ext: 2314
Telephone: 01223 492314










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