[Bioperl-l] What's that number?

[Andrew Walsh]

There had been work done on something like that for seq retrievals- 
Bio::DB::Universal.  It probably still wouldn't help with the ambiguous 
identifiers though.

Andrew



Peter Wilkinson wrote:
> Well it would be nice if there existed some type of global namespace 
> management for that sort of thing, however there is none.
> 
> I am afraid that we will have to put up with the mountainous clutter of 
> sequences and annotations.
> 
> Now if someone wants to start some type of public registry for defining 
> theses namespaces .... which would not be such a bad idea if one could 
> prove how it would help the community. GO is an attempt for function, 
> and HUGO for gene names ... no reason not to do it for namespaces 
> (databasenamespaces ;) ).
> 
> Peter
> 
> p.s. perhaps a big pair of billy boots is good enough to wade through it 
> all.
> 
> 
> 
> 
> 
> At 09:01 PM 23/10/2003 +0100, michael wrote:
> 
> 
>>         Is there any code out there that can make an educated guess to 
>> the
>> origin of any given (biological) ID/accession number?
>>
>>         X93993 AJ010957 are both valid EMBL accession numbers, P47202
>> looks similar but is from swissprot (a bit of digging reveals the
>> swissprot patten as /[OPQ]\d[A-Z\d][A-Z\d][A-Z\d]\d/ ).  Failing code is
>> there a biological name space document out there?
>>
>>         I'm writing a public gene symbol submission form and want it 
>> to do
>> the right thing regardless of where the data is pasted in.
>>
>> ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
>> Michael John Lush PhD                   Tel:44-20-7679-5027
>> Nomenclature Bioinformatics Support     Fax:44-20-7387-3496
>> HUGO Gene Nomenclature Committee Email:  nome at galton.ucl.ac.uk
>> The Galton Laboratory
>> University College London, UK
>> URL: http://www.gene.ucl.ac.uk/nomenclature/
>> ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
>>
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> 
> 
> 
> -------------------------------------
> Peter Wilkinson
> Bioinformatics Consultant
> 
> ------------------------------------- 
> 
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> 


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