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[go-friends] question regarding gene_association files

Rama Balakrishnan ramab at stanford.edu
Mon May 20 11:49:19 PDT 2013


The IDs listed here seem like the UnReviewed Tremble IDs. Are all annotations to unreviewed IDs filtered out in the goa-human file?

Rama

On May 20, 2013, at 1:08 AM, Rachael Huntley wrote:

> Hi Iddo,
> 
> The UniProt file contains annotations for all proteins that have GO annotations in UniProtKB.
> The human file is a subset of these annotations based on the UniProt complete proteome for human and so has annotations to a reduced set of accessions. It is also filtered for redundant annotations.
> 
> Let me know if you have further questions.
> 
> Rachael.
> 
> 
> On 17/05/2013 20:33, Iddo Friedberg wrote:
>> 
>> I am looking at two files: Hi,
>> 
>> I am looking at two files: gene_association.goa_uniprot and gene_assocaition.goa_human
>> 
>> Apparently, there are some proteins in gene_association.goa_uniprot that are designated as human by the Taxon_ID field, yet do not appear in the goa_human file.
>> 
>> Can someone tell me why that is? Here are some examples:
>> 
>> A0A2G2                                       
>> A0A2G3                                      
>>  A0A2G4         
>>  A0A2G5                                       
>>  A0A2G6                                      
>>  A0A2G8            
>>  A0A2G9    
>>  A0A4R5                                
>>  A0A4Z1             
>>  A0A502   
>> A0A2G2
>> 
>> Thanks,
>> 
>> Iddo
>> 
>> -- 
>> Iddo Friedberg
>> http://iddo-friedberg.net/contact.html
>> ++++++++++[>+++>++++++>++++++++>++++++++++>+++++++++++<<<<<-]>>>>++++.>
>> ++++++..----.<<<<++++++++++++++++++++++++++++.-----------..>>>+.-----.
>> .>-.<<<<--.>>>++.>+++.<+++.----.-.<++++++++++++++++++.>+.>.<++.<<<+.>>
>> >>----.<--.>++++++.<<<<------------------------------------.
>> 
>> 
>> _______________________________________________
>> go-friends mailing list
>> go-friends at lists.stanford.edu
>> https://mailman.stanford.edu/mailman/listinfo/go-friends
> 
> 
> -- 
> Project Leader
> UniProt - Gene Ontology Annotation Project
> European Bioinformatics Institute
> Wellcome Trust Genome Campus
> Hinxton
> Cambridge, CB10 1SD
> UK
> 
> Email: huntley at ebi.ac.uk
> UniProt Gene Ontology Annotation Project: http://www.ebi.ac.uk/GOA
> http://twitter.com/emblebi
> 
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> go-friends at lists.stanford.edu
> https://mailman.stanford.edu/mailman/listinfo/go-friends

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