[ensembl-dev] gene description

[Andy Yates]

Hi Yin,

%2C is an encoded comma which somehow has made it into the drosophila db Ensembl receives from Ensembl Genomes. If I was to take a guess at what has gone wrong I would assume these descriptions have come from a gff3 file which has not been correctly decoded.

We will chase this up & get back to you soon

Andy

Sent from my mobile.

On 15 May 2012, at 05:56, yin huang <abelhuangyin at gmail.com> wrote:

> Hi,all
> 
> I find these error basically appear in species 'Fruitfly' in ensembl release 67 download from ftp://ftp.ebi.ac.uk/pub/software/ensembl/EBeyeXML/ensembl/ .Hope to see as soon as possible to correct data.
> 
> I find the same error in gene description as follow:
> 
> homogentisate 1%2c2-dioxygenase
> absent%2c small%2c or homeotic discs 1
> jumonji%2c at rich interactive domain 2
> selenide%2cwater dikinase
> modifier of rpr and grim%2c ubiquitously expressed
> atp synthase%2c subunit b
> inositol 1%2c4%2c5-triphosphate kinase 1
> gdp-mannose 4%2c6-dehydratase
> gdp-4-keto-6-deoxy-d-mannose 3%2c5-epimerase/4-reductase
> atp synthase%2c subunit d
> scavenger receptor class c%2c type iii
> breast cancer 2%2c early onset homolog
> absent%2c small%2c or homeotic discs 2
> alpha1%2c6-fucosyltransferase
> scavenger receptor class c%2c type ii
> na%2ck-atpase interacting
> inositol 1%2c4%2c5-triphosphate kinase 2
> inositol 1%2c4%2c5%2c-tris-phosphate receptor
> fructose-1%2c6-bisphosphatase
> forkhead box%2c sub-group o
> scavenger receptor class c%2c type i
> scavenger receptor class c%2c type iv
> 
> 
> 2012/5/15 Javier Herrero <jherrero at ebi.ac.uk>
> Hi Yin
> 
> This seems to be an error: http://flybase.org/reports/FBgn0050169.html
> 
> I guess there is a problem with the parser, thank you for reporting this.
> 
> Javier
> 
> Sent from my Kindle Fire
> 
> 
> 
> From: yin huang <abelhuangyin at gmail.com>
> Sent: Tue May 15 04:54:03 GMT+01:00 2012
> To: dev at ensembl.org
> Subject: [ensembl-dev] gene description
> 
> Hi,all
>     I find that some gene description has char '%'。
>     follow url：
>     http://www.ensembl.org/Drosophila_melanogaster/Search/Details?species=Drosophila_melanogaster;idx=Gene;end=1;q=breast%20cancer%202%252c%20early%20onset%20homolog
> 
>     error or correct?
>     who can help me? Thank you very much.
> 
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