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Re: [BioRDF] Comments from Christoph Grabmuller on BioRDF microarray provenance

From: mdmiller <mdmiller53@comcast.net>
Date: Wed, 10 Nov 2010 07:35:11 -0800
Message-ID: <2BECC040D6C04D17A53B573710F9C907@mmPC>
To: "Helen Parkinson" <parkinson@ebi.ac.uk>, "Christoph Grabmuller" <grabmuel@ebi.ac.uk>
Cc: "HCLS" <public-semweb-lifesci@w3.org>
hi all,

thanks, helen, hopefully my project will provide some usage insight into how 
consistent this cross-referencing actually is.

cheers,
michael

----- Original Message ----- 
From: "Helen Parkinson" <parkinson@ebi.ac.uk>
To: "Christoph Grabmuller" <grabmuel@ebi.ac.uk>
Cc: "mdmiller" <mdmiller53@comcast.net>; "HCLS" 
<public-semweb-lifesci@w3.org>; "Ravi Shankar" <rshankar@stanford.edu>
Sent: Wednesday, November 10, 2010 4:21 AM
Subject: Re: [BioRDF] Comments from Christoph Grabmuller on BioRDF 
microarray provenance


> Interesting question and one we've been discussing in other contexts. HGNC 
> is only valid for human genes of course, and not all species have this 
> type of sign off on ids. I would use an Ensembl id, from there you can get 
> other id cross references
>
> best
>
> Helen
>
> On 10/11/2010 10:24, Christoph Grabmuller wrote:
>> On Tue, Nov 9, 2010 at 4:45 PM, mdmiller<mdmiller53@comcast.net>  wrote:
>>> this i've seen as more a de facto best practice than anything for
>>> identifying a sequence (but i'm not sure what you mean by a standard 
>>> input
>>> format).
>> I meant: what are valid and/or (minimally) required ways to refer to a
>> gene? Is it enough to just give the HGNC symbol? Could I instead just
>> use entrez or ensembl ids?
>>
>> C
>
> -- 
> Helen Parkinson, PhD
> Team Leader
> Functional Genomics Group
> EBI
>
> EBI 01223 494672
> Skype: helen.parkinson.ebi
>
> 
Received on Wednesday, 10 November 2010 15:35:45 GMT

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