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Re: Expression RDF note

From: Michel Dumontier <michel.dumontier@gmail.com>
Date: Tue, 11 Sep 2012 01:48:14 +0900
Message-ID: <CALcEXf4Sm1b0rKigA=m9KwLRGdq2k=G7RsRvtF4Qut3viMRBBw@mail.gmail.com>
To: "Lin MD, Simon" <LINMD.SIMON@mcrf.mfldclin.edu>
Cc: "ilpuccio.febo@gmail.com" <ilpuccio.febo@gmail.com>, Helena Deus <helenadeus@gmail.com>, "expressionrdf@googlegroups.com" <expressionrdf@googlegroups.com>, Michael Miller <Michael.Miller@systemsbiology.org>, HCLS <public-semweb-lifesci@w3.org>, "chisato-yamasaki@aist.go.jp" <chisato-yamasaki@aist.go.jp>
Lin et al, expanding the scope to genomic profiling is an excellent and
most welcome idea :)

Scott - ok, then let's plan asia-europe and europe-americas calls.

m.

On Tue, Sep 11, 2012 at 1:37 AM, Lin MD, Simon <
LINMD.SIMON@mcrf.mfldclin.edu> wrote:

>  In light of NGS, shall we call it “genome profiling” to expand the work
> from ‘gene expression’? “genome profiling” can also include the work of SNP
> identification etc. -Simon****
>
> ** **
>
> *From:* Ra [mailto:ilpuccio.febo@gmail.com]
> *Sent:* Monday, September 10, 2012 11:35 AM
> *To:* Helena Deus
> *Cc:* Michel Dumontier; expressionrdf@googlegroups.com; Michael Miller;
> HCLS; chisato-yamasaki@aist.go.jp; Lin MD, Simon
> *Subject:* Re: Expression RDF note****
>
> ** **
>
> I can provide support for ngs. Currently I'm working on RnaSeq  and our
> lab start from raw samples so I have the chance, I'm sure you too,  to have
> an overview of the compete production of the data. To better understand my
> topics the page of the lab
> http://www.ingm.org/research/researchprojects/ib if you have any question
> please feel free to drop an email.
> I also worked on bacteria assembly SNP and ancient DNA. Chip seq is in
> plan. ** **
>
> Il giorno 10/set/2012 18:24, "Helena Deus" <helenadeus@gmail.com> ha
> scritto:****
>
> All, ****
>
> ** **
>
> we discussed, at some point, that NGS data should be supported by the
> note. ****
>
> ** **
>
> should we call it transcriptomic representation note instead? both the
> term "gene expression" and the note itself are still associated with
> microarrays, a completelly different strategy from NGS. but both are
> related to transcriptomics.****
>
> ** **
>
> Best****
>
> Lena****
>
> ** **
>
> ** **
>
> Helena F. Deus, PhD****
>
> Unit Leader, Bioinformatics and Computational Biology****
>
> Digital Enterprise Research Institute****
>
> helena.deus@deri.org****
>
> +353 91 495 270****
>
> ** **
>
> On Sep 10, 2012, at 5:13 PM, Lin MD, Simon wrote:****
>
>
>
> ****
>
> The W3C gene expression note is also of interest to me. I would be happy
> to contribute a use case of Gene Screening from Next Generation Sequencing.
> What is the time line of this project? I might not be able to work on it
> much till the end of Sept. With regard to meetings, I am open and flexible.
> Thanks! -Simon****
>
>  ****
>
> ==================================================****
>
> Simon Lin, MD | Director, Biomedical Informatics Research Center |
> Marshfield Clinic Research Foundation | 1000 N Oak Ave, Marshfield, WI
> 54449 | 715-221-7299 | Lin.Simon@mcrf.mfldclin.edu |
> www.marshfieldclinic.org/birc****
>
>  ****
>
> For scheduling assistance, please contact Crystal Gumz, Administrative
> Secretary | 715-221-6403 |gumz.crystal@mcrf.mfldclin.edu ****
>
>  ****
>
>  ****
>
>  ****
>
> *From:* Michel Dumontier [mailto:michel.dumontier@gmail.com]
> *Sent:* Monday, September 10, 2012 10:56 AM
> *To:* Michael Miller
> *Cc:* HCLS; expressionrdf@googlegroups.com; ilpuccio.febo@gmail.com;
> chisato-yamasaki@aist.go.jp
> *Subject:* Expression RDF note****
>
>  ****
>
> Hi,****
>
>  While I was at a very productive BioHackathon, Raoul and Chisato (cc'd)
> expressed interest in the W3C gene expression note. ****
>
>  ****
>
>
> https://docs.google.com/document/d/1A5-3tOsifPWPpETBKU-ZA9d7O7wK_nBzTFUBEe-0Bzo/edit?authkey=CK-y8Y8C&authkey=CK-y8Y8C
> ****
>
>  ****
>
> I'm now teaching every Monday between 10am and 11:30am EDT, so I would
> prefer that the time be changed for me to participate. However, with
> participants in North America, Europe and Japan, our scheduling may become
> significantly more challenging.  Suggestions?****
>
>  ****
>
> m.
>
> --****
>
> Michel Dumontier****
>
> Associate Professor of Bioinformatics, Carleton University****
>
> Chair, W3C Semantic Web for Health Care and the Life Sciences Interest
> Group****
>
> http://dumontierlab.com****
>
>  ****
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>   ------------------------------
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>



-- 
Michel Dumontier
Associate Professor of Bioinformatics, Carleton University
Chair, W3C Semantic Web for Health Care and the Life Sciences Interest Group
http://dumontierlab.com
Received on Monday, 10 September 2012 16:49:03 GMT

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