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Re: Expression RDF note

From: Suzanna Lewis <suzi@berkeleybop.org>
Date: Sat, 15 Sep 2012 14:31:50 -0700
Cc: Michel Dumontier <michel.dumontier@gmail.com>, Michael Miller <Michael.Miller@systemsbiology.org>, HCLS <public-semweb-lifesci@w3.org>, "expressionrdf@googlegroups.com" <expressionrdf@googlegroups.com>, "ilpuccio.febo@gmail.com" <ilpuccio.febo@gmail.com>
Message-Id: <3BAB4C07-599E-42ED-8150-B481FDAE58B7@berkeleybop.org>
To: Chisato Yamasaki <chisato-yamasaki@aist.go.jp>
Perhaps the oldest use of 'gene expression' refers to in-situ imaging experiments of whole organisms, embryos, tissues, stages etc (pre-dates both chip and RNAseq experiments). In situs are still extremely common in the lab. And the name 'gene expression' for these is accurately descriptive. 

Will the note encompass these types of experiments as well?

On Sep 10, 2012, at 11:16 PM, Chisato Yamasaki <chisato-yamasaki@aist.go.jp> wrote:

> # I am sending the previous email again as I met some messages;
> Hi,
> I am working on human gene expression database, H-ANGEL.
> e.g.)
> http://www.h-invitational.jp/hinv/h-angel/wge_server.cgi?gpid=HIX0005064
> where we have rather classical gene expression data, such as micorarray, DNA
> chips, ESTs, BodyMaps, etc.
> We are planning to make this data into RDFs, and interested in to know what
> kind of and how to share the information with the other databases, so that I
> am intereted to join this discussion.
> 
> About the teleco, I am also a member of ISB bord which is also having
> international teleco from UK, US and Asia,
> and we had recent skype meeting at time below;
> 10pm Tokyo
> 2pm UK
> 3pm Europe
> 6am Bay Area, USA
> 
> For me it is OK to have meeting at 10 - 12pm, so we may set the teleco at
> those times.
> Looking forward to see you !!
> 
> Best regards,
> Chisato Yamasaki
> 
> Integrated Database and Systems Biology Team
> Biomedicinal Information Research Center (BIRC)
> National Institute of Advanced Industrial Science and Technology (AIST)
> 
> Waterfront Bio-IT Research Building, 2-4-7 Aomi,
> Koto-ku, Tokyo 135-0064, Japan.
> Tel: +81-3-3599-8800, Fax: +81-3-3599-8801
> E-mail: chisato-yamasaki@aist.go.jp
> Skype: jbirc_cyamasak
> Linkedin: http://www.linkedin.com/in/chisatoyamasaki
> H-InvDB: http://www.h-invitational.jp
> MEDALS: http://medals.jp/etop
> ==========================================
> ----- Original Message -----
> From: "Michel Dumontier" <michel.dumontier@gmail.com>
> To: "Michael Miller" <Michael.Miller@systemsbiology.org>
> Cc: "HCLS" <public-semweb-lifesci@w3.org>; <expressionrdf@googlegroups.com>;
> <ilpuccio.febo@gmail.com>; <chisato-yamasaki@aist.go.jp>
> Sent: Tuesday, September 11, 2012 12:56 AM
> 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
>> 
> 
Received on Saturday, 15 September 2012 21:32:22 GMT

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