W3C home > Mailing lists > Public > public-semweb-lifesci@w3.org > December 2009

Re: BioRDF Telcon

From: Kei Cheung <kei.cheung@yale.edu>
Date: Tue, 01 Dec 2009 22:20:47 -0500
Message-ID: <4B15DD0F.7000609@yale.edu>
To: Satya Sahoo <sahoo.2@wright.edu>
CC: mdmiller <mdmiller53@comcast.net>, Helena Deus <helenadeus@gmail.com>, HCLS <public-semweb-lifesci@w3.org>, "Eric Prud'hommeaux" <eric@w3.org>
Hi Satya,

I think Eric (cc'ed) can grant you edit right to the page(s) you want to 
edit. Please check with him.

Best,

-Kei

Satya Sahoo wrote:

> Hi all,
> michael wrote:
> > what is usually missing from those documents, along with the 
> final gene list, is how that gene list was obtained, what higher 
> level analysis was used, that is generally only in the paper 
> unfortunately.
> Could you list some specific terms that describe "how gene list was 
> obtained" and "higher level of analysis"? - we can include these 
> in the list of provenance terms I am compiling to describe the 
> experiment context. An initial list of provenance terms from a MAGE-ML 
> file [1] is located at [2].
>  
> lena: I am trying to get edit rights for the wiki pages (I believe my 
> username "SatyaSahoo" needs to be added to a list according to the new 
> W3C wiki policy). I will send out an update and link once I get access.
>  
> Best,
> satya
>  
> Kno.e.sis center, WSU
> http://knoesis.wright.edu/researchers/satya
>  
> [1] http://np2.ctrl.ucla.edu/np2/mage/mageml.jsp
> [2]  
> http://esw.w3.org/topic/HCLSIG_BioRDF_Subgroup/QueryFederation2?action=AttachFile&do=get&target=NeuroscienceMicroarrayConsortium_ProvenanceTerms.txt 
> <http://esw.w3.org/topic/HCLSIG_BioRDF_Subgroup/QueryFederation2?action=AttachFile&do=get&target=NeuroscienceMicroarrayConsortium_ProvenanceTerms.txt>
>  
>  
>
> > On Tue, Nov 24, 2009 at 9:59 AM, mdmiller 
> <mdmiller53@comcast.net <mailto:mdmiller53@comcast.net> wrote:
>  >
>  >     hi all,
>  >
>  >     (from the minutes)
>  >
>  >     "Yolanda/Kei/Scott: semantic annotation/description 
> of workflow
>  >     would enable the retrieval of data relevant to that 
> workflow (i.e..
>  >     data that could be used to populate that workflow for 
> a different
>  >     experimental scenario)"
>  >
>  >     what is typically in a MAGE-TAB/MAGE-ML document are 
> the protocols
>  >     for how the source was processed into the extract 
> then how the
>  >     hybridization, feature extraction, error and 
> normalization were
>  >     performed.  these are interesting and different 
> protocols can
>  >     cause differences at this level but it is pretty much 
> a known art
>  >     and usually not of too much interest or variability.
>  >
>  >     what is usually missing from those documents, along 
> with the final
>  >     gene list, is how that gene list was obtained, what 
> higher level
>  >     analysis was used, that is generally only in the 
> paper unfortunately.
>  >
>  >     cheers,
>  >     michael
>  >     .
> > >     ----- Original Message ----- From: "Kei Cheung"
> > >
> > >     <kei.cheung@yale.edu <mailto:kei.cheung@yale.edu>>
> > >     To: "HCLS" <public-semweb-lifesci@w3.org
> > >
> > >     <mailto:public-semweb-lifesci@w3.org>>
> > >     Sent: Monday, November 23, 2009 1:27 PM
> > >     Subject: Re: BioRDF Telcon
> > >
> > >
> > >
> > >         Today's BioRDF minutes are available at the following:
> > >
> > >       
> > 
>  http://esw.w3.org/topic/HCLSIG_BioRDF_Subgroup/Meetings/2009/11-23_Conference_Call
> > >
> > >         Thanks to Rob for scribing.
> > >
> > >         Cheers,
> > >
> > >         -Kei
> > >
> > >         Kei Cheung wrote:
> > >
> > >             This is a reminder that the next BioRDF
> > telcon call will
> > >             be held at 11 am EDT (5 pm CET) on Monday,
> > November 23
> > >             (see details below).
> > >
> > >             Cheers,
> > >
> > >             -Kei
> > >
> > >             == Conference Details ==
> > >             * Date of Call: Monday November 23, 2009
> > >             * Time of Call: 11:00 am Eastern Time
> > >             * Dial-In #: +1.617.761.6200 (Cambridge, MA)
> > >             * Dial-In #: +33.4.89.06.34.99 (Nice, France)
> > >             * Dial-In #: +44.117.370.6152 (Bristol, UK)
> > >             * Participant Access Code: 4257 ("HCLS")
> > >
> > >             * IRC Channel: irc.w3.org
> > <http://irc.w3.org> port 6665
> > >             channel #
> > >
Received on Wednesday, 2 December 2009 03:21:20 UTC

This archive was generated by hypermail 2.3.1 : Wednesday, 7 January 2015 14:52:42 UTC