[LSG-RG] [LSG-RG @ OGF] February 2008 Proteomics Meeting

Mon Oct 29 09:52:51 CDT 2007

All,

I'd like to echo all of these concerns and questions.  For the end-users
and software/system developers in proteomics, what are the pain points?
What are the current best practices?  What can OGF do from a
technology/standards point of view?  What can we do from a community-building
point of view?  Can the proteomics community articulate (in some way, shape,
or form) a technology roadmap for where they think the field needs to go
in the not-so-distant future?

--Craig

At 05:41 AM 10/29/2007, Richard Sinnott wrote:
>I know lots of people involved in high throughput proteomics, indeed
>Glasgow University has recently had a major centre funded specifically
>in this area. See http://www.gla.ac.uk/rasor/
>
>My point is that having a talk from these people will not help OGF/OGSA
>directly for the reasons I identify below. LSG-RG has to start asking
>questions of the WG's and OGSA efforts in concrete/measurable terms that
>someone in OGSA-BES, JSDL, DAIS, authZ etc etc can understand.
>
>Does the DAIS spec allow me to manage mass spec data? Does it provide
>the security hooks I need? Does JSDL, OGSA-BES provide sufficient
>support for me to process my mass spec data on a range of HPC clusters?
>If not, why not... etc etc
>
>Otherwise we end up with the LSG-RG having no impact whatsoever on the
>rest of the OGF/OGSA efforts - which is ~the case right now. (I struggle
>to see any concrete examples that LSG-RG has thrown at the other groups
>to enhance the OGSA standards - other than the SAML authZ api and lack
>of parameters which we identified a couple of years ago in BRIDGES).
>
>R.
>
>
>
>-----Original Message-----
>From: Angulo, David [mailto:dangulo at cti.depaul.edu]
>Sent: 29 October 2007 13:17
>To: Richard Sinnott; lsg-rg at gridforum.org
>Subject: RE: [LSG-RG] [LSG-RG @ OGF] February 2008 Proteomics Meeting
>
>Thanks, Richard, for your comments.  You are correct, our purpose is to
>present proteomics / Life Sciences requirements to OGF at large (and
>particular OGF research groups or working groups).  To do that, we must
>learn what those requirements are by listening to the experts in the
>area of high throughput proteomics.  If you know of any potential
>speakers that have already developed these requirements, we would be
>very happy to have you present their names for consideration; however, I
>assume that our group will need to do this work ourselves.
>
>Dave
>
>David Sigfredo Angulo
>Faculty
>DePaul University
>312-362-5041  dangulo at cti.depaul.edu
>
> > -----Original Message-----
> > From: Richard Sinnott [mailto:r.sinnott at nesc.gla.ac.uk]
> > Sent: Monday, October 29, 2007 4:16 AM
> > To: Angulo, David; lsg-rg at gridforum.org
> > Subject: RE: [LSG-RG] [LSG-RG @ OGF] February 2008 Proteomics Meeting
> >
> > If we are planning/discussing these via email, then can I suggest that
>
> > the talks are applications of OGF specs/implementations applied to the
>
> > proteomics/mass spec domain. Otherwise, and being my usual being
> > devils advocate, what is the point of having these presentations at
> > OGF and not somewhere else?
> >
> > The LSG-RG SHOULD be about informing OGF and hence OGSA standards
> > (what works and what doesn't etc). It should NOT be about life
> > sciences more generally - there are many conferences out there for
> > that.
> >
> > If nobody is using the OGF specs / implementations in proteomics-land
> > right now (which would not altogether surprise me), then another
> > alternative is to have someone present their proteomics requirements
> > and have OGF/OGSA area directors/WG leaders come in and discuss how
> > their various efforts meet those requirements. I feel that the results
>
> > of this would be much more use to OGF/OGSA as a whole.
> >
> > Thoughts? Flames? ...
> >
> > Rich
> >
> >
> >
> >
> > -----Original Message-----
> > From: lsg-rg-bounces at ogf.org [mailto:lsg-rg-bounces at ogf.org] On Behalf
>
> > Of Angulo, David
> > Sent: 28 October 2007 23:40
> > To: lsg-rg at gridforum.org
> > Subject: [LSG-RG] [LSG-RG @ OGF] February 2008 Proteomics Meeting
> >
> >
> > Dear all:
> >
> > I would like to apologize for the previous message sent without a
> > proper introduction.  My private e-mail message was forwarded to the
> > list without my permission, but hopefully it didn't confuse anyone.
> >
> > This is an e-mail message regarding the Life Science Grid Research
> > Group
> > (LSG-RG) in the Open Grid Forum (OGF), formerly the Global Grid Forum
> > (GGF).
> >
> > I will give a background of this group at the end of this message.
> > First, though, let me state the purpose of this message.
> >
> > Our group has been extremely active since 2002, but the visibility of
> > our activities has waned.  One suggestion, which we believe is quite
> > on target, was to plan future meetings through our e-mail list
> > (through which you are receiving this message).
> >
> > I would like to start out such an effort by asking for input in
> > planning our next meeting, which will be help in February
> > 2008 in Boston.  At the meeting in Seattle last week, the attendees
> > were extremely interested in the proteomics presentations, and the
> > group decided that we would solicit proteomics experts to speak at the
>
> > next meeting.
> >
> > Thus, I would like to extend a call for presentations in proteomics.
> > We would like to specifically look for proteomic mass spectrometry
> > presentations, but all will be considered.
> > I would like the membership of this e-mail list to help us in the
> > solicitation of speakers, and would like to solicit your input into
> > what topics and/or speakers we should pursue.
> >
> > I'm looking forward to input from all.
> >
> > =================
> > The LSG-RG (Life Science Grid Research Group) is a group in OGF (Open
> > Grid Forum) which was formed with the purpose of developing best
> > practices in the area of the Life Sciences in the intersection with
> > Grid Computing.  The group also serves the purpose of interfacing with
>
> > the other group in OGF and ensuring that all standards created by OGF
> > take into account the requirements of applications in the Life
> > Sciences.
> >
> > To Subscribe to the LSG-RG mailing list or to see archives messages,
> > please visit:
> >     http://www.ogf.org/mailman/listinfo/lsg-rg
> > To see minutes of past LSG-RG meetings and to see other documents
> > about the group, please visit:
> >     http://www.ogf.org/gf/group_info/view.php?group=lsg-rg
> > For more information about OGF, including details on the next message,
>
> > please visit:
> >     http://www.ogf.org
> > ===========
> >
> > David Sigfredo Angulo
> > Faculty
> > DePaul University
> > 312-362-5041  dangulo at cti.depaul.edu
> > --
> >   lsg-rg mailing list
> >   lsg-rg at ogf.org
> >   http://www.ogf.org/mailman/listinfo/lsg-rg
> >
>--
>   lsg-rg mailing list
>   lsg-rg at ogf.org
>   http://www.ogf.org/mailman/listinfo/lsg-rg