Re: [LSG-RG] [LSG-RG @ OGF] February 2008 Proteomics Meeting
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@cti.depaul.edu] Sent: 29 October 2007 13:17 To: Richard Sinnott; lsg-rg@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@cti.depaul.edu
-----Original Message----- From: Richard Sinnott [mailto:r.sinnott@nesc.gla.ac.uk] Sent: Monday, October 29, 2007 4:16 AM To: Angulo, David; lsg-rg@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@ogf.org [mailto:lsg-rg-bounces@ogf.org] On Behalf
Of Angulo, David Sent: 28 October 2007 23:40 To: lsg-rg@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@cti.depaul.edu -- lsg-rg mailing list lsg-rg@ogf.org http://www.ogf.org/mailman/listinfo/lsg-rg
-- lsg-rg mailing list lsg-rg@ogf.org http://www.ogf.org/mailman/listinfo/lsg-rg
Thanks, Craig. That is the purpose of this meeting. Please suggest speakers who can address the issues you raise. Dave David Sigfredo Angulo Faculty DePaul University 312-362-5041 dangulo@cti.depaul.edu
-----Original Message----- From: craig@rushg.aero.org [mailto:craig@rushg.aero.org] On Behalf Of Craig Lee Sent: Monday, October 29, 2007 8:53 AM To: Richard Sinnott; Angulo, David; lsg-rg@gridforum.org Cc: craig@rush.aero.org Subject: Re: [LSG-RG] [LSG-RG @ OGF] February 2008 Proteomics Meeting
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
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@cti.depaul.edu] Sent: 29 October 2007 13:17 To: Richard Sinnott; lsg-rg@gridforum.org Subject: RE: [LSG-RG] [LSG-RG @ OGF] February 2008 Proteomics Meeting
Thanks, Richard, for your comments. You are correct, our
present proteomics / Life Sciences requirements to OGF at large (and particular OGF research groups or working groups). To do
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@cti.depaul.edu
-----Original Message----- From: Richard Sinnott [mailto:r.sinnott@nesc.gla.ac.uk] Sent: Monday, October 29, 2007 4:16 AM To: Angulo, David; lsg-rg@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
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
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
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@ogf.org [mailto:lsg-rg-bounces@ogf.org] On Behalf
Of Angulo, David Sent: 28 October 2007 23:40 To: lsg-rg@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
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
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
At 05:41 AM 10/29/2007, Richard Sinnott wrote: purpose is to that, we must presentations at there for proteomics presentations, and the proteomics. 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@cti.depaul.edu -- lsg-rg mailing list lsg-rg@ogf.org http://www.ogf.org/mailman/listinfo/lsg-rg
-- lsg-rg mailing list lsg-rg@ogf.org http://www.ogf.org/mailman/listinfo/lsg-rg
participants (2)
-
Angulo, David -
Craig Lee