February 2006 - lsg-rg - lists.ogf.org

Call For Papers - ACM Crossroads Special Issue in Bioinformatics
by Angulo, David 28 Feb '06

28 Feb '06

Greetings, I am the guest editor of the ACM Crossroads special issue on Bioinformatics. ACM Crossroads is the largest and most popular college computing journal by and for computer science students, and sponsored by the premier computer science professional organization, the Association for Computing Machinery. We are looking for professional guest reviewers and editors from the academic community for this special issue on bioinformatics. If you have the time to spare to review 3-5 article submissions, please let us know. If you have a bit more time to help an accepted article through the editorial process, including content editing, that would also be greatly appreciated. In addition, we are calling for articles related to bioinformatics. We are hoping that you will pass this message along to any of your students who might be interested in submitting an article to Crossroads for this issue (both graduate and undergraduate students). Please also forward this on to your colleagues so that they can distribute it to their students. The "Call for Articles" is below... Thank you. If you have any questions, please don't hesitate to ask me or the Editor-in-Chief, Jerry Guo. Sincerely, David S. Angulo Faculty College of Computer Science, Telecommunications and Information Science DePaul University dangulo(a)cti.depaul.edu Jerry Guo Editor in Chief, ACM Crossroads Yale University ji.guo(a)yale.edu -- Call For Articles Crossroads, the Association for Computing Machinery Student Magazine Bioinformatics (Fall 2006) DUE DATE: 3 April 2006 SUBMISSION ADDRESS: http://www.acm.org/crossroads/submit/ INFORMATION: crossroads(a)acm.org http://www.acm.org/crossroads/doc/cfas/bio.html The Crossroads editorial staff invites authors to submit articles dealing with topics drawn from several areas pertaining to bioinformatics and computational biology. The following partial list of topics is provided to give prospective authors ideas for articles and is by no means exhaustive; other relevant topics will be considered. Papers that draw connections between two or more of these areas are especially welcome. * Genetic programming * Neural networks * Genomic and sequencing analysis * Evolutionary modeling * Data mining * Protein structure prediction * Modeling and simulations * Bioinformatic programs * Expression analysis * Bioinformatic ethics Articles should include a basic description of the kinds of problems being worked on, the state of the art of research, the state of the art of commercial applications, open problems, or future research/commercial development trends. Interviews with researchers; reviews of related books, software, videos, or conferences; and opinion columns on related issues are also welcome. We especially encourage both undergraduate and graduate students to submit articles. However, articles written or coauthored by professionals will also be considered. Crossroads articles should be written for a broad audience. They should be easily understandable by someone who has had only the most basic computer science instruction, and yet still be interesting to the advanced computer enthusiast. Articles longer than 6000 words will generally not be considered for publication. Feature articles should be between 1500 and 6000 words; reviews should be between 800 and 2000 words; and opinion columns should be between 800 and 3000 words. Articles should be written in a magazine style rather than a research paper style. In consideration of our diverse readership, authors should try to use language that is inclusive of people regardless of their gender, race, religion, nationality, or field of study. Additional writing guidelines and submission information are available online at the Crossroads web site (http://www.acm.org/crossroads/doc/information/writing.html) Crossroads is published both online and in print. We have a print circulation of about 20,000. All back issues are available for free on our website. Authors that have an article printed in Crossroads can receive complementary copies of the issue they were published in. All submissions should be formatted in XHTML or plain text format with all images at least 300 dpi, and submitted via http://www.acm.org/crossroads/submit/ Submissions are due April 3, 2006. They will be reviewed shortly thereafter and authors of accepted submissions will be notified within two to three weeks of the deadline. Prospective authors are invited to send email to the editors of Crossroads (crossroads(a)acm.org) indicating their intention to submit an article. In this way we can keep everyone informed of any changes in deadlines or formats and to make sure we have a good variety of articles. General questions should also be sent to the Crossroads editors.

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Summer Fellowships for US undergraduates
by Angulo, David 24 Feb '06

24 Feb '06

Dear all: Below I have forwarded some information about a summer fellowship that is available to undergraduates interested in biology and computers - they MUST be US citizens or permanent residents. I would very much appreciate your help in soliciting good students for this summer. Please feel free to pass this on and to pass recommendations on to me. Thanks very much for your help. Dave The Biomedical Informatics Group at DePaul has a summer undergraduate research project in Bioinformatics and Grid computing. This group co-sponsors paid summer fellowships with the Illinois Bio-Grid, Argonne National Laboratory and the University of Chicago. The program will last for 10 weeks and will be conducted on-site in Chicago. Grid computing is a new field that utilizes geographically separated commodity computers as a virtual supercomputer. Students will have access to thousands of computers at the advanced computational facilities at Argonne National Laboratory and the Illinois Bio-Grid. Bioinformatics is a relatively new field of biological research involving computation. Areas include human genome research, simulations of biological and biochemical processes (such as cell membranes), and proteomics (e.g., protein folding simulations). This project will provide free summer housing and will pay $420 per week. More information on the project for Bioinformatics and Grid computing are available at http://reu.cti.depaul.edu or by contacting Dave Angulo at dangulo(a)cti.depaul.edu David S. Angulo Faculty College of Computer Science, Telecommunications and Information Science DePaul University dangulo(a)cti.depaul.edu

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new impetus...?
by Richard Sinnott 16 Feb '06

16 Feb '06

Hi Folks, it seems clear that there needs to be some more impetus to this group at GGF. Here are a couple of ideas which we might take forward/discuss. I'd welcome agreements/disagreements - silence is normally golden but not on email lists!!! Split into a healthGrid group and a life science group (here I'm thinking of a bioinformatics Grid) 1. Let us develop a real HealthGrid with folk who are interested in this area (I am one and we have already built various prototype systems accessing and using "representative" patient data sets using existing solutions across the NHS here in Scotland). 2. Let us develop a real life science Grid. We are interested in this and have bioinformatics data Grids and compute Grids already in place. Is this of interest? I think it will help to make this group have a goal. We might want to agree on the scope of these, e.g. whether we just want to look at exploring basic secure services for access to and usage of healthcare data sets, incorporating anonymisation and de-anonymisation scenarios, data linkage perhaps from patient records to imaging data etc. We are already working with advanced authorisation infrastructures using results from GGF standards groups such as AuthZ and ShibGrid. This group (in my humble opinion should be doing these kinds of things) if it is to be "GGF". If it isn't using GGF standards and technologies then one coule argue that it should be handled separately, e.g. through other conferences and workshops. What do folk think? Rich PS I am happy to provide more information on what we are up to at the National e-Science Centre, and am willing to lead/be involved in both of these Grid development activities if there is interest from folk that it should happen. Let's do stuff!

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minutes of LSG-RG meeting from GGF16
by Richard Sinnott 16 Feb '06

16 Feb '06

Hello All, attached are the minutes from the meeting that took place at GGF16 in Athens. Any comments from those who attended are welcomed (or those who didn't!?). I also attach the link to the caBIG security work that was mentioned at the meeting. https://cabig.nci.nih.gov/workspaces/Architecture/Security_Tech_Eval_White_… Cheers, Rich -- Dr Richard Sinnott (Professorial Research Fellow) Technical Director National e-Science Centre University of Glasgow, Glasgow G12 8QQ Tel: +44-(0)141-330-8606 Fax: -8625 Email: ros(a)dcs.gla.ac.uk

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RE: [lsg-rg] RE: GGF 16 LSG-RG meeting today
by Angulo, David 15 Feb '06

15 Feb '06

Dear all: I am sorry but it looks as though the GGF folks can not get us set up with the speaker phone. Dave David S. Angulo Faculty College of Computer Science, Telecommunications and Information Science DePaul University dangulo(a)cti.depaul.edu > -----Original Message----- > From: owner-lsg-rg(a)ggf.org [mailto:owner-lsg-rg@ggf.org] On Behalf Of > Angulo, David > Sent: Wednesday, February 15, 2006 9:38 AM > To: lsg-rg(a)ggf.org > Subject: [lsg-rg] RE: GGF 16 LSG-RG meeting today > > We are not yet set up, but you should be able to dial into the LSG-RG > meeting at the number below. > > The passcode is 137368 > > Dave > > David S. Angulo > Faculty > College of Computer Science, Telecommunications and Information Science > DePaul University > dangulo(a)cti.depaul.edu > > > > -----Original Message----- > > From: Angulo, David > > Sent: Wednesday, February 15, 2006 9:23 AM > > To: 'lsg-rg(a)ggf.org' > > Subject: RE: GGF 16 LSG-RG meeting today > > > > I received several requests to get on early. We are still setting it > up. > > I will send a message when we get the speaker phone set up. > > > > Dave > > > > David S. Angulo > > Faculty > > College of Computer Science, Telecommunications and Information > Science > > DePaul University > > dangulo(a)cti.depaul.edu > > > > > > > -----Original Message----- > > > From: Angulo, David > > > Sent: Wednesday, February 15, 2006 6:24 AM > > > To: 'lsg-rg(a)ggf.org' > > > Subject: GGF 16 LSG-RG meeting today > > > > > > Dear all: > > > > > > The Life Science Grid Research Group (LSG-RG) will meet today at > 5:30 > > > Athens time (10:30 Eastern time, 9:30 Central time). > > > > > > For those of you not in Athens, we will have a speaker phone with a > > dial- > > > in, thanks to Abbas Farazdel and IBM Health Care and Life Sciences. > > Here > > > is the dial-in information: Toll-free (USA) 1-877-422-0037; > > > Toll/International 1-314-655-1413. > > > > > > Also, for those of you in Athens, don't miss tomorrow's Community > > Program > > > workshop, "Grid Authorization - Interoperability here and now" which > > will > > > concentrate on Life Sciences issues > > > > > > Dave > > > > > > David S. Angulo > > > Faculty > > > College of Computer Science, Telecommunications and Information > Science > > > DePaul University > > > dangulo(a)cti.depaul.edu > > >

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RE: GGF 16 LSG-RG meeting today
by Angulo, David 15 Feb '06

15 Feb '06

We are not yet set up, but you should be able to dial into the LSG-RG meeting at the number below. The passcode is 137368 Dave David S. Angulo Faculty College of Computer Science, Telecommunications and Information Science DePaul University dangulo(a)cti.depaul.edu > -----Original Message----- > From: Angulo, David > Sent: Wednesday, February 15, 2006 9:23 AM > To: 'lsg-rg(a)ggf.org' > Subject: RE: GGF 16 LSG-RG meeting today > > I received several requests to get on early. We are still setting it up. > I will send a message when we get the speaker phone set up. > > Dave > > David S. Angulo > Faculty > College of Computer Science, Telecommunications and Information Science > DePaul University > dangulo(a)cti.depaul.edu > > > > -----Original Message----- > > From: Angulo, David > > Sent: Wednesday, February 15, 2006 6:24 AM > > To: 'lsg-rg(a)ggf.org' > > Subject: GGF 16 LSG-RG meeting today > > > > Dear all: > > > > The Life Science Grid Research Group (LSG-RG) will meet today at 5:30 > > Athens time (10:30 Eastern time, 9:30 Central time). > > > > For those of you not in Athens, we will have a speaker phone with a > dial- > > in, thanks to Abbas Farazdel and IBM Health Care and Life Sciences. > Here > > is the dial-in information: Toll-free (USA) 1-877-422-0037; > > Toll/International 1-314-655-1413. > > > > Also, for those of you in Athens, don't miss tomorrow's Community > Program > > workshop, "Grid Authorization - Interoperability here and now" which > will > > concentrate on Life Sciences issues > > > > Dave > > > > David S. Angulo > > Faculty > > College of Computer Science, Telecommunications and Information Science > > DePaul University > > dangulo(a)cti.depaul.edu > >

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RE: GGF 16 LSG-RG meeting today
by Angulo, David 15 Feb '06

15 Feb '06

I received several requests to get on early. We are still setting it up. I will send a message when we get the speaker phone set up. Dave David S. Angulo Faculty College of Computer Science, Telecommunications and Information Science DePaul University dangulo(a)cti.depaul.edu > -----Original Message----- > From: Angulo, David > Sent: Wednesday, February 15, 2006 6:24 AM > To: 'lsg-rg(a)ggf.org' > Subject: GGF 16 LSG-RG meeting today > > Dear all: > > The Life Science Grid Research Group (LSG-RG) will meet today at 5:30 > Athens time (10:30 Eastern time, 9:30 Central time). > > For those of you not in Athens, we will have a speaker phone with a dial- > in, thanks to Abbas Farazdel and IBM Health Care and Life Sciences. Here > is the dial-in information: Toll-free (USA) 1-877-422-0037; > Toll/International 1-314-655-1413. > > Also, for those of you in Athens, don't miss tomorrow's Community Program > workshop, "Grid Authorization - Interoperability here and now" which will > concentrate on Life Sciences issues > > Dave > > David S. Angulo > Faculty > College of Computer Science, Telecommunications and Information Science > DePaul University > dangulo(a)cti.depaul.edu >

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GGF 16 LSG-RG meeting today
by Angulo, David 15 Feb '06

15 Feb '06

Dear all: The Life Science Grid Research Group (LSG-RG) will meet today at 5:30 Athens time (10:30 Eastern time, 9:30 Central time). For those of you not in Athens, we will have a speaker phone with a dial-in, thanks to Abbas Farazdel and IBM Health Care and Life Sciences. Here is the dial-in information: Toll-free (USA) 1-877-422-0037; Toll/International 1-314-655-1413. Also, for those of you in Athens, don't miss tomorrow's Community Program workshop, "Grid Authorization - Interoperability here and now" which will concentrate on Life Sciences issues Dave David S. Angulo Faculty College of Computer Science, Telecommunications and Information Science DePaul University dangulo(a)cti.depaul.edu

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