April 2008 - BBClist - maillist.psb.ugent.be

Last CFP META'08
by talbi 23 Apr '08

23 Apr '08

********************************************************************** META'2008 International Conference on Metaheuristics and Nature Inspired Computing 29-31 Oct 2008 Hammamet, Tunisia http://www.lifl.fr/META08 ********************************************************************** The 2nd International Conference on Metaheuristics and Nature Inspired Computing, META’08, will held in Tunisia from 29 to 31 Oct. The Conference will be an exchange space thanks to the sessions of the research works presentations and also will integrate tutorials and a vocational training of metaheuristics and nature inspired computing. The scope of the META’2008 conference includes, but is not limited to: * Local search, tabu search, simulated annealing, VNS, ILS, … * Evolutionary algorithms, swarm optimization, scatter search, … * Emergent nature inspired algorithms: quantum computing, artificial immune systems, bee colony, DNA computing, … * Parallel algorithms and hybrid methods with metaheuristics, machine learning, game theory, mathematical programming, constraint programming, co-evolutionary, … * Application to: logistics and transportation, telecommunications, scheduling, data mining, engineering design, bioinformatics, … * Theory of metaheuristics, landscape analysis, convergence, problem difficulty, very large neighbourhoods, … * Application to multi-objective optimization * Application in dynamic optimization, problems with uncertainty, … Submission papers: ============= - Submission of papers should be in shape of an abstract of two pages sent before the 15st May 2008 via the website. - Selected papers will be published in international journals. - Predefined styles are available on the website http://www.lifl.fr/META08 that we invite you to visit regularly and which evolves when the organization progresses. Invited sessions and tutorials: Deadline 15th May 2008. contact talbi(a)lifl.fr E-G. Talbi ( Conference Chair) K. Mellouli (Co-chair)

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postdoc en bioinfiormatique
by Jacques van Helden 15 Apr '08

15 Apr '08

A 14 months post-doctoral position is available at the UBLO lab (INRA, Jouy en Josas, France) in the context of the ANR "Cocogen" project. The general objectives of the project are to develop new algorithmic and statistical methods to compare bacterial genomes and to apply the comparison results to the understanding of the mechanisms shaping bacterial genomes evolution. The post-doctoral position will be held in the "bacterial genome architecture" group (https://www.jouy.inra.fr/ublo/equipes_et_themes/architecture_des_genomes_ba… ) on the following topic: "Prediction of short motifs involved in essential cellular processes on bacterial genomes" The group focuses on the molecular mechanisms underlying bacterial genome evolution at a short evolutionary scale. The successful candidate will participate in developping a predictive framework for identification of short DNA motifs involved in genome organization. These motifs are enriched on the species backbone i.e. on the regions conserved between several strains of the same species. Based on the analysis of known motifs, specific prediction criteria will be defined and a combination of bioinformatic and statistical tools will be used to predict new motifs. Applicants should have a PhD in Microbiology or Bioinformatics. The candidate should have a good background in molecular biology and microbiology and be strongly motivated in learning bioinformatics or alternatively a good background in bioinformatics and strong motivation to learn microbiology. Expericence with scripting (Perl) a plus. The ability to work autonomously in an interdisciplinary project will be essential. starting date : June-July 2008 To apply, please email a CV, list of publications and addresses of at least two referees to : Dr Meriem El Karoui meriem.el_karoui(a)jouy.inra.fr Unité des Bactéries Lactiques et pathogènes Opportunistes Equipe : Architecture des génomes bactériens INRA Domaine de Vilvert 78352 Jouy-en Josas cedex tel 00-33-1-34-65-28-67 fax 00-33-1-34-65-20-65

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BioScope-IT seminar on High Performance Computing for Life Sciences Research, April 24, 2008, IBM Forum Brussels
by Bert Coessens 15 Apr '08

15 Apr '08

Dear Madam / Sir, *Don't forget to register* for the BioScope-IT seminar on high performance computing for life sciences research that will take place on *April 24, 2008 at the IBM Forum in Brussels*. The purpose of this seminar is to give the participants an overview of high performance computing solutions currently used or useful in a life sciences context, both from a hardware and software point of view. To complete the programme, we invited several researchers from the life sciences industry to talk about their experiences with HPC. The presented case studies will exemplify the practical use of HPC in life sciences research. We conclude the programme with a quick look into the near future of both HPC and life sciences research. Who should attend?This seminar is directed towards scientists confronted with data analysis task that typically surpass the capacity of their desktop computer or to anyone wondering how HPC might be of use to them and what types of biological questions could be answered in this context. Detailed programme 10.00h-10.30hRegistration with coffeeHall 10.30h-11.15hGeneral introduction to HPC<http://www.bioscope-it.be/index.php?option=com_attend_events&task=view&id=1…>- *Gerd Van Mechelen* (IBM) Ensor & Magritte 11.15h-12.00hHPC programming: parallel computing and software optimization<http://www.bioscope-it.be/index.php?option=com_attend_events&task=view&id=1…>– *Francois Thomas* (IBM France) Ensor & Magritte 12.00h-13.00hLunchHall 13.00h-14.00hPenguins in Parallel - Getting your feet wet<http://www.bioscope-it.be/index.php?option=com_attend_events&task=view&id=1…>– *Luc Ducazu* (Fit-IT) Ensor & Magritte 14.00h-15.00hDivide et Impera – Message from the Field<http://www.bioscope-it.be/index.php?option=com_attend_events&task=view&id=1…>– *Wouter Van Delm* (ESAT-SCD, K.U.Leuven) Ensor & Magritte 15.00h-15.30hCoffee breakHall 15.30h-16.30hMolecular docking in drug design<http://www.bioscope-it.be/index.php?option=com_attend_events&task=view&id=1…>– *Marc De Jonge* (Molmo) Ensor & Magritte 16.30h-17.00hTBC: Visionary talk<http://www.bioscope-it.be/index.php?option=com_attend_events&task=view&id=1…>– Ensor & Magritte 17.00h-…Closing & drinkHall Pricing and Registration Academia & FlandersBio members: *€80* (VAT excl.) Other: *€100* (VAT excl.) The fee includes coffee, drinks, lunch, and seminar documentation. You can register at the BioScope-IT website.<http://www.bioscope-it.be/index.php?option=com_attend_events&task=view&id=1…> Registration deadline: April 21, 2008 Registration binds you or your institution to pay the registration fee. All fees are VAT excluded. There is no refund in case of cancellation after the registration deadline. Replacement by a colleague is allowed. Venue details The seminar will take place at IBM Forum Brussels, Bourgetlaan 42, 1130 Brussel. You can find directions here: http://www-05.ibm.com/be/ibm/en/access/location_brussels.html Participants can park their car in the IBM customer parking at level -1 of the IBM Forum building (entrance at the back of the building). Organizing Partners IBM Belgium, BioScope-IT, and FlandersBio

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GMOD Summer School, Application Deadline 15 April
by Dave Clements 09 Apr '08

09 Apr '08

Hello all, This is a reminder that we will start reviewing applications for the GMOD Summer School one week from today, on Wednesday, 15 April. See http://gmod.org/GMOD_Summer_School and http://gmod.org/GMOD_Summer_School_Statement_of_Interest for more information. I've also attached a PDF with an overview of the course. Please let me know if you have any questions. Thanks, Dave Clements GMOD Help Desk On Thu, Mar 20, 2008 at 10:00 AM, Dave Clements <clements(a)nescent.org> wrote: > GMOD Summer School > 11-13 July, 2008 > National Evolutionary Synthesis Center (NESCent) > Durham, North Carolina, USA > > The first GMOD Summer School (http://gmod.org/GMOD_Summer_School) will be > held July 11-13, 2008 at the National Evolutionary Synthesis Center > (NESCent), in Durham, North Carolina, USA. GMOD is a collection of > interoperable open source software components for managing genomic data. > GMOD components are used in diverse contexts, with both emerging and > established model organisms. > > The course will provide an overview of GMOD and cover these popular > components in detail: > * Chado - a modular and extensible database schema > * Apollo - genome annotation editor > * GBrowse - genome viewer > * CMap - comparative map viewer > * Community Annotation System - GMOD's most popular components in a > single system > > This is a 2 1/2 day hands-on workshop aimed at teaching new GMOD users how > to get up and running with popular GMOD components. There will also be a > concurrent 1 day session aimed at principal investigators that will give > decision makers an overview of what GMOD can do, how the project operates, > and what level of resources are needed to use GMOD. > > The National Evolutionary Synthesis Center (NESCent, http://nescent.org) has > joined the GMOD project with the goal of lowering the barrier to entry for > research communities focused on emerging model organisms. The GMOD Summer > School is a part of this effort. NESCent is also extending GMOD components, > particularly Chado, to better support comparative and evolutionary data. > > If you are interested in attending the GMOD Summer School please submit a > Statement of Interest before April 15, 2008. The course is free but > enrollment is limited. For application information and a tentative program > see: > > http://gmod.org/GMOD_Summer_School > > Please let me know if you have any questions, comments, or requests. > > Thanks, > > Dave Clements > GMOD Help Desk > help(a)gmod.org > ------------------------ > NESCent offers various courses and workshops, as well as funding > post-doctoral and sabbatical positions, working groups and other meetings. > For more information about research and training opportunities at NESCent, > visit our website at www.nescent.org. Sign up for our quarterly electronic > newsletter at http://www.nescent.org/about/contact.php to automatically > receive information about events at NESCent.

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Job opening at Vrije Universiteit Brussel: Computing/X-ray facility manager
by Joke Reumers 04 Apr '08

04 Apr '08

The VIB Department of Molecular and Cellular Interactions at the Vrije Universiteit Brussel is looking for a highly motivated X-ray facility/computing manager. The successful candidate will provide expert support to our in house structural biology community and will conduct research in the area of structural biology through internal and/or external collaborations. The department currently contains four groups involved in structural biology totalling around 40 people. A Bio-NMR group is to be established beginning next year. Details on the research conducted in the department can be found on our websites (http://www.vib.be/ and http://ultr.vub.ac.be/) Experience with UNIX/LINUX system administration is a must and experience with the computational side of protein crystallography is desirable, although we will also consider candidates with a (structural) bioinformatics background interested in moving towards X-ray crystallography. The main service duties will include: - Maintaining and upgrading the crystallographic and NMR computing facilities and reassuring of data back-up - Maintenance of the in-house X-ray data collection facilities - Organizing and streamlining synchrotron trips Interested candidates should send their cv to Remy Loris (reloris(a)vub.ac.be) together with the names and contact details of at least two reference persons. Salary will be discussed and will depend on the level of experience and qualifications of the successful candidate. Remy Loris Vrije Universiteit Brussel Plkeinlaan 2 B-1050 Brussel Belgium

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BioScope-IT seminar on High Performance Computing for Life Sciences Research, April 24, 2008, IBM Forum Brussels
by Bert Coessens 03 Apr '08

03 Apr '08

Dear Madam / Sir, You are cordially invited to the BioScope-IT seminar on high performance computing for life sciences research that will take place on *April 24, 2008 at the IBM Forum in Brussels*. The purpose of this seminar is to give the participants an overview of high performance computing solutions currently used or useful in a life sciences context, both from a hardware and software point of view. To complete the programme, we invited several researchers from the life sciences industry to talk about their experiences with HPC. The presented case studies will exemplify the practical use of HPC in life sciences research. We conclude the programme with a quick look into the near future of both HPC and life sciences research. Who should attend?This seminar is directed towards scientists confronted with data analysis task that typically surpass the capacity of their desktop computer or to anyone wondering how HPC might be of use to them and what types of biological questions could be answered in this context. Detailed programme 10.00h-10.30hRegistration with coffeeHall 10.30h-11.15hGeneral introduction to HPC<http://www.bioscope-it.be/index.php?option=com_attend_events&task=view&id=1…>- *Gerd Van Mechelen* (IBM) Ensor & Magritte 11.15h-12.00hHPC programming: parallel computing and software optimization<http://www.bioscope-it.be/index.php?option=com_attend_events&task=view&id=1…>– *Francois Thomas* (IBM France) Ensor & Magritte 12.00h-13.00hLunchHall 13.00h-14.00hPenguins in Parallel - Getting your feet wet<http://www.bioscope-it.be/index.php?option=com_attend_events&task=view&id=1…>– *Luc Ducazu* (Fit-IT) Ensor & Magritte 14.00h-15.00hDivide et Impera – Message from the Field<http://www.bioscope-it.be/index.php?option=com_attend_events&task=view&id=1…>– *Wouter Van Delm* (ESAT-SCD, K.U.Leuven) Ensor & Magritte 15.00h-15.30hCoffee breakHall 15.30h-16.30hMolecular docking in drug design<http://www.bioscope-it.be/index.php?option=com_attend_events&task=view&id=1…>– *Marc De Jonge* (Molmo) Ensor & Magritte 16.30h-17.00hTBC: Visionary talk<http://www.bioscope-it.be/index.php?option=com_attend_events&task=view&id=1…>– Ensor & Magritte 17.00h-…Closing & drinkHall Pricing and Registration Academia & FlandersBio members: *€80* (VAT excl.) Other: *€100* (VAT excl.) The fee includes coffee, drinks, lunch, and seminar documentation. You can register at the BioScope-IT website.<http://www.bioscope-it.be/index.php?option=com_attend_events&task=view&id=1…> Registration deadline: April 21, 2008 Registration binds you or your institution to pay the registration fee. All fees are VAT excluded. There is no refund in case of cancellation after the registration deadline. Replacement by a colleague is allowed. Venue details The seminar will take place at IBM Forum Brussels, Bourgetlaan 42, 1130 Brussel. You can find directions here: http://www-05.ibm.com/be/ibm/en/access/location_brussels.html Participants can park their car in the IBM customer parking at level -1 of the IBM Forum building (entrance at the back of the building). Organizing Partners IBM Belgium, BioScope-IT, and FlandersBio

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Call for Participation: 4th ISCB Student Council Symposium and Visual Reflections on Science Exhibition
by M.D. Stobbe 01 Apr '08

01 Apr '08

Dear colleagues, we would like to invite you to participate in the 4th ISCB Student Council Symposium and the Visual Reflections on Science Exhibition that will take place at ISMB 2008 in Toronto (Canada). Both events are organized by the ISCB Student Council. Please see the calls for participation below for details and forward this anyone who might be interested. Thank you very much! Best regards, Nils Gehlenborg Chair, ISCB Student Council Lucia Peixoto Chair, 4th ISCB Student Council Symposium Milana Frenkel-Morgenstern Chair, Visual Reflections on Science Exhibition ---------------------------------------------------------------------- CALL FOR PARTICIPATION: 4th ISCB Student Council Symposium * Website: http://symposium.iscbsc.org * Date & Location: Friday, 18 July 2008 in Toronto, Canada * Submission Deadline: 26 May 2008 * Registration Fee: 60 US Dollars (incl. lunch and coffee breaks). ISMB 2008 registration not required. We are accepting submissions for both posters and oral presentations and will award the best of each category. This year's panel discussion topic will be "Career Paths in Bioinformatics and Computational Biology", and will provide delegates with the opportunity to ask questions about their career future they always wanted to ask but never had a chance to. Furthermore, we will have keynotes by renowned scientists, student presentations and a poster session. ---------------------------------------------------------------------- CALL FOR PARTICIPATION: Visual Reflections on Science Exhibition * Website: http://www.iscb.org/ismb2008/vrs_instructions.php * Date & Location: Open for the duration of ISMB in Toronto, Canada * Submission Deadline: 11 April 2008 For the ISMB 2008 Visual Reflections on Science Exhibition we invite all interested conference attendees to submit artistic images and videos that have been generated as part of a research project. We are also soliciting images and videos resulting from creative efforts that involve scientific concepts or employ scientific tools and methods. Participate in this exciting new ISMB event to surprise and inspire us, to open our eyes and minds!

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