January 2010 - BBClist - maillist.psb.ugent.be

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by Dany Cuyt 29 Jan '10

29 Jan '10

-- ================================================================== Dany Cuyt Tel:+32 (0)9 331 38 17 fax:+32 (0)9 3313809 VIB Department of Plant Systems Biology, Ghent University Technologiepark 927, 9052 Gent, BELGIUM dacuy(a)psb.vib-ugent.be http://www.psb.vib-ugent.be ==================================================================

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the 6th ISCB Student Council Symposium
by Lorena Pantano 25 Jan '10

25 Jan '10

Lo Dear colleagues, We would like to let you know that the 6th ISCB Student Council Symposium will take place in Boston on July 9, just before ISMB 2010. The ISCB Student Council Symposium is a forum for students and young researchers in the fields of Computational Biology and Bioinformatics. Participants will have the opportunity to present their work to an international audience, build a network within the community and develop important soft skills in an environment that fosters exchange of ideas and knowledge. Meet your colleagues and chat about your science! We are happy to announce our three keynote speakers: - Dr. D. Altshuler, Broad Institute - Dr. G. Bader, University of Toronto - Dr. L. Hunter, University of Colorado The agenda includes student presentations, poster session with presentation and poster awards and more surprises to come. Check out all updated information on the website: http://symposium.iscbsc.org We are doing our best to provide as many travel fellowhips as possible to help you attend the symposium. So put the date on your agenda and prepare your abstract! Please forward this announcement to anyone who might be interested. Thank you very much! Best regards, Thomas Abeel Conference Chair, 6th ISCB Student Council Symposium Magali Michaut Conference Co-Chair, 6th ISCB Student Council Symposium

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[ECCB10] Call for Papers
by Yves Moreau 25 Jan '10

25 Jan '10

=== Apologies for multiple postings - Please distribute widely within your lab === Dear Colleagues, The European Conference on Computational Biology (ECCB10) will be held on September 26-29, 2010 in Ghent, Belgium. === PAPER SUBMISSION DEADLINE: April 9, 2010 === www.eccb10.org ECCB10 is the key European computational biology event in 2010 uniting scientists working in a broad range of disciplines, including bioinformatics, computational biology, biology, medicine, and systems biology. As part of the ECCB conference series, it will be organized this year jointly by the Belgian and Dutch bioinformatics communities. Ghent is one of Europe's most exciting medieval settings, a glorious eclectic city with spectacular buildings and a vivid cultural experience (National Geographic Traveler recently ranked it 3rd best historic place to visit internationally). Ghent is directly accessible by train from Brussels airport. The conference venue is highly convenient and located in a beautiful park within the city center. We invite you to submit your work in any area of computational biology and bioinformatics. Topics of interest include, but are not limited to * Genomes and protein analysis * Algorithms and phylogeny * Transcriptomics * Structural Bioinformatics * Proteomics * Text mining * Pathways and interactions * Databases * Systems biology * Bioinformatics for diseases Papers should describe previously unpublished work and will undergo peer review. Papers that demonstrate both the development of new computational techniques and their application to biology are especially encouraged. Accepted papers will be published in Bioinformatics and will be indexed in MEDLINE and ISI. Authors of accepted papers present their work orally at the conference. Can we kindly request that you forward this announcement to the members of your team? We look forward to welcoming you to Ghent. The ECCB10 Organizing Committee www.eccb10.org ECCB10 KEY DATES PAPERS * Call for papers open - January 10, 2010 * Paper submission deadline - April 9, 2010 * Paper acceptance notification - May 7, 2010 * Submission of final version of accepted papers deadline - May 21, 2010 POSTERS * Call for posters open - January 10, 2010 * Poster submission deadline - May 20, 2010 * Poster acceptance notification - June 11, 2010 WORKSHOPS AND TUTORIALS * Call for tutorials and workshops open - January 10, 2010 * Workshop and tutorial submission deadline - March 26, 2010 * Workshop and tutorial acceptance notification - April 23, 2010 INDUSTRY AND DEMO TRACK * Call for software demos and industrial presentations open - January 10, 2010 * Industry and demo track submission deadline - June 3, 2010 * Industry and demo track acceptance notification - June 24, 2010 REGISTRATION * Registration open - May 7, 2010 * Early registration deadline - August 13, 2010 CONFERENCE * Workshop and tutorials - Sunday September 26, 2010 * Conference opening - Sunday evening, September 26, 2010 * Main conference (proceedings, posters, and industry/demo track) - September 26-29, 2010

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META'2010 call for papers
by talbi 13 Jan '10

13 Jan '10

********************************************************************** META'2010 International Conference on Metaheuristics and Nature Inspired Computing 28-30 Oct 2010 Djerba Island, Tunisia http://www.lifl.fr/META10 ********************************************************************** The 2nd International Conference on Metaheuristics and Nature Inspired Computing, META’10, will held in Djerba Island, Tunisia from 28 to 30 Oct 2010. 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’2010 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 2010 via the website. - Selected papers will be published in international journals (ISI journals): COR, ITOR, JMMA, ... - Predefined styles are available on the website http://www.lifl.fr/META10 that we invite you to visit regularly and which evolves when the organization progresses. - Invited sessions and tutorials: Deadline 15th May 2010. contact talbi(a)lifl.fr E-G. Talbi ( Conference Chair) K. Mellouli (Co-chair) PC Members (to be completed) - B. Aghezzaf (MO) - M. Aider (DZ) - A. M. Alimi (TN) - E. Alba (ES) - R. Battiti (IT) - M. Batouche (SA) - F. Ben Abdelaziz (TN) - J. Blazewicz (PL) - C. Blum (ES) - P. Bouvry (LX) - E. Burke (UK) - A. Caminada (FR) - H. Chabchoub (TN) - T. Crainic (CA) - K. F. Doerner (AT) - M. Dorigo (BE) - H-B. Duan (CN) - P. Festa (IT) - S. Fidanova (BU) - J. Figueira (PO) - M. Gendreau (CA) - M. Gourgand (FR) - M. Gravel (CA) - S. Hanafi (FR) - J-K. Hao (FR) - M. Haouari (TN) - P. Isasi (ES) - M. Krajecki (FR) - M. Laguna (US) - A. Lokketangen (NW) - T. Loukil (TN) - S. Martins (BR) - R. Middendorf (D) - N. Monmarché (FR) - I. H. Osman (LE) - M. Pirlot (BE) - G. Raidl (AT) - M. Resende (US) - C. Ribeiro (BR) - M. Schoenauer (FR) - M. Sevaux (FR) - P. Siarry (FR) - K. Sorensen (BE) - T. Stutzle (BE) - J. Teghem (BE) - M. Toulouse (CA) - K-C. Tan (SG) - X-S. Yang (GB) - A. Zomaya (AU) Organizing Committee (to be completed): * Laetitia Jourdan (chair) * Clarisse Dhaenens (INRIA) * Arnaud Liefooghe (INRIA) * Marie-Eléonore Marmion (INRIA) * H. Masri (ISG, Tunisia) * A. Klabi (ISG, Tunisia) ------------------New book -------------------- "Metaheuristics: from design to implementation" E-G. Talbi Wiley 2009 (624pp), http://eu.wiley.com/WileyCDA/WileyTitle/productCd-0470278587.html ISBN: 978-0-470-27858-1 ----------------------------------------------- Prof. El-Ghazali TALBI University of Lille - INRIA - CNRS http: www.lifl.fr/~talbi

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Call for Abstracts ISNB 2010
by AHC van Kampen 12 Jan '10

12 Jan '10

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OPENING FOR POSTDOC IN BIOINFORMATICS ON GENOMICS / EPIGENOMICS (Brussels)
by François Fuks 12 Jan '10

12 Jan '10

Dear Colleague, I would greatly appreciate if you could distribute the announcement below for a post-doctoral position in the Laboratory of Cancer Epigenetics, ULB, Brussels. Best wishes, and thanks in advance. François Fuks ___________________________________________ François Fuks, PhD Laboratory of Cancer Epigenetics University of Brussels (U.L.B.) Faculty of Medicine, C.P. 614, Bât. GE, 5th floor 808 route de Lennik tel.: 32-2-555 62 45 1070 Brussels fax: 32-2-555 62 57 Belgium email: ffuks(a)ulb.ac.be lab website: http://www.ulb.ac.be/medecine/fukslab Job description: A postdoctoral position is available for a successful candidate to join a dynamic team located in Brussels (Belgium). Our group is interested to study genomics and epigenomics in cancer. The candidate will tackle integrative analysis of higth-throughput transcriptomics, genomics and epigenomics data sets generated using cutting edge genome-wide technologies. Both clinical and fundamental aspects of cancerogenesis will be addressed. The position is funded for 2 years, with possible extension. Screening of applications begins immediately and continues until an outstanding candidate is selected. Profile : Applicants should demonstrated proficiency in programming, and statistics and/or machine learning. Experience with sequence data, genome-wide data sets and demonstrated interest in oncogenomics will be assets. How to apply?: Informal enquiries, CV and names of two referees should be send to: Dr. François Fuks (ffuks(a)ulb.ac.be) Faculty of Medicine, Free University of Brussels, 808 route de Lennik, Brussels, Belgium. Tel.: 32-2-555 62 45. Fax: 32-2-555 62 57. Lab website: http://www.ulb.ac.be/medecine/fukslab Selected publications: - Brenner et al. EMBO J. 2005 24:336-46. - Viré et al. Nature 2006 439:871-4. - Brenner & Fuks Dev. Cell 2007 12:843-4 - Villa et al. Cancer Cell 2007 11:513-25 - Feldman et al. Nature SMB. 2008 15:1176-83 - Denis et al. Mol Cell Biol. 2009 29:4982-93.

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Symposium 'Comparing Building Blocks' at VU, Amsterdam
by Anton Feenstra 11 Jan '10

11 Jan '10

Dear bioinformaticians, On the occasion of Walter Pirovano defending his thesis "Comparing building blocks of life - Sequence alignment and evaluation of predicted structural and functional features" at the VU University ('Vrije Universiteit'), Amsterdam, the IBIVU Centre for Integrative Bioinformatics will organise a symposium: * Date and Venue Date: Friday 15 January, 2010 Time: 9.00-12.00 Location: VU University De Boelelaan 1083A - 1081HV Amsterdam W&N building room C121 * Programme 09.00 Coffee & Tea 09.15 Opening & Introduction 09.30 - Des Higgins University College Dublin Fast scalable clustering of huge numbers of sequences (for making guide trees) 10.00 - Willy Taylor William Taylor, NIMR, London What to do with poor alignments and bad secondary structure predictions? 10.30 Coffee Break 10.45 - Jack Leunissen Wageningen University Perspective of orthology 11.15 - Roland Siezen CMBI, Nijmegen Prediction and comparison of extracellular proteins of bacteria 11.45 Closing remarks 13.45 Thesis defense (viva) Walter Pirovano See also the online announcement on http://www.ibi.vu.nl/symposium/comparing_building_blocks_of_life.php and attached poster. -- Groetjes, Anton _____________ _______________________________________________________ | | | | _ _ ___,| K. Anton Feenstra | | / \ / \'| | | IBIVU/Bioinformatics - Free University Amsterdam | |( | )| | | De Boelelaan 1083A - 1081 HV Amsterdam - Netherlands | | \_/ \_/ | | | Tel +31 20 59 87783 - Fax +31 20 59 87653 - Room P136 | | | Feenstra(a)few.vu.nl - www.few.vu.nl/~feenstra/ | |_____________|_______________________________________________________|

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Bioinformatician Position
by Erik van Beers 05 Jan '10

05 Jan '10

Dear BBC member, please feel free to circulate this ad amongst potential candidates. Beste regards, Erik Erik H. van Beers, PhD Head Research and Development Skyline Diagnostics BV Erasmus University Medical Center Dr Molewaterplein 50, room Ee1924 3015 GE Rotterdam the Netherlands T +31 10 7043431 F +31 10 7043076 www.skyline-diagnostics.nl <http://www.skyline-diagnostics.nl/>

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volunteers asked to take over the maintenance of the list !
by BEN 05 Jan '10

05 Jan '10

Dear readers of the BBClist, I guess I do not have to tell you about the usefulness of the BBC mailing list, from which you receive each week a few messages. This list (first Belgian, later Benelux) has since its begin been managed by the now defunct Belgian EMBnet Node. I have untill now continued to do the management on a voluntary basis but it is not reasonable that I should keep doing this forever. Therefore we are searching a volunteer to take over the list, preferably a person or a group with a stable position in the field of bioinformatics and involved in collaborations within one or more countries of the Benelux. You can choose between two options : Either you install the list on a MailMan or MajorDomo server of you own OR The list stays on the MailMan server of the BBPF, which can without problem continue to host our list for several years to come, and you only take the responsability to do the administrative management. As manager you must do 3 things : 1. The list is currently configured in such a way that mails coming from adresses in the list are stored for moderation and mails coming from other adresses are automatically discarded. If there are mails in the queue the server sends overnight a warning to the manager. So, the first moment of the day that I check my mail I attend the moderation of the list. I have only once seen a spam, but I have several times seen the same mail send twice (and then I forward only one copy). You could of course decide to change the way you want to handle the list. 2. You must each year obtain from the organizers of the BBC the adresses of the participants and add them to the list. 3. Although the readers of the list can manage themselves their (un)subscription there are occasionally punctual interventions (add/change/remove addresses) to do for the sake of persons who have forgotten their password or otherwise need assistance, but this happens no more than about a dozen times a year. So, you see, it is really not much work. If you are interested, answer by returning mail (do not forget to present yourself and tell which of the two options you go for). Happy 2010 ! Guy Bottu ---------------------------------------------------------------------------- BEN - Belgian EMBnet Node at the Brussels Free Universities Computing Centre | Address BEN ULB CP 257 Fax +32/2/6505124 | Boulevard du Triomphe email ben(a)vub.ac.be | B-1050 Bruxelles ----------------------------------------------------------------------------

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