From mourad12345678 from yahoo.com Tue Mar 4 10:19:27 2008 From: mourad12345678 from yahoo.com (Mourad Elloumi) Date: Tue Mar 4 12:12:09 2008 Subject: [Computational-biology] Deadline Extended- ALBIO'08 (Vienna, July 2008 ) Message-ID: <107630.32872.qm@web31507.mail.mud.yahoo.com> CALL FOR PAPERS Higher School of Sciences and Technologies of Tunis (Tunisia) Organizes Algorithms in Molecular Biology (ALBIO'08) Workshop held in parallel with 2nd International Conference on Bioinformatics Research and Development (BIRD?08) www.birdconf.org Technical University of Vienna, Austria July 7-9, 2008 Computational Molecular Biology has emerged from the Human Genome Project as an important discipline for academic research and industrial application. The exponential growth of the size of biological databases, the complexity of biological problems and the necessity to deal with errors in biological sequences, result in time efficiency and memory requirements. The development of fast, low memory requirements and high-performances algorithms is thus increasingly important in Computational Molecular Biology. We are interested in papers that deal with algorithms that solve fundamental and/or applied problems in Molecular Biology, that are computationally efficient, that have been implemented and experimented on simulated and/or on real biological sequences, and that provide interesting new results. The submitted papers should present recent research results and identify and explore directions for future research. Topics include, but not limited to: (i) strings processing, (ii) biological sequences comparison, (iii) structures prediction, (iv) phylogeny reconstruction, (v) DNA sequences assembly, clustering, and mapping, (vi) molecular evolution, (vii) genes prediction/recognition, (viii) genes expression (ix) haplotyping (x) genomes rearrangement (xi) strings barecoding. You are invited to submit a draft paper in PDF format before March 1, 2008 to the Workshop Chair: Dr. Mourad Elloumi, E.Mail: Mourad.Elloumi@fsegt.rnu.tn or Mourad12345678@yahoo.com Papers should not exceed 10 pages in Lecture Notes in Bioinformatics (LNBI) format. All accepted papers will be published in LNBI www.springer.de/comp/lncs/authors.html by Springer Verlag. Program Committee: . Mourad Elloumi, University of Tunis, Tunisia, (Chair) . Sami Khuri, San Jos? State University, USA . Alain Gu?noche, Institute of Mathematics of Luminy, Marseille, France. . Nadia Pisanti, University of Pisa, Italy . Gianluca Della Vedova, University of Milano-Bicocca, Italy . Pierre Peterlongo, IRISA-INRIA, Rennes, France . Jan Holub, Czech Technical University in Prague, Czech Republic Important Dates: Submission of Full Papers: March 15, 2008 Notification of Acceptance: April 1, 2008 Camera-ready Copies: April 15, 2008 ____________________________________________________________________________________ Be a better friend, newshound, and know-it-all with Yahoo! Mobile. Try it now. http://mobile.yahoo.com/;_ylt=Ahu06i62sR8HDtDypao8Wcj9tAcJ From imarin from ibv.csic.es Wed Mar 5 10:15:57 2008 From: imarin from ibv.csic.es (imarin@ibv.csic.es) Date: Wed Mar 5 11:39:08 2008 Subject: [Computational-biology] Postdoc position Message-ID: <380-22008335151557965@ibv.csic.es> We are seeking a highly motivated postdoctoral researcher to work in our group at the Instituto de Biomedicina de Valencia (Spain). Lab Website: http://www.uv.es/~genomica/eng/index.htm Topic: Comparative genomics and bioinformatics of genes involved in neurodegenerative diseases The position requires an individual with a PhD and experience in molecular evolution, comparative genomics and/or bioinformatics. The candidate will apply for his/her own funds to the Juan de la Cierva (http://www.mec.es/planidi/juandelacierva-eng/)and/or Ramon y Cajal (http://www.mec.es/planidi/ramonycajal-eng/) programmes. Conditions: For the Juan de la Cierva Programme: PhD obtained within the last three years or to be obtained within the next months. Funds can be obtained for three years. For the Ramon y Cajal Programme: PhD obtained within the last ten years. Positions funded for 5 years. To apply, please send the following: 1. Curriculum vitae 2. Names of 2 referees willing to provide a letter of recommendation upon request 3. A brief statement of your research goals and interests for future grant applications E-mail applications can be sent to Ignacio Marin: imarin@ibv.csic.es From tavares from fe.up.pt Thu Mar 6 09:15:12 2008 From: tavares from fe.up.pt (tavares@fe.up.pt) Date: Thu Mar 6 13:24:28 2008 Subject: [Computational-biology] Int. J. of Tomography & Statistics, Special Issue on Image Processing - Call for papers Message-ID: <19e1fd7a-7942-4cb0-a048-e89e169c5f1a@m36g2000hse.googlegroups.com> (Our apologies for cross-posting. We appreciate if you kindly distribute this information by your co- workers and colleagues.) ****************************************************************************************************** Special issue on Image Processing Gest Editors: Jo?o Manuel R. S. Tavares & Renato M. Natal Jorge - UP - Portugal International Journal of Tomography & Statistics ISSN 0973-7294 (Online) - 0972-9976 (Print) http://www.isder.ceser.res.in/ijts.html ****************************************************************************************************** Dear Colleague, This special issue of the International Journal of Tomography & Statistics (IJT&S) is devoted to promote a broad exchange of information on technologies, applications, operations and quality assurance in the areas of Computed Tomography, Statistics as well as of Image Processing. This special issue on Image Processing is an opportunity for users, scientists, image equipment suppliers and all who are interested to present their works on image detectors and acquisition systems, signal processing, image processing and analysis, medical imaging, pattern analysis and recognition, volume scanning and reconstruction, features extraction and classification, telemedicine, virtual and augmented reality, enhanced computation and software applications of image processing. Thus, if you are working on the related areas of the special issue "Image Processing", It is an honour to invite you to submit your work to be published in the IJT&S. Important Dates and Instructions: Deadline for papers submission: 30/06/2008; Authors notification: 15/09/2008; Final version of accepted papers: 1/11/2008; If you intend to submit your work please notify as soon as possible the guest editors of your intention (tavares@fe.up.pt, rnatal@fe.up.pt); Papers for the special issue should be sent to the guest editors (tavares@fe.up.pt, rnatal@fe.up.pt); Instructions for authors are available at: http://www.isder.ceser.res.in/ijts/instr4a.html. With kind regards, Yours sincerely The Guest Editors Jo?o Manuel R. S. Tavares (tavares@fe.up.pt) Renato M. Natal Jorge (rnatal@fe.up.pt) University of Porto, Portugal From prash from ruc.dk Mon Mar 10 13:01:51 2008 From: prash from ruc.dk (Prash) Date: Mon Mar 10 14:55:53 2008 Subject: [Computational-biology] Final call: Systems Biology in present day Bioinformatics Message-ID: <1205172111.47d5778fdb8fa@webmail.ruc.dk> Prashanth Suravajhala PhD Fellow http://ruc.dk/~prash/ "If I give you a pfennig, you will be one pfennig richer and I'll be one pfennig poorer. But if I give you an idea, you will have a new idea, but I shall still have it, too. " ~~ Albert Einstein Dear All, We invite you to submit papers in the area of Systems Biology for the said workshop. The workshop is a part of International Multi-Conference on Engineering and Technological Innovation: IMETI 2008 in Florida, USA. The workshop includes a tutorial and presentations of selected works in the field of systems biology. Papers of high quality are selected from three rounds of reviewing from elite panelists. More details can be had by visiting the following page: http://www.infocybereng.org/imeti2008/ If you wish to participate or send the abstracts/papers for the worskhop, please contact me at prash@ruc.dk. Detailed mail on the latter part of the conference follows this signature. Sincerely Prash on behalf of organizers of the workshop Systems Biology in present day bioinformatics PS: Please pass this to your colleagues, if you are not interested. Thanks in anticipation. Last Call for Papers/Abstracts and Invited Sessions Proposals for CITSA 2008, (Orlando, Florida, USA. June 29th- July 2nd, 2008) http://www.infocybereng.org/citsa2008 Deadlines: Papers/Abstracts Submissions and Invited Sessions Proposal: April 2nd, 2008 Authors Notification: May 3rd, 2008 Camera-ready, full papers: May 22nd, 2008 ------------------------------------------------------- All Submitted papers will be reviewed by a double-blind (at least three reviewers), non-blind, and participative peer review. These three kinds of review will support the selection process of those that will be accepted for their presentation at the conference, as well as those to be selected for their publication in JSCI Journal. Authors of accepted papers who registered in the conference can have access to the evaluations and possible feedback provided by the reviewers who recommended the acceptance of their papers/abstracts, so they can accordingly improve the final version of their papers. Non-registered authors may not have access to the reviews of their respective submissions. The registration fee of effective invited session organizers will be waived and they will receive at the registration desk, for free, 1) a package of 4 DVDs and one CD containing the 6-hour tutorial "Fundamentals and History of Cybernetics: Development of the Theory of Complex Adaptive Systems" and 2) a second 4-DVDs/1-CD package 6-hours tutorial titled "Cybernetic Management". The market price of each of these packages is US $ 295. Twelve more benefits for invited session organizers are listed at CITSA 2008 web page. For submissions or Invited Sessions Proposals, please go to the web site: http://www.infocybereng.org/citsa2008/organizer.asp Authors of the best 10%-20% of the papers presented at the conference will be invited to adapt their papers for their publication in the Journal of Systemics, Cybernetics and Informatics. Each session to be included in the conference program will have corresponding electronic pre-conference and post-conference sessions for 15 days each. In the electronic pre-conference sessions authors will have access to the papers to be presented at their session and to an associated electronic forum, so they can be better prepared for their conference face-to-face session. Similarly, electronic post-conference sessions will complement and support a follow-up of the respective conference sessions, via an electronic forum and the possibility of evaluating papers presented at the associated session. These evaluations will also support the selection process for the papers to be published in JSCI journal. Best regards, CITSA 2008 Secretariat From jprudhomme from healthtech.com Tue Mar 11 15:32:44 2008 From: jprudhomme from healthtech.com (Jim Prudhomme) Date: Tue Mar 11 17:52:00 2008 Subject: [Computational-biology] Structure-Based Drug Design (Conference) Message-ID: <001a01c883b7$0fe81160$2fb83420$@com> CHI'S STRUCTURE-BASED DRUG DESIGN CONFERENCE June 25-27, 2008 The World Trade Center, Boston, Massachusetts Website: www.healthtech.com/sbd/overview.aspx IMPORTANT DATES April 4, 2008: Early Bird Registration Discount Expires June 1, 2008: Poster Abstracts Due Topics include, but are not limited to: . Structure-Based Modelling of GPCRs . Determination of Protein-Protein Interaction Sites . Computational-Based Protein Design . Hit and Lead Optimization . Accounting for Receptor Flexibility in Ligand Binding . Challenges of Docking and Screening . Experimental Approaches . Case Studies POSTER RESEARCH WILL BE ACCEPTED IF SUBMITTED BY JUNE 1 We encourage all to present their scientific findings via a poster on-site at this conference. All poster abstracts will be included in the conference CD. Visit the above website to register, view full conference details or to submit a poster. Organized by: Cambridge Healthtech Institute 250 First Avenue, Suite 300 Needham, MA 02494 Tel: 781-972-5400 Fax: 781-972-5425 -Posted by James Prudhomme, Cambridge Healthtech Institute, jprudhomme@healthtech.com From nicola.cannata from unicam.it Wed Mar 12 17:02:00 2008 From: nicola.cannata from unicam.it (Nicola Cannata) Date: Wed Mar 12 18:29:49 2008 Subject: [Computational-biology] DEADLINE EXTENDED: FBTC2008 Message-ID: Due to many requests, the deadline for paper submissions to FBTC 2008 has been extended to Sunday, March 30, 2008. ************************************************************************* Deadline extended FBTC2008 ************************************************************************* Second International Workshop From Biology To Concurrency and back (FBTC 2008) A Satellite Workshop of ICALP 2008 July 12, 2008, Reykjavik, Iceland http://www.cs.le.ac.uk/events/FBTC2008 ************************************************************************* SUMMARY: In computational theory, several formal approaches make use of biology as inspiration for the development of problem solving techniques. Most of them are taken from complex, inherently concurrent, systems. Some examples of "biologically inspired computing" are artificial immune systems, cellular automata, genetic algorithms, membrane computing, neural networks, organic computing, swarm intelligence. On the other hand, concurrency has begun to inspire an emerging research area in Biology. Regev and Shapiro coined the Cells-as-Computation metaphor as the "much-needed abstraction for biomolecular systems". Computers and biomolecular systems both start from a small set of elementary components from which, layer by layer, more complex entities are constructed with evermore sophisticated functions. In computational systems biology, the abstractions, tools and methods used to specify and study concurrent and distributed systems can therefore be naturally adopted to model and better understand the complex biomolecular systems. In this workshop we intend to explore this "cross-fertilization" between computational sciences and biology, with a special attention to concurrent models in biology and formal foundations in bio-inspired computing. Concurrency theory permits hypotheses generation and testing. Models can therefore be simulated, analyzed, checked and validated. A growing "arsenal" of theoretical models, logics, and tools for understanding concurrent systems has been developed. We recognize that concurrency permeates not only computer systems but also nature and living organisms. We can find concurrency at the molecular level as well as at those of cells, organs, individuals, communities and ecological systems. Also, biologically inspired computing could benefit from concurrency theory. SPECIFIC TOPICS OF INTEREST INCLUDE (BUT ARE NOT LIMITED TO): * Biologically inspired developments in concurrency theory; * Biologically inspired models and software tools for concurrent computation; * Applications of computer science formalisms with concurrency flavour, such as process algebras, Petri nets, automata, statecharts, rewrite systems, P systems, in systems biology; * Challenges in compositional modelling of biological systems at different level of detail: molecular, cellular, tissue, organs, organism, community; * Use of concurrency software tools in the modelling, simulation and analysis of biological systems. PAPER SUBMISSION: We solicit unpublished papers reporting on original research on the topics of interest of FBTC workshops. The title and the abstract of each paper should be sent to the email address of the workshop by Wednesday 19 of March, 2008 and papers should be submitted via EasyChair (http://www.easychair.org/conferences/?conf=fbtc2008) by sunday 30 of March 2008. Authors will be notified of acceptance by Sunday, 11 May 2008. Submissions from the PC members are allowed. Prospective authors may need to register with EasyChair first if they do not have an account there yet. Papers should take the form of a pdf file in ENTCS format, whose length should not exceed 15 pages. Please follow the instructions at http://www.entcs.org/prelim.html for downloading the correct prentcsmacro.sty file for FBTC 2008. If necessary, detailed proofs of technical results and other additional information can be included in a clearly-labelled "Appendix for referees". This is in addition to 15 pages stated above; and the material may be read at the discretion of the PC but will be included in the final version of the paper. Submissions from the PC members are allowed. Proceedings: Bound preliminary proceedings will be available at the meeting. The final proceedings of the workshop will appear as a volume in the ENTCS series. IMPORTANT DATES: * Submission of title and abstract: 19 March 2008 * Submission of paper: 30 March 2008 * Notification: 12 May 2008 * Final version: 2 June 2008 * Workshop: Saturday, 12 July 2008 * Final ENTCS version: 22 August 2008 PROGRAMME COMMITTEE: Uwe Aickelin (University of Nottingham, UK) Ezio Bartocci (University of Camerino, IT) Chiara Bodei (University of Pisa, IT) Andrea Bracciali (University of Pisa, IT) Nicola Cannata (CO-CHAIR - University di Camerino, IT) Luca Cardelli (Microsoft Research Cambridge, UK) Matteo Cavaliere (Microsoft Research - University of Trento CoSBi, IT) Gabriel Ciobanu (Romanian Academy, RO) Federica Ciocchetta (University of Edinburgh, UK) Flavio Corradini (University di Camerino, IT) Mark Daley (University of Western Ontario, CA) Vincent Danos (CNRS, University Paris Diderot, FR) Pierpaolo Degano (University di Pisa, IT) Mark d'Inverno (Goldsmiths College London, UK) Michael Domaratzki (University of Manitoba, CA) Anthony Finkelstein (University College London, UK) Radu Grosu (Stony Brook University, US) Jane Hillston (University of Edinburgh, UK) Anna Ingolfsdottir (Reykjavik University, IS) Mathias John (University of Rostock, DE) Andrea Maggiolo-Schettini (University of Pisa, IT) Vincenzo Manca (University of Verona, IT) Ian McQuillan (University of Saskatchewan, CA) Emanuela Merelli (CO-CHAIR - University di Camerino, IT) Alberto Policriti (University of Udine, IT) Corrado Priami (Microsoft Research - University of Trento CoSBi, IT) Alessandro Romanel (Microsoft Research - University of Trento CoSBi, IT) Paul Ruet (University of Marseille, FR) Carron Shankland (University of Stirling, UK) Scott Smolka (Stony Brook University, US) Susan Stepney (University of York, UK) Adelinde Uhrmacher (University of Rostock, DE) Irek Ulidowski (CO-CHAIR - University of Leicester, UK) Cristian Versari (University of Bologna, IT) INVITED SPEAKERS: To be announced CONTACT: fbtc2008 AT mcs.le.ac.uk WORKSHOP ORGANISERS: Nicola Cannata and Emanuela Merelli Department of Mathematics and Computer Science University of Camerino Via Madonna delle Carceri 9 I-62032 Camerino (MC) Italy Irek Ulidowski Department of Computer Science University of Leicester University Road Leicester, LE1 7RH United Kingdom From barry.hardy from vtxmail.ch Thu Mar 13 10:41:52 2008 From: barry.hardy from vtxmail.ch (Barry) Date: Thu Mar 13 12:50:26 2008 Subject: [Computational-biology] eCheminfo Hands-on Drug Discovery Workshop in Oxford Message-ID: <4fefb758-7c49-420b-bd45-677923aac857@p25g2000hsf.googlegroups.com> The 5 Day eCheminfo Hands-on Drug Discovery Workshop Week will take place this year 21-25 July 2008 at the Medical Sciences Teaching Center, Oxford University, Oxford, UK. Topics to be covered include Virtual Screening & Docking; Structure-based Drug Design; Ligand Optimisation & Library Design; Structure Search, Similarity and Property Estimation; Data Mining, Analysis & Visualisation; Pharmacophore Modelling for Lead Identification; Fragment-based Drug Design; QSAR-based Predictive Toxicology; and Quantitative Spectrometric Data-Activity Relationship Modelling. These workshops are aimed to provide a set of stimulating workshops using latest advanced modelling techniques of relevance to chemists, life scientists and modellers working in drug discovery. The workshop group studies problems with hands-on examples using leading-edge software and discusses complex issues highlighted by examples and case studies presented by instructors. A variety of leading drug discovery software packages and an IT classroom are used by instructors and participants to work through problems. Bursary: A Bursary Award sponsored by Tripos will be used to support the attendance of one academic participant, who may be working in any area of research related to drug discovery. To apply for the bursary please send an email with a) description of your research (ca. 500 words); b) your training needs (ca. 500 words), c) your CV to echeminfo -[at]- douglasconnect.com by 15 April 2008. The recipient of the award will be selected based on an evaluation of the quality and innovation of the described research and the potential positive impact of the training on their research progress and will be notified by 30 April. We gratefully acknowledge the sponsorship support of Tripos. More Information: Web: http://echeminfo.colayer.net/COMTY_training Blog: http://barryhardy.blogs.com/cheminfostream best regards Barry Hardy eCheminfo Community of Practice Douglas Connect Switzerland Tel: +41 61 851 0170 From hra from pixel.cviog.uga.edu Thu Mar 13 21:22:00 2008 From: hra from pixel.cviog.uga.edu (Hamid R. Arabnia) Date: Fri Mar 14 09:48:19 2008 Subject: [Computational-biology] Call For Papers: Extended deadline: March 23 - WORLDCOMP'08 Congress (CS and CE Conferences - July 2008, USA) Message-ID: <20080314022200.2F4BD2245996@pixel.cviog.uga.edu> Extended Paper Submission Deadline: March 23, 2008 Call For Papers WORLDCOMP'08 The 2008 World Congress in Computer Science, Computer Engineering, and Applied Computing July 14-17, 2008, Las Vegas, USA http://www.world-academy-of-science.org/ Academic Sponsors include research labs at: Harvard University, MIT, UCLA, George Mason University, Georgia Institute of Technology, University of Texas at Austin, University of Iowa, University of Minnesota, University of Illinois at Urbana-Champaign, Emory University, University of North Dakota, PSU/Saudi, Russian Academy of Sciences, European Union at Institute of Discrete Mathematics, and others (see below). Corporate sponsors include Google, Salford Systems, and NIIT. You are invited to submit a paper for consideration. All accepted papers will be published in the respective conference proceedings. The 2008 World Congress in Computer Science, Computer Engineering, and Applied Computing (WORLDCOMP'08) will be held in Las Vegas, USA, July 14-17, 2008. It is composed of the following conferences (all will be held simultaneously, same location and dates): GCA'08: Grid Computing & Applications PDPTA'08: Parallel and Distributed Processing Techniques & Applications CDES'08: Computer Design ESA'08: Embedded Systems & Applications CGVR'08: Computer Graphics & Virtual Reality ICOMP'08: Internet Computing SWWS'08: Semantic Web & Web Services GEM'08: Genetic & Evolutionary Methods CSC'08: Scientific Computing FCS'08: Foundations of Computer Science EEE'08: e-Learning, e-Business, Enterprise Information Systems, & e-Government FECS'08: Frontiers in Education: Computer Science & Computer Engineering ICAI'08: Artificial Intelligence ICWN'08: Wireless Networks IKE'08: Information & Knowledge Engineering IPCV'08: Image Processing, Computer Vision, & Pattern Recognition BIOCOMP'08: Bioinformatics & Computational Biology MLMTA'08: Machine Learning; Models, Technologies & Applications MSV'08: Modeling, Simulation & Visualization Methods SAM'08: Security & Management SERP'08: Software Engineering Research & Practice ITSL'08: Information Theory & Statistical Learning DMIN'08: Data Mining ERSA'08: Engineering of Reconfigurable Systems & Algorithms CIC'08: Communications in Computing (a link to each conference's URL can be found at http://www.world-academy-of-science.org) PURPOSE/HISTORY: WORLDCOMP is the largest annual gathering of researchers in computer science, computer engineering and applied computing. In 2007, the congress attracted over 2,000 scientists and researchers, including 148 sponsored students. For 2008, we anticipate to have about 2,400 attendees from over 80 countries. WORLCOMP'08 will be composed of research presentations, keynote lectures, invited presentations, tutorials, panel discussions, and poster presentations. In recent past, keynote and/or tutorial speakers included: Prof. Michael J. Flynn (Stanford U.); Prof. John H. Holland (U. of Michigan, Ann Arbor); Prof. H. J. Siegel (Colorado State U.); Prof. Barry Vercoe (MIT); Prof. Ruzena Bajcsy (U. of California, Berkeley); Prof. David Cheriton (Stanford U.), Prof. A. K. Dunker (Indiana U. and Purdue U.); Prof. Jun Liu (Harvard U.); Dr. Jim Gettys (developer of X Window, ...); Dr. Chris Rowen (President and CEO, Tensilica, Inc.); and many other distinguished speakers. FEATURED 2008 KEYNOTE LECTURES: Prof. David A. Patterson University of California at Berkeley, California, USA Member, National Academy of Engineering Member, National Academy of Sciences Fellow of IEEE, ACM, and AAAS Shared (with John Hennessy) the IEEE John von Neumann Medal Prof. Ophir Frieder Georgetown University, Washington, DC, USA The Royden B. Davis, SJ, Chair in Interdisciplinary Studies at Georgetown University, IITRI Chair Professor of Computer Science at Illinois Institute of Technology, Director, Information Retrieval lab (IIT) Fellow of IEEE, ACM, and AAAS (in addition to the above, there will be 30+ keynotes and invited lectures.) FEATURED TUTORIAL: Prof. H. J. Siegel Colorado State University, Fort Collins, Colorado, USA Abell Endowed Chair Distinguished Professor of ECE Professor of Computer Science Director, CSU Information Science and Technology Center (ISTeC) Fellow of IEEE and ACM (in addition to the above, there will also be 11 planned other tutorials). SUBMISSION OF PAPERS: Prospective authors are invited to submit their draft paper (about 5 to 7 pages - single space, font size of 10 to 12) to H. R. Arabnia ( hra@cs.uga.edu ) by March 23, 2008. email submissions in MS document or PDF formats are preferable. All reasonable typesetting formats are acceptable (later, the authors of accepted papers will be asked to follow a particular typesetting format to prepare their papers for publication.) The length of the Camera-Ready papers (if accepted) will be limited to 7 (IEEE style) pages. Papers must not have been previously published or currently submitted for publication elsewhere. The first page of the draft paper should include: title of the paper, name, affiliation, postal address, email address, and telephone number for each author. The first page should also identify the name of the Contact Author and a maximum of 5 topical keywords that would best represent the content of the paper. Finally, the name of the conference that the paper is being submitted to must be stated on the first page. Papers will be evaluated for originality, significance, clarity, impact, and soundness. Each paper will be refereed by two experts in the field who are independent of the conference program committee. The referees' evaluations will then be reviewed by two members of the program committee who will recommend a decision to the chair of the track that the paper has been submitted to. The chair will make the final decision. IMPORTANT DATES: March 23, 2008: Submission of papers (about 5 to 7 pages) April 17, 2008: Notification of acceptance May 3, 2008: Camera-Ready papers and Registration due July 14-17, 2008: The 2008 World Congress in Computer Science, Computer Engineering, and Applied Computing (WORLDCOMP'08 - 25 joint conferences) GENERAL CO-CHAIR / COORDINATOR: Prof. Hamid R. Arabnia Editor-in-Chief, The Journal of Supercomputing (Springer) The University of Georgia Department of Computer Science 415 Graduate Studies Research Center Athens, Georgia 30602-7404, USA Tel: (706) 542-3480 E-mail: hra@cs.uga.edu LOCATION OF CONFERENCES: The conferences will be held in the Monte Carlo hotel, Las Vegas, Nevada, USA (with any overflows at other near-by hotels). This is a mega hotel with excellent conference facilities and over 3,000 rooms. It is minutes from the airport with 24-hour shuttle service to and from the airport. This hotel has many recreational attractions, including: spa, pools, sunning decks, Easy River, wave pool, lighted tennis courts, health spa, nightly shows, a number of restaurants, ... The negotiated room rate for conference attendees is very reasonable. The hotel is within walking distance from most other attractions. SPONSORS: (this is a partial list) Academic/Technical Co-Sponsors: (a partial list) --> Computational Biology and Functional Genomics Laboratory, Harvard University, Cambridge, Massachusetts, USA --> International Society of Intelligent Biological Medicine --> Horvath Lab., University of California, Los Angeles (UCLA), USA --> Minnesota Supercomputing Institute, University of Minnesota, USA --> Functional Genomics Laboratory, University of Illinois at Urbana-Champaign, USA --> BioMedical Informatics & Bio-Imaging Laboratory, Georgia Institute of Technology and Emory University, Atlanta, Georgia, USA --> Intelligent Data Exploration and Analysis Laboratory, University of Texas at Austin, Austin, Texas, USA --> Biomedical Cybernetics Laboratory, HST of Harvard University and MIT, USA --> Center for the Bioinformatics and Computational Genomics, Georgia Institute of Technology, Atlanta, Georgia, USA --> Harvard Statistical Genomics and Computational Laboratory, Harvard University, Cambridge, Massachusetts, USA --> Bioinformatics & Computational Biology Program George Mason University, Virginia, USA --> Hawkeye Radiology Informatics, Department of Radiology, College of Medicine, University of Iowa, Iowa, USA --> Medical Image HPC & Informatics Lab (MiHi Lab), University of Iowa, Iowa, USA --> The University of North Dakota, Grand Forks, North Dakota, USA --> PSU - Prince Sultan University --> Institute for Informatics Problems of the Russian Academy of Sciences, Moscow, Russia. --> NEMO/European Union at Institute of Discrete Mathematics and Geometry, TU Vienna Corporate Co-Sponsors: (a partial list) --> Google, Inc. --> Salford Systems --> NIIT Technologies Other Co-Sponsors: (a partial list) --> High Performance Computing for Nanotechnology (HPCNano) --> International Technology Institute (ITI) --> GridToday - enewsletter focused on Grid, SOA, Virtualization, Storage, Networking and Service-Oriented IT --> HPCwire - The Leading Source for Global News and Information Covering the Ecosystem of High Productivity Computing --> Hodges' Health (H2CM), UK From prash from ruc.dk Sat Mar 15 04:56:36 2008 From: prash from ruc.dk (Prash) Date: Sat Mar 15 19:19:35 2008 Subject: [Computational-biology] Call for Abstracts: ISCB SCS4, Toronto Message-ID: <1205574996.47db9d54643d8@webmail.ruc.dk> Dear All, The chair and Organizing committee of ISCB Student Council Symposia 4 invites abstracts. The event a part of ISMB 2008 is to be in Toronto in July. More details at http://www.iscb.org/submissions/index.php?id=29 All the best, prash Prashanth Suravajhala PhD Fellow http://ruc.dk/~prash/ "If I give you a pfennig, you will be one pfennig richer and I'll be one pfennig poorer. But if I give you an idea, you will have a new idea, but I shall still have it, too. " ~~ Albert Einstein From liuweiguo from ntu.edu.sg Mon Mar 17 02:00:50 2008 From: liuweiguo from ntu.edu.sg (Liu Weiguo) Date: Mon Mar 17 12:00:32 2008 Subject: [Computational-biology] Call for Papers: PRIB 2008 Special Session on High Performance Computing in Bioinformatics Message-ID: <5344B0766728904F8F0CCA2802ECD0F20319546A@EXCHANGE21.staff.main.ntu.edu.sg> -=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=- Call For Papers Special Session on HPC in Bioinformatics held in conjunction with PRIB 2008 http://www.infotech.monash.edu.au/about/news/conferences/prib2008 October 15-17, 2008 Novotel, St Kilda Melbourne, Australia -=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=- High-throughput techniques for bioinformatics have led to exponential growth in the amount of publicly available genomic data, e.g. GenBank has nearly doubled in size each year for the past decade. The large size of biological data sets, inherent complexity of biological problems and the ability to deal with error-prone data all result in large run-time and memory requirements. The goal of this session is to provide a forum for discussion of latest research in developing high-performance computing solutions to problems arising from bioinformatics. We are especially interested in using modern parallel and distributed architectures, such as Reconfigurable architectures (FPGAs), Streaming architectures (GPUs), Multimedia architectures (CellBE), Multi-core architectures, PC Clusters or Grids for compute-intensive Bioinformatics applications such as * Biological Sequence Analysis * Gene Expression Analysis and Microarrays * Protein Folding and Threading * Protein-Ligand Docking * Phylogenetic Tree Reconstruction * Biological Database Scanning (e.g. BLAST, HMMer) * DNA Sequence Assembly * Systems Biology Paper Submission: ------------------------------------------ Manuscript must be submitted electronically via the "Paper Submission System" at http://callforpapers.com.au/prib2008/SubmitPaper.php. Instructions to authors are available at http://www.infotech.monash.edu.au/about/news/conferences/prib08/. All papers will undergo the same review process as all other PRIB 2008 papers and the accepted papers will be published as a volume of Lecture Notes in Bioinformatics or Supplementary Proceedings edited by conference chairs. Important Dates: ------------------------------------------- April 15, 2008 Paper Submissions Due May 15, 2008 Decision Notification June 15, 2008 Camera-ready Submission Special Session Organizers: ----------------------------------------- Bertil Schmidt NICTA VRL University of Melbourne bschm@ee.unimelb.edu.au Weiguo Liu School of Computer Engineering Nanyang Technological University liuweiguo@ntu.edu.sg From grisard from ccb.ufsc.br Mon Mar 17 07:20:42 2008 From: grisard from ccb.ufsc.br (Edmundo C. Grisard) Date: Mon Mar 17 12:00:52 2008 Subject: [Computational-biology] ADVANCED COURSE ON BIOINFORMATICS AND COMPARATIVE GENOME ANALYSIS Message-ID: <1205756442.47de621ad0507@webmail.ccb.ufsc.br> > ----------------------------------------------------------------- > Institut Pasteur / UFSC / Fiocruz / EMBO > > ADVANCED COURSE ON BIOINFORMATICS AND COMPARATIVE GENOME ANALYSIS > > June 30 - July 12, 2008, UFSC, Florian?polis, SC, Brazil > ----------------------------------------------------------------- > > The principle objectives of the course are to familiarize young > scientists(Biologists/Computer Scientists/Mathematicians) with > bioinformatics > and genome data analysis skills and to encourage multi- > disciplinarity by > introducing: > 1- advanced fundamental algorithms in bioinformatics, > 2- their application in genome analyses, > 3- and recent knowledge acquired from genomes studies. > > The course is aimed for motivated Ph.D. and Post-doctoral students, > as well as > young assistant professors and junior scientists in Public > Institutions from > developing countries, who are interested in Bioinformatics and > Genome Analysis. > Twenty (20) full time places are available for the course. > Acceptance will be > subject to an evaluation process and preference will be given to > research > scientists from the International Network of Institute Pasteur > Institutions. > > For more information visit the website: > http://www.pasteur.fr/%7Etekaia/ACBCGA.html -- Prof. Dr. Edmundo C. Grisard --------------------------------------- Universidade Federal de Santa Catarina (UFSC) Centro de Ci?ncias Biol?gicas (CCB) Departamento de Microbiologia e Parasitologia (MIP), Setor F, Bloco A Cx. postal 476, Florian?polis, SC, 88.040900 ? Brasil Fone/Phone: +(48)3721-5164 (Sala/Office)/3721-5517 (Lab.) Fax:+(48)3721-9258 E-mail: grisard@ccb.ufsc.br Website: http://www.proto.ufsc.br --------------------------------------- ---------------------------------------------------------------- This message was sent using IMP, the Internet Messaging Program. From ptan from cse.msu.edu Tue Mar 18 21:32:48 2008 From: ptan from cse.msu.edu (Pang-Ning Tan) Date: Tue Mar 18 22:08:15 2008 Subject: [Computational-biology] SDM 2008 Final Call for Participation Message-ID: [Apologies if you receive multiple copies of this message] ============================================================ CALL FOR PARTICIPATION SDM'08: 2008 SIAM International Conference on Data Mining Sponsored by Society for Industrial and Applied Mathematics (SIAM) Atlanta, Georgia, USA April 24-26, 2008. This conference is held in cooperation with the American Statistical Association (ASA). ============================================================= [Pre-registration deadline: Monday, March 24, 2008] On-line registration and conference program schedule is now available at http://www.siam.org/meetings/sdm08/ HIGHLIGHTS ---------- * 4 plenary talks * 3 full day and 1 half day workshops * 4 tutorials * 40 full and 37 short papers ===================== PLENARY SPEAKERS ===================== * Geometry and Analysis on Digital Data, Emergent Structures and Knowledge Building Ronald Coifman, Yale University * Algorithms for understanding the Sky Andrew W. Moore, Google Inc. * Mining Multilingual Documents Dianne P. O'Leary, University of Maryland at College Park * Data Mining and Materials Informatics Krishna Rajan, Iowa State University ================================ Tutorials ================================ Note that tutorials are complementary with conference registration. * Mining Massive Collections of Shapes and Time Series: With Case Studies in Anthropology and Astronomy Eamonn Keogh, University of California - Riverside * Anomaly Detection Arindam Banerjee, University of Minnesota, Twin Cities Varun Chandola, University of Minnesota, Twin Cities Vipin Kumar, University of Minnesota, Twin Cities Jaideep Srivastava, University of Minnesota, Twin Cities Aleksandar Lazarevic, United Technologies * Data Mining based Social Network Analysis from Online Behavior Jaideep Srivastava, University of Minnesota, Twin Cities Muhammad A Ahmad, University of Minnesota, Twin Cities Nishith Pathak, University of Minnesota, Twin Cities David Kuo-Wei Hsu, University of Minnesota, Twin Cities * Fast N-body Algorithms for Massive Datasets Alex Gray, Georgia Tech =================================== Workshops =================================== * Data Mining for Biomedical Informatics (Full Day) * Link Analysis, Counterterrorism, and Security (Full Day) * Text Mining 2008 (Full Day) * Practical Privacy-Preserving Data Mining (Half Day) From stevet from bio.fsu.edu Fri Mar 21 07:45:03 2008 From: stevet from bio.fsu.edu (Steve Thompson) Date: Sat Mar 22 06:07:00 2008 Subject: [Computational-biology] GCG/SeqLab petition Message-ID: <20080321083045.G1788@epsilon.bio.fsu.edu> Hi all - I apologize for my multiple cross-group postings but I feel the importance and urgency of this message warrant it. As many of you are aware, last summer Accelrys announced that they would be discontinuing support for GCG and SeqLab this upcoming June. That situation dismayed me and others and I wanted to do something about it. I contacted Steven Smith, one of the original authors of SeqLab, and discussed the situation with him. He volunteered to contact Accelrys in an attempt to minimally get SeqLab's license and code released to him. I gave Steve several months to try to persuade the company. Accelrys was not very cooperative. Therefore, I set about creating a petition in an attempt to add some leverage. I've contacted a few of you earlier regarding this initiative and appreciate your support. Anyway, I have created and posted that petition. It's at: http://www.petitiononline.com/gcg/petition.html And a nicely formatted PDF version is available in my own Web space: http://bio.fsu.edu/~stevet/Accelrys_petition.pdf I would very much appreciate you adding your name to this petition, if you agree with our sentiment. Thank you for your time! Cheers - Steve Steven M. Thompson A C T G stevet@bio.fsu.edu \-/ http://bio.fsu.edu/~stevet/cv.html /\ /--| FSU SCS / BioInfo 4U /---/ |--/ Florida State University School of \-/ Computational Science /\ /--\ 1st floor DIRAC 150G |---\ Tallahassee, Florida \---\ 32306-4120 \--| 850-644-4490 \-/ /\ 2538 Winnwood Circle /--\ Valdosta, Georgia /---| 31601-7953 |--/ 229-249-9751 From andy from molsoft.com Fri Mar 21 12:43:07 2008 From: andy from molsoft.com (Andrew Orry) Date: Sat Mar 22 06:08:19 2008 Subject: [Computational-biology] MolSoft ICM Workshop - "Protein Structure and Drug Discovery" May 1-2 2008 Message-ID: <47E3F3AB.2030908@molsoft.com> MolSoft ICM Workshop: "Protein Structure and Drug Discovery" May 1-2 2008 La Jolla CA. Please accept this invitation to attend MolSoft's (www.molsoft.com) Protein Structure and Drug Design Workshop on May 1st to 2nd 2008 in La Jolla California USA. See www.molsoft.com/training.html for more information and a registration form. Our workshops are suitable for chemists and biologists who would like to learn more about computational drug discovery and bioinformatics. No prior knowledge in this field is required to participate. All workshops are presented by Prof. Ruben Abagyan (The Scripps Research Institute) and Dr. Maxim Totrov (MolSoft) and occasional guest speakers. The workshops will consist of lectures, demonstrations and "hands-on" computational experiments and cover the following topics: - Sequence and Protein Structure Analysis - Protein Modeling and Simulations - Structure Validation and Optimization - Ligand Binding Site Prediction - Small Molecule Docking and Virtual Ligand Screening - Structure-based development of target-specific compound libraries - Cheminformatics, chemical clustering, searching, superposition ... - QSAR, machine learning - Protein-Protein Docking We will demonstrate and train you in the use of many of our new developments in computational chemistry and biology including: - 3D ligand editor - design new ligands interactively - Fully-flexible receptor-ligand docking - Multiple Receptor Docking - Automated model building into density - Atomic property field chemical superposition - Fast machine learning tools for QSAR - Pharmacophore drawing and searching - Compound library enumeration tools - Screen-grabbing movie making “The objective of this training workshop is to help chemists and biologists solve challenging problems in the area of drug discovery by efficient use of the science and technology present in ICM molecular modeling tools.” Prof. Ruben Abagyan (The Scripps Research Institute and Co-Founder of Molsoft LLC) Please see our website at www.molsoft.com for more details or E mail andy@molsoft.com or call (858)625 2000 ext.108. Please join the ICM Discussion Forum: http://groups.google.com/group/molsoft-icm-forum MolSoft is a La Jolla based company that is a primary source of new breakthrough technologies in computational chemistry and biology. Molsoft is committed to solving intellectually challenging problems in drug discovery and computational biology. From tagtag0 from gmail.com Mon Mar 24 06:42:23 2008 From: tagtag0 from gmail.com (tagtag0@gmail.com) Date: Mon Mar 24 12:40:52 2008 Subject: [Computational-biology] Call for Papers: PRIB 2008 Special Session on Proteins: structure, function and interaction Message-ID: -=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=- Call For Papers Special Session on Proteins: structure, function and interaction held in conjunction with PRIB 2008 http://www.infotech.monash.edu.au/about/news/conferences/prib2008 October 15-17, 2008 Novotel, St Kilda Melbourne, Australia -=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=- Bioinformatics plays a major role in large scale computations on analysis and prediction of protein structure, function and their interactions. The three-dimensional structures of proteins dictate their functions and the amino acid sequence carries the necessary information for encoding the 3D structure. Hence, prediction of protein structure and function from their amino acid sequences remains a major challenge in Bioinformatics. The sequence and structural analysis reveal deep insights to understand the structure and functions of proteins as well as to derive the numerical values for different parameters. The sequence and structure based parameters have wide range of applications in predicting protein secondary and tertiary structures, solvent accessibility, folding rates, disorder, binding sites in protein complexes, fold recognition and so on Topics include, but are not limited to: In this special session, we invite papers from all areas of protein structure and function using computational techniques. The areas of interest (but not limited to) are as follows: Sequence and structural analysis of proteins and complexes, Prediction of protein secondary and tertiary structures, solvent accessibility and other residue wise parameters, Analysis and prediction of binding sits in protein- protein, protein-nucleic acid, protein-carbohydrate and protein-ligand complexes, Functional prediction of proteins, Machine learning techniques, Database analysis, Protein stability, Patterns in protein structures and their complexes Important dates: * Paper Submission: 15 April 2008 * Decision Notification: 15 May 2008 * Camera-Ready Submission: 15 Jun 2008 Paper Submission: ------------------------------------------ Manuscript must be submitted electronically via the "Paper Submission System" at http://callforpapers.com.au/prib2008/SubmitPaper.php. Instructions to authors are available at http://www.infotech.monash.edu.au/about/news/conferences/prib08/. All papers will undergo the same review process as all other PRIB 2008 papers and the accepted papers will be published as a volume of Lecture Notes in Bioinformatics or Supplementary Proceedings edited by conference chairs. Important Dates: ------------------------------------------- April 15, 2008 Paper Submissions Due May 15, 2008 Decision Notification June 15, 2008 Camera-ready Submission Special Session Organizers: ----------------------------------------- Dr. Michael Gromiha Computational Biology Research Center, AIST, Japan michael-gromiha@aist.go.jp Dr. Shandar Ahmad National Institute of Biomedical Innovation, Japan shandar@nibio.go.jp Prof. Y-h. Taguchi Chuo University, Tokyo. tag@granular.com From angom from cs.uwindsor.ca Mon Mar 24 14:01:46 2008 From: angom from cs.uwindsor.ca (Ngom Alioune) Date: Mon Mar 24 20:00:15 2008 Subject: [Computational-biology] Bioinformatics Conference - PRIB 2008: Special issues, Special sessions and Due dates Message-ID: <200803241901.m2OJ1kqf013644@sol.newcs.uwindsor.ca> ** Our apologies if you receive multiple copies of this announcement * SECOND CALL FOR PAPERS AND TUTORIALS ************************************************************************ Third IAPR International Conference on Pattern Recognition in Bioinformatics (PRIB 2008) October 15 - 17, 2008 (Melbourne, Australia) Web: www.infotech.monash.edu.au/prib08 Email: prib2008.melb@infotech.monash.edu.au Important Deadlines: Paper submission: 15 April 2008 Author notification: 15 May 2008 ************************************************************************ Breaking News ! IAPR STUDENT TRAVEL GRANTS Grants may be possible in few deserving cases. Students DO NOT apply for these grants. The decision for the award of the grant to deserving cases will be based on the recommendation of the program committee and the reviewer reports. SPECIAL ISSUES Authors of selected papers presented (both oral and poster) at PRIB 2008 will be invited to extend their work for consideration for publication in following special issues of reputed journals: a) Elsevier's Pattern Recognition Letters (PRL) journal: Special Issue on "Pattern recognition in bioinformatics" b) Elsevier's Neurocomputing journal: Special Issue on "Neurocomputing in bioinformatics and computational biology" SPECIAL SESSIONS Apart from regular sessions, there are now 5 special sessions soliciting paper submissions a) SS1: Special Session on Neuro Computing for microarray data analysis b) SS2: Special Session on Pattern Recognition in bio-molecular interaction networks c) SS3: Special Session on High performance computing in bioinformatics d) SS4: Special Session on Bioinformatics in genetic disorders and computational vaccinology e) SS5: Special Session on Proteins: structure, function and interaction Papers presented in special sessions will undergo the same review process as regular papers and will be included in conference proceedings. ***************************************** CONTACT PRIB 2008 Secretariat Gippsland School of Information Technology Monash University Victoria - 3842, Australia Email: prib2008.melb@infotech.monash.edu.au ***************************************** From markII from came.sbg.ac.at Tue Mar 25 09:39:25 2008 From: markII from came.sbg.ac.at (Markus Wiederstein) Date: Tue Mar 25 11:36:18 2008 Subject: [Computational-biology] TopMatch protein structure alignment and superposition web service Message-ID: We are pleased to announce the release of TopMatch-web, a public web service for the alignment and superposition of protein structures and the instant visualization of structural similiarities. We believe that TopMatch is an exceptionally effective, accurate, and enjoyable program for the investigation of protein structure similarities. For further information and instructive examples see Sippl & Wiederstein (2008) A Note on Difficult Structure Alignment Problems. Bioinformatics 24, pp. 426-427 TopMatch-web is available as a public web service at http://topmatch.services.came.sbg.ac.at. Enjoy! The TopMatch Team Center of Applied Molecular Engineering University of Salzburg Austria From ELPWang from ntu.edu.sg Thu Mar 27 07:02:51 2008 From: ELPWang from ntu.edu.sg (Lipo WANG) Date: Thu Mar 27 13:22:16 2008 Subject: [Computational-biology] Extended Deadline 10 April; ICNC'08-FSKD'08: Jinan, China Message-ID: * Due to numerous requests, the submission deadline is now extended * * to 10 April. * * * Kindly forward to your colleagues or students who may be interested * * Our apologies if you receive multiple copies of this announcement. * ---------------------------------------------------------------------- The 4th International Conference on Natural Computation (ICNC'08) The 5th International Conference on Fuzzy Systems and Knowledge Discovery (FSKD'08) ---------------------------------------------------------------------- 25-27 August 2008, Jinan, China *** Extended Submission Deadline: 10 April 2008 *** ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ http://www.icnc-fskd2008.sdu.edu.cn ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ Call for Papers, Invited Sessions & Sponsorship The joint ICNC'08-FSKD'08 will be held in Jinan, China. Jinan is the capital of Shandong Province, which is known for the home of Confucius, the Taishan Mountain, and the Baotu Spring. ICNC'08-FSKD'08 aims to provide an international forum for scientists and researchers to present the state of the art of intelligent methods inspired from nature, including biological, ecological, and physical systems, with applications to data mining, manufacturing, design, and more. It is an exciting and emerging interdisciplinary area in which a wide range of techniques and methods are being studied for dealing with large, complex, and dynamic problems. Previously, the joint conferences in 2005, 2006 and 2007 each attracted over 3000 submissions from more than 30 countries. To promote international participation of researchers from outside the country/region where the conference is held (i.e., China), foreign experts are encouraged to propose invited sessions. Each invited session should have at least 4 papers. Invited session organizers will solicit submissions, conduct reviews and recommend accept/reject decisions on the submitted papers. All invited session organizers will be acknowledged in the conference proceedings. Each invited session proposal should include the following information: (1) the name(s) and contact information of invited session organizer(s); (2) the title and a short synopsis of the invited session. Please send your proposal to nc2008@sdu.edu.cn For more information, visit the conference web page. If you have any questions after visiting the conference web page, please email the secretariat at nc2008@sdu.edu.cn Join us at this major event in historic Jinan !!! ----- Lipo WANG School of Electrical and Electronic Engineering Nanyang Technological University Block S1, 50 Nanyang Avenue, Singapore 639798 http://www.ntu.edu.sg/home/elpwang Phone: +65 6790 6372 Fax +65 6793 3318 elpwang@ntu.edu.sg From jqb from Cs.Nott.AC.UK Thu Mar 27 07:16:08 2008 From: jqb from Cs.Nott.AC.UK (Jaume Bacardit) Date: Thu Mar 27 13:22:23 2008 Subject: [Computational-biology] IWLCS2008 - Paper submission deadline extended to April 4th Message-ID: <47EB9008.2070905@cs.nott.ac.uk> Our apologies if you receive multiple copies of this announcement. -------------------------------------------------------------------------------- 11th International Workshop on Learning Classifier Systems to be held as part of the 2008 GENETIC AND EVOLUTIONARY COMPUTATION CONFERENCE (GECCO-2008) July 12-16, 2008 (Saturday-Wednesday) Renaissance Atlanta Hotel Atlanta, Georgia, USA Sponsored by ACM SIGEVO www.sigevo.org/GECCO-2008 PAPER SUBMISSION DEADLINE FOR WORKSHOP: April 4th, 2008 Workshop Website: http://www.psychologie.uni-wuerzburg.de/i3pages/butz/IWLCS2008 -------------------------------------------------------------------------------- The Eleventh International Workshop on Learning Classifier Systems (IWLCS 2008) will be held in Atlanta, Georgia, USA, Sunday, July 13, 2008 during the Genetic and Evolutionary Computation Conference (GECCO-2008), July 12-16, 2008. Originally, Learning Classifier Systems (LCSs) were introduced by John H. Holland as a way of applying evolutionary computation to machine learning and adaptive behavior problems. Sine then, the LCS paradigm has broadened greatly into a framework that encompasses many representations, rule discovery mechanisms, and credit assignment schemes. Current LCS applications range from data mining, to automated innovation and the on-line control of cognitive systems. LCS research includes various actual system approaches: While Wilson's accuracy-based XCS system (1995) has received the highest attention and gained the highest reputation, studies and developments of other LCSs are usually discussed and contrasted. Advances in machine learning, and reinforcement learning in particular, as well as in evolutionary computation have brought LCS systems the necessary competence and guaranteed learning properties. Novel insights in machine learning and evolutionary computation are being integrated into the LCS framework. Thus, we invite submissions that discuss recent developments in all areas of research on, and applications of, Learning Classifier Systems. IWLCS is the event that brings together most of the core researchers in classifier systems. Moreover, a free introductory tutorial on LCSs is presented the day before the workshop at GECCO 2008. Tutorial and IWLCS workshop thus also provide an opportunity for researchers interested in LCSs to get an impression of the current research directions in the field as well as a guideline for the application of LCSs to their problem domain. Submissions and Publication --------------------------- Submissions will be short-papers up to 8 pages in ACM format. Please see the GECCO 2008 information for authors for further details. All accepted papers will be presented at IWLCS 2008 and will appear in the GECCO workshop volume. Proceedings of the workshop will be published on CD-ROM, and distributed at the conference. Authors will be invited after the workshop to submit revised (full) papers for publication in the next post-workshop proceedings volume (scheduled for 2009), in the Springer LNCS/LNAI book series. All papers should be submitted in PDF format and e-mailed to: esterb[at]salle.url.edu. Important dates --------------- * Paper submission deadline: Friday, April 4th, 2008 * Notification to authors: Friday, April 11th, 2008 * Submission of camera-ready material: by Friday, April 18, 2008 * Conference registration by Monday, April 21, 2008 * Workshop date: Sunday, July 13, 2008 Committees ---------- - Organizing Commitee * Jaume Bacardit, University of Nottingham (UK). E-mail: jaume.bacardit@nottingham.ac.uk * Ester Bernad-Mansilla, Universitat Ramon Llull (Spain). E-mail: esterb@salle.url.edu * Martin V. Butz, Universitat Wurzburg (Germany). E-mail: mbutz@psychologie.uni-wuerzburg.de - Advisory Committee * Tim Kovacs, University of Bristol (UK) * Xavier Llor University of Illinois at Urbana-Champaign (USA) * Pier Luca Lanzi, Politechnico de Milano (Italy) * Wolfgang Stolzmann, Daimler Chrysler AG (Germany) * Keiki Takadama, Tokyo Institute of Technology (Japan) * Stewart Wilson, Prediction Dynamics (USA) Further information ------------------- For more details, please visit the workshop website at: http://www.psychologie.uni-wuerzburg.de/i3pages/butz/IWLCS2008 This message has been checked for viruses but the contents of an attachment may still contain software viruses, which could damage your computer system: you are advised to perform your own checks. Email communications with the University of Nottingham may be monitored as permitted by UK legislation. From masulli from disi.unige.it Fri Mar 28 06:34:06 2008 From: masulli from disi.unige.it (Francesco Masulli) Date: Fri Mar 28 11:34:47 2008 Subject: [Computational-biology] CFP: CIBB 2008 3-4 October, 2008 Vietri sul Mare, Salerno (Italy) Message-ID: <200803281234.07353.masulli@disi.unige.it> Please, accept our apologies for multiple postings. ========================================================================================= CIBB 2008 FIFTH INTERNATIONAL MEETING ON COMPUTATIONAL INTELLIGENCE METHODS FOR BIOINFORMATICS AND BIOSTATISTICS IIASS - Vietri sul Mare, Salerno (Italy) 3-4 October, 2008 Conference Website: http://cibb08.disi.unige.it/ The main goal of the CIBB meetings is to provide a forum open to researchers from different disciplines to present and discuss problems concerning computational techniques in bioinformatics, systems biology and medical informatics with a particular focus on Neural Networks, Machine Learning, Fuzzy Logic, and Evolutionary Computation methods. CIBB 2008 is jointly organized by: * INNS - International Neural Network Society, SIG Bioinformatics * ISCB International Society for Computational Biology * GNCS Gruppo Nazionale Calcolo Scientifico * SIREN - Italian Neural Networks Society * DISI - Univ. Genova (Italy) * DMI - Univ. Salerno (Italy) Technical areas addressed by CIBB 2008 include, but are not limited to: * Sequence analysis, promoter analysis and identification of transcription factor binding sites * Gene expression data analysis * Methods for the integration of clinical and genetic data * Algorithms for alternative splicing analysis * Methods for the functional classification of genes * Methods for the unsupervised analysis, validation and visualization of structures discovered in bio-molecular data * Prediction of secondary and tertiary protein structures * Mass spectrometry data analysis in proteomics * Methods for comparative genomics * Algorithms for molecular evolution and phylogenetic analysis * Mathematical modelling and simulation of biological systems * Heterogeneous data integration and data fusion for diagnostics * Bio-molecular databases and data mining * Algorithms for pharmacogenetics * Bio-medical text mining and imaging * Methods for diagnosis and prognosis * Software tools for bioinformatics Prof. Giuseppe Russo of Temple Univ, Philadelphia (PA-USA) has confirmed to deliver an invited talk at CIBB 2008. The scientific program will include, besides some plenary talks, contributed papers that will be presented in plenary oral or poster sessions. Accepted papers will be published in the compact disk of conference proceedings. A selection of papers presented at CIBB 2008 will be published a in post conference volume printed by an international publisher. Moreover, a selection of more relevant papers will be considered for publication in extended form in a special issue of a scientific journal we are planning. Chairs: Francesco Masulli, Universit? di Genova, Italy and Temple University, PA, USA Roberto Tagliaferri, Universit? di Salerno, Italy Gennady M. Verkhivker, University of Kansas, KS, USA, and University of California San Diego, CA, USA Scientific Program Committee: Joaquin Dopazo, Centro de Investigacion Principe Felipe, Valencia, Spain Antonio Giordano, Temple Univ, Philadelphia, PA, USA Emmanuel Ifeachor, University of Plymouth, UK Samuel Kaski, Helsinki University of Technology, Finland Natalio Krasnogor, University of Nottingham, UK Giancarlo Mauri,University of Milano Bicocca, Italy Oleg Okun, University of Oulu, Finland Giulio Pavesi, University of Milan, Italy David Alejandro Pelta, University of Granada, Spain Graziano Pesole, University of Bari, Italy Leif E. Peterson, Baylor College of Medicine Houston, TX, USA Volker Roth, ETH Zurich, Switzerland Giuseppe Russo, Temple Univ, Philadelphia, PA, USA Jean-Philippe Vert, Ecole des Mines de Paris, France (list to be updated) Steering Commitee: Pierre Baldi, University of California, Irvine, CA, USA Alexandru Floares, Oncological Institute Cluj-Napoca, Romania Jon Garibaldi, University of Nottingham, UK Francesco Masulli, University of Genova, Italy and Temple University, PA, USA Roberto Tagliaferri, University of Salerno, Italy Important Dates: Special Session Proposals: 15 May 2008 Paper submission deadline: 30 May 2008 Notification of acceptance: 30 June 2008 Final paper due: 1 September 2008 Conference: 3-4 October 2008 Special sessions: Special sessions proposals including session's title and scope, short cv of sessions chairs, preliminary list of papers (titles and authors) are due by May 15 2008. Proposals of special sessions will be evaluated as soon as they will be submitted. Please, send the proposals to cibb2008chair@disi.unige.it Paper submission: Papers must be prepared following the guidelines illustrated on the CIBB web site and cannot be longer than 10 pages. The submission of papers will be done by uploading their PDF version on the CIBB web site. =================================================== CIBB 2008 FIFTH INTERNATIONAL MEETING ON COMPUTATIONAL INTELLIGENCE METHODS FOR BIOINFORMATICS AND BIOSTATISTICS IIASS - Vietri sul Mare, Salerno (Italy) 3-4 October, 2008 Conference Website: http://cibb08.disi.unige.it/ email: cibb2008chair@disi.unige.it ================================================== From Bettina.Berendt from cs.kuleuven.be Fri Mar 28 06:31:35 2008 From: Bettina.Berendt from cs.kuleuven.be (Bettina Berendt) Date: Fri Mar 28 11:34:52 2008 Subject: [Computational-biology] 2nd Call for Workshop Proposals: 8th IEEE Int. Conf. on Data Mining (ICDM 2008) Message-ID: ----------- Apologies for cross-postings ---------- ========= 2nd Call for Workshop Proposals ========= ICDM '08: The 8th IEEE International Conference on Data Mining Sponsored by the IEEE Computer Society December 15 and 19, 2008 Pisa, Italy http://icdm08.isti.cnr.it/ ----------------------------------------------------------------------------- Workshop Proposals Due: April 15, 2008 Please email your workshop proposal to icdm08-workshops@isti.cnr.it The Program Committee of the 8th IEEE International Conference on Data Mining (ICDM '08) invites proposals for Workshops. The Workshops will be held on December 15 and 19, 2008, the first and last ICDM Conference days. The workshop organizers will be responsible for advertising the workshop, forming the program committees, reviewing and selecting the papers, and guaranteeing high quality worthy of the prestige and range of the Conference. All papers accepted for workshops will be included in the Workshop Proceedings published by the IEEE Computer Society Press and will be available at the workshops. The workshop organizers will also have the discretion of editing selected papers (after their expansion and revision) into books or special journal issues. Workshops may be full-day or half-day. A full-day workshop should select 12-16 regular papers, while a half-day workshop should select 6-8 regular papers, from a large number of submissions. A "forward to workshops" mechanism will be adopted this year, where a paper not accepted for the conference can be (at the author's request) "fast-tracked" to a workshop, preserving reviews. The workshop organizer could take this into consideration in paper selection; they are free to combine this with workshop-specific reviews and also free in their weighting of the conference reviews. The workshop organizers should ensure the presence of authors of accepted papers at the workshops. Each workshop subject will focus on new research challenges and initiatives in Data Mining. The workshops should provide an informal and vibrant forum for researchers and industry practitioners to share their research results and practical development experiences in the data mining field. To further this goal, we specifically encourage workshop proposers to employ innovative modes of calls for papers and of interaction during the workshop, and to describe these modes in their workshop proposal. -------------------------------------------------------------------------------- Workshop Proposal Submission Workshop proposals should include the following elements: - Title of the workshop - Your name(s), affiliation(s), mailing address(es) and e-mail address(es) - A description of the topic of the workshop (not exceeding 500 words) and a first version of the call for papers - A short description of the target audience - Type of the workshop (full-day or half-day) - A description of how the workshop will contribute to the field of Data Mining and/or relevant Technology, specifically how it will foster innovative fields in Data Mining. - A short description of the workshop?s relation to other events on the same or similar topics that take place at other venues close in time to ICDM?08 - Arrangements for the organization of the workshop, including a brief outline of the workshop describing anticipated format and possible session names - A short description on how the workshop will be advertised so as to ensure a sufficiently wide range of authors and high quality papers - A short description of the planned publication strategy - Names, addresses, and home page links of people who have agreed to be part of the workshop program committee if the workshop proposal is accepted - A brief description of the organizers' experience and background in the topic, and links to web pages of the workshop chairs After the acceptance of a workshop proposal the organizer(s) should: - Create a "Call for papers/participation" for the workshop - Create a Web page for the workshop, the link of which will be published on the Conference Web site - Create a Board of Reviewers (Program Committee) - Review and select papers - Schedule the workshop activities All submitted papers will be reviewed on the basis of technical quality, relevance, significance, and clarity. Those papers selected by a workshop organizer will also be reviewed by the Workshop Co-Chairs for final acceptance. We will provide an online paper submission and review system to support the workshops. -------------------------------------------------------------------------------- Important Dates - April 15, 2008: Workshop proposal due (Please send proposals by e-mail to icdm08-workshops@isti.cnr.it ) - May 10, 2008: Notification to workshop proposers - May 20, 2008: Each workshop organizer sends out Call for Workshop Papers - August 1, 2008: Due date for full workshop papers (at least two reviews for each paper) - September 22, 2008: Notification of paper acceptance to authors - October 7, 2008: Camera-ready of accepted papers - December 15 and 19, 2008: Workshop days -------------------------------------------------------------------------------- Workshop Chairs: Bettina Berendt (Katholieke Universiteit Leuven, Belgium) Francesco Bonchi (Yahoo! Research Barcelona, Spain) From Luis.Caires from di.fct.unl.pt Fri Mar 28 21:55:59 2008 From: Luis.Caires from di.fct.unl.pt (=?ISO-8859-1?Q?Lu=EDs_Caires?=) Date: Sat Mar 29 13:00:04 2008 Subject: [Computational-biology] Two PostDoc Positions (Computational / Systems Biology) Message-ID: The Center of Informatics and Information Technology (CITI) at the Faculty of Sciences and Technology, New University of Lisbon (FCT/UNL) is seeking candidates for two (2) post-doctoral positions. Important note: these are up to 1-5 year work contracts, not just fellowships, see below. The positions are being opened in the context of the BIOINFO FCT/UNL project, involving several research units at FCT/UNL. *** DEADLINE 9 ABRIL 08 **** ======================================================= (C2007-418-CITI-1b Position A) A post-doctoral researcher interested in the development of computational formalisms and techniques to model and analyze biological phenomena. The ideal candidate should have a Ph.D. in computer science or a related area, preferably with a background in formal models of computation (e.g., process-calculi, model-checking), and interest in applications to biology, preferably from the viewpoint of systems biology. We may consider candidates with a Ph.D. in another subject areas, provided that they may demonstrate a strong knowledge and interest in (systems) biology and solid skills in computer science. (C2007-418-CITI-1b Position B) A post-doctoral researcher interested in the design and analysis of algorithms for the simulation of complex biological systems, involving the use of parallelism, concurrency, and probabilistic non-determinism, or in the design and analysis of algorithms for storing and searching in large scale data sets. The ideal candidate should have a Ph.D. in computer science with a background in some of the following: design and analysis of parallel algorithms, data structures, concurrent programming. ====================================================== The work environment for both positions will be the Programming Languages and the Parallel Processing Research Streams of the CITI. More information about the research environment and its members may be found at the CITI website: citi.di.fct.unl.pt. Monthly salary is in the range of 2100 Euro/month (after taxes) ,14 Months/Year, plus the social benefits established by the portuguese law. The positions are funded by the "Commitment with Science" program, launched by the Portuguese National Foundation for Science and Technology. The program aims to provide fixed duration work contracts between the researchers and the host institution. More info at http://alfa.fct.mctes.pt/apoios/contratacaodoutorados/. A preference will be given to candidates with at least 3 years of post doctoral research experience. The official announcements may be found at the eracareers website, under the reference codes listed above. http://www.eracareers.pt/ Applications should include a detailed curriculum vitae, in pdf format and should be sent to CITI - Centro de Informatica e Tecnologias da Informa??o Faculdade de Ci?ncias e Tecnologia, Universidade Nova de Lisboa 2829-516 Caparica, Portugal E-mail: citi-admin@di.fct.unl.pt Telephone: +351 212 948 536 Fax: +351 212 948 541 Please email me for any further questions Luis Caires ============================================= General Info on CITI (citi.di.fct.unl.pt) The CITI (Centro de Inform?tica e Tecnologias da Informa??o - Centre for Informatics and Information Technologies ) is a research center partially funded by the Portuguese National Science Foundation (Funda??o para a Ci?ncia e Tecnologia) and by the Universidade Nova de Lisboa, Faculty of Sciences and Technology (FCT/UNL), Department of Informatics , where it is hosted since its foundation in 1997. CITI's research team is currently composed by more that 50 researchers, with a broad coverage of classical and emergent topics ranging from theoretical foundations to applications, one of the largest research units in Computer Science and Informatics in Portugal. From genomicshakthee2008 from gmail.com Sat Mar 29 06:30:00 2008 From: genomicshakthee2008 from gmail.com (genomicshakthee08) Date: Sat Mar 29 13:00:09 2008 Subject: [Computational-biology] information Reg... Message-ID: Dear friends, My Name is Shakthee, I am doing Master Degree in Bioinformatics For my project work . I chose "Analysis of protein -protein Intraction in breast cancer protein and comparesion Neuclotide sequences of that same protein", if anybody interest to cowork in my research project. contact me on mail. i will be waiting for veluable reply from my friends. Thanking you Your's friendly Shakthee From shandar from nibio.go.jp Sun Mar 30 03:37:39 2008 From: shandar from nibio.go.jp (Shandar Ahmad) Date: Sun Mar 30 14:04:31 2008 Subject: [Computational-biology] Bioinformatics Conference - PRIB 2008: Special issues, Special sessions and Due dates Message-ID: <20080330083739.AC4E392807E@intnewmail.nibio.go.jp> ** Our apologies if you receive multiple copies of this announcement * SECOND CALL FOR PAPERS, INVITED SESSIONS AND TUTORIALS ************************************************************************ Third IAPR International Conference on Pattern Recognition in Bioinformatics (PRIB 2008) October 15-17, 2008 (Melbourne, Australia) Web: www.infotech.monash.edu.au/prib08 Email: prib2008.melb@infotech.monash.edu.au Important Deadlines: Paper submission: 15 April 2008 Author notification: 15 May 2008 ************************************************************************ Breaking News ! IAPR STUDENT TRAVEL GRANTS Grants may be possible in few deserving cases. Students DO NOT apply for these grants. The decision for the award of the grant to deserving cases will be based on the recommendation of the program committee and the reviewer reports. SPECIAL ISSUES Authors of selected papers presented (both oral and poster) at PRIB 2008 will be invited to extend their work for consideration for publication in following special issues of reputed journals: a) Elsevier's Pattern Recognition Letters (PRL) journal: Special Issue on "Pattern recognition in bioinformatics" b) Elsevier's Neurocomputing journal: Special Issue on "Neurocomputing in bioinformatics and computational biology" SPECIAL SESSIONS Apart from regular sessions, there are now 5 special sessions soliciting paper submissions a) SS1: Special Session on Neuro Computing for microarray data analysis b) SS2: Special Session on Pattern Recognition in bio-molecular interaction networks c) SS3: Special Session on High performance computing in bioinformatics d) SS4: Special Session on Bioinformatics in genetic disorders and computational vaccinology e) SS5: Special Session on Proteins: structure, function and interaction Papers presented in special sessions will undergo the same review process as regular papers and will be included in conference proceedings. ***************************************** CONTACT PRIB 2008 Secretariat Gippsland School of Information Technology Monash University Victoria - 3842, Australia Email: prib2008.melb@infotech.monash.edu.au *****************************************