From mourad12345678 from yahoo.com Tue Mar 4 10:19:27 2008 From: mourad12345678 from yahoo.com (Mourad Elloumi) Date: Tue Mar 4 12:12:05 2008 Subject: [Bionews] 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 georgina.moulton from manchester.ac.uk Tue Mar 4 12:52:23 2008 From: georgina.moulton from manchester.ac.uk (Georgina Moulton) Date: Wed Mar 5 11:39:37 2008 Subject: [Bionews] Implementing Ontologies in OWL Tutorial Announcement and Call for Registration Message-ID: IMPLEMENTING ONTOLOGIES IN OWL Tutorial Announcement and Call for Registration The Bio-Health Informatics Group at the University of Manchester invites you to participate in their internationally renowned OWL Ontology tutorials. **INTRODUCTORY COURSE** Introduction to Implementing Ontologies in OWL This two-day introductory 'hands-on' workshop aims to provide attendees with both the theoretical foundations and practical experience to begin building OWL ontologies using the latest version of the Prot?g?-OWL tools (Protege4). TEACHING OUTCOMES In this tutorial attendees will: * Learn the basic principles of OWL based ontologies using styles developed at The University of Manchester and in the Semantic Web Best Practice Working Party * Gain hands-on experience with ontology development using the Prot?g?-OWL tools * Learn how to use the expressive power of OWL and to take advantage of its inferencing capabilities to build robust, reusable models * Learn about knowledge acquisition techniques and use them to model a subject domain * Be introduced to the skills needed to participate in the growing community of users/developers of OWL The tutorial is very much a 'hands-on' experience. By the end of the tutorial you will have gained sufficient experience in order to model knowledge using the Prot?g? software. Short talks included in both days introduce the theoretical aspects of ontology design. **ADVANCED COURSES** Modelling Biological Knowledge in OWL This is an advanced tutorial aimed at those researchers who are interested in modelling life sciences in OWL. Participants should have a basic understanding of OWL concepts and biology terms, which can be gained by attending the introductory course. AIMS The overall goals for this tutorial are fourfold: 1) To highlight what requirements in the biological domain are met by OWL's model 2) To illustrate possible solutions to overcome some limitations of OWL 3) To provide an insight into the challenges posed by biology and aspects of biological knowledge that cannot be captured in OWL 4) To understand what aspects of the way we think about biology are sensibly captured in an OWL ontology TEACHING OUTCOMES At the end of the tutorial attendees will have an understanding of how to model biological concepts in OWL; understand the limitations that OWL presents and be able to overcome some of these using design patterns. This understanding will include what can reasonably be done in an OWL ontology. Modelling Medical Knowledge in OWL This tutorial aims to provide attendees with an understanding of how to model medical knowledge in OWL. In particular, attendees will have a 1) Understand how to build basic disease/disorder and anatomical descriptions in a normalised ontology in OWL 2) Understand how to use "Situations" to represent codable conditions and procedures in OWL 3) Understand the use of negation with "Situations" and its significance for doing and Electronic Health Records 4) Acquire a high level overview of how to express quantities in OWL 5) Understand the use of static modules in OWL using Protege4Alpha COURSE TUTORS The courses have been developed and are delivered by researchers in the BioHealth Informatics Group at The University of Manchester. Tutors include: Professor Alan Rector, Dr. Robert Stevens, Dr. Sebastian Brandt, Dr. Georgina Moulton and Simon Jupp. REGISTRATION FOR COURSES There is no charge to members of the JISC community (anyone from a UK University or related institution), but attendees will be responsible for paying for their own travel, accommodation and evening meal. Inexpensive and convenient, but basic accommodation can normally be arranged through the Manchester Business School. For other accommodation see contact below. For other participants the tutorials cost ?350 per day. This includes: * Use of in-class hands-on equipment * Comprehensive course materials * Morning and afternoon refreshments * Lunch * Course Completion Certificate To register for advertised tutorials, please go to the following registration page: http://www.nibhi.org.uk/eventRegistration/default.aspx TUTORIAL TIMETABLE 2008 All tutorials will be held at The University of Manchester. 2008 31 March /1 April An Introduction to Implementing Ontologies in OWL 22/23 April Modelling Medical Knowledge in OWL 7/8 May Modelling Biological Knowledge in OWL FURTHER INFORMATION For further information about the courses please visit the Northwest Institute for Bio-Health Informatics website (http://www.nibhi.org.uk ) or the CO-ODE project website (http://www.co-ode.org ). Dr. Georgina Moulton Bio/Health Informatics Education and Development Fellow Northwest Institute for Bio-Health Informatics The University of Manchester University Place (1st Floor) Oxford Road Manchester M13 9PL Telephone: +44 (0)161 275 1125 From clements from nescent.org Mon Mar 24 15:32:48 2008 From: clements from nescent.org (Dave Clements) Date: Mon Mar 24 15:57:58 2008 Subject: [Bionews] GMOD Summer School, July 11-13, 2008, Durham, NC, USA Message-ID: GMOD Summer School 11-13 July, 2008 National Evolutionary Synthesis Center (NESCent) Durham, North Carolina, USA The first GMOD Summer School (http://gmod.org/GMOD_Summer_School) will be held July 11-13, 2008 at the National Evolutionary Synthesis Center (NESCent), in Durham, North Carolina, USA. GMOD is a collection of interoperable open source software components for managing genomic data. GMOD components are used in diverse contexts, with both emerging and established model organisms. The course will provide an overview of GMOD and cover these popular components in detail: * Chado - a modular and extensible database schema * Apollo - genome annotation editor * GBrowse - genome viewer * CMap - comparative map viewer * Community Annotation System - GMOD's most popular components in a single system This is a 2 1/2 day hands-on workshop aimed at teaching new GMOD users how to get up and running with popular GMOD components. There will also be a concurrent 1 day session aimed at principal investigators that will give decision makers an overview of what GMOD can do, how the project operates, and what level of resources are needed to use GMOD. The National Evolutionary Synthesis Center (NESCent, http://nescent.org) has joined the GMOD project with the goal of lowering the barrier to entry for research communities focused on emerging model organisms. The GMOD Summer School is a part of this effort. NESCent is also extending GMOD components, particularly Chado, to better support comparative and evolutionary data. If you are interested in attending the GMOD Summer School please submit a Statement of Interest before April 15, 2008. The course is free but enrollment is limited. For application information and a tentative program see: http://gmod.org/GMOD_Summer_School Please let me know if you have any questions, comments, or requests. Thanks, Dave Clements GMOD Help Desk help@gmod.org ------------------------ NESCent offers various courses and workshops, as well as funding post-doctoral and sabbatical positions, working groups and other meetings. For more information about research and training opportunities at NESCent, visit our website at www.nescent.org. Sign up for our quarterly electronic newsletter at http://www.nescent.org/about/contact.php to automatically receive information about events at NESCent. From shandar from nibio.go.jp Sun Mar 30 03:36:13 2008 From: shandar from nibio.go.jp (Shandar Ahmad) Date: Sun Mar 30 14:04:27 2008 Subject: [Bionews] Bioinformatics Conference - PRIB 2008: Special issues, Special sessions and Due dates Message-ID: <20080330083613.9B948928086@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 ***************************************** From DrKJRoberts from gmail.com Mon Mar 31 13:05:16 2008 From: DrKJRoberts from gmail.com (DrKJRoberts@gmail.com) Date: Mon Mar 31 13:34:53 2008 Subject: [Bionews] 59th International Science and Engineering Fair - Call for Judges Message-ID: The 59th ISEF will be held this year in Atlanta, Georgia May 11th-17th. I am looking for volunteers to serve as Grand Awards Judges in the Microbiology Category, but we can also use judges in every other category. Last year's ISEF in Albuquerque, New Mexico, over 45 different countries sent 1510 secondary school finalists to compete. We expect the same turn out at this year's Fair. I am looking for judges to choose the top finalists who will compete for thousands of dollars in prizes and awards. Grand Awards Judges will arrive in Atlanta on Tuesday, May 13 for orientation and pre-judging and will judge on Wednesday, May 14. This is the premier worldwide science research competition for high school students grades 9-12 and we need your support. If you are interested in serving as a judge at this year's ISEF, please go to the following website and register: http://www.intelisef2008.org/judging.html If you need more information, don't hesitate to contact me at drkjroberts@gmail.com Karl J. Roberts, Ph.D. Co-Chair, Microbiology Division International Science and Engineering Fair