From frist from coe01.ucalgary.ca Sat Apr 4 20:38:23 2009 From: frist from coe01.ucalgary.ca (Brian Fristensky) Date: Mon Apr 6 09:12:42 2009 Subject: [Genstructure] Applied Computational Genomics Course Message-ID: <200904050138.n351cNsQ023674@coe01.ucalgary.ca> Genome Canada APPLIED COMPUTATIONAL GENOMICS COURSE (ACGC) Led by Dr. Brian Fristensky WESTERN CANADA- JULY 14 TO JULY 20, 2009 - Calgary, Alberta, Canada EASTERN CANADA- AUGUST 25 TO AUGUST 31, 2009 - Montreal, Quebec, Canada www.gcbioinformatics.ca/training Since 2003, the ACGC courses have helped laboratory biologists become power users of the latest software tools. Through mastery of fundamental bioinformatics skills, this week-long course enables working biologists to take charge of their data and their projects. The ACGC course utilizes a wide array of popular software, within the context of a portable and comprehensive bioinformatics system. 1. BIRCH (Biological Research Computer Heirarchy) (http://home.cc.umanitoba.ca/~psgendb): o Provides a complete bioinformatics suite for analysis of sequences, molecular markers, phylogenetic trees, mircoarrays, and data mining and management. o Automates use of a wide range of programs (for example, BLAST, FASTA, clustalw, Phylip and many others) through a highly accessible graphic interface. o Fosters a unique environment for experimentation with data. 2. The Bluejay genome browser (http://bluejay.ucalgary.ca/) o Creates a means for visualization of the wealth of information hidden within the complexity of the genomes. o Permits comparisons of the organization of two or more chromosomes. o Allows for visualization of hot spots of gene expression. o Facilitates the annotation of new genomes. 3. Genome Canada Bioinformatics Help Desk (http://gchelpdesk.ualberta.ca/) o Beginner-level introduction to Perl scripting . o Gives consultation on bioinformatics problems on a fee-for-service basis. o Offers a repository of software. o Provides web tools, including BASys (Bacterial Annotation System), PlasMapper, BacMap CGView and others. 4. BioMoby (http://www.biomoby.org/) o Automatically discovers web services worldwide that work with almost any kind of biological data. o Facilitates the learning of Perl Scripts for leveraging web services for maximizing research outcomes. o Creates high-throughput data pipelines through implementation of the Taverna workbench. Proficiency with bioinformatics tools raises the bar with success in pure and applied research activity, thesis supervisory roles, publication potential, career placement opportunities, and the viability of funding avenues. After the course, attendees of the ACGC will have FREE internet access to all the Bioinformatics Platform tools and databases used in this course. All software is also freely downloadable. Faculty Faculty for the ACGC include some of the best recognized bioinformaticians from across Canada, including Drs. Christoph Sensen, Brian Fristensky, David Wishart, and Mark Wilkinson. Dr. Christoph Sensen was recently featured in international media for his breakthrough research on degenerative disorders linked to chronic wasting disease (CWD) in elk and Mad Cow Disease. Dr. Mark Wilkinson has recently been profiled in publications from a diverse range of international research organizations such as the Heart and Stroke Foundation of Canada, Microsoft Research, and the National E-Science Centre of the UK for his groundbreaking work into data and knowledge representation in the biological sciences, and in cardiovascular research in particular. Dr. David Wishart has been actively involved in teaching and developing bioinformatics training programs across Canada and the United States for more than 10 years. He has published more than 150 papers on bioinformatics and various "omics! " technologies. Dr. Fristensky has been a contributor to the fields of bioinformatics and plant molecular biology since the early 1980's. Publications span a range of interests, including resistance to biotic and abiotic stress in crops, software for DNA and protein sequence analysis, management of biological databases, and improving software usability in bioinformatics. Registration and further information Early Bird enrolment in the week-long course extends now to June 1, 2009 for the Calgary course and to July 1, 2009 for the Montreal course, at a reduced fee of $1,250 Cdn. for Canadian participants and $1,500 Cdn. for international participants. To register, and for further information, please visit our website at www.gcbioinformatics.ca/training Enquiries can be made to Susanne Cardwell in Canada at 403-210-6661, email smcardwe@ucalgary.ca Also, it would be greatly appreciated by BIP if you would consider sending out this message to your mailing lists and/or posting the information on your websites (a sponsorship agreement can be arranged for interested parties). From joelle.amselem from versailles.inra.fr Sun Apr 26 08:24:22 2009 From: joelle.amselem from versailles.inra.fr (Joelle Amselem) Date: Sun Apr 26 11:46:05 2009 Subject: [Genstructure] Postdoc position on fungal transposable element annotation at INRA-URGI, Paris France Message-ID: <3F94D1A9-5DDD-4C9A-B9DD-E9DEED785FC1@versailles.inra.fr> Bioinformatics post-doc position on fungal transposable element annotation and analysis REF: URGI-blugen2009-05 An INRA post doctoral position is available for 2 years (1 year renewable) at URGI (Genomic-Info Research Unit, Versailles 15 km West of Paris, France). Context : The candidate will work on the annotation of the fungal barley pathogen Blumeria graminis genome in the URGI fungal bioinformatics team in close relationship with the "Blumeria" genome bioinformatics team located at the Imperial College (London, UK). URGI (http://urgi.versailles.inra.fr) hosts a bioinformatics platform for plants and pathogens/pests genomic and genetic data integration. Domains covered are structural and functional genome annotation, genetic and physical mapping, transcriptomics, proteomics and genetic resources. The URGI research activities cover data integration and functional and evolutionary genomic studies. A strong emphasis is made on repeats: their annotation, their impact on the genome, and their evolution. Job description: The applicant will actively contribute to the annotation of Blumeria graminis genomic sequence (http://www.blugen.org) focusing on transposable elements. As these elements represent a very large part of the genome (80%), he/she will study their organization and distribution as well as their impact on the genome and its evolution. The applicant will participate to the comparative analysis of these repeats to those of other fungi, including related species annotated at URGI such as Botrytis cinerea (INRA-URGI/Bioger), and Sclerotinia sclerotiorum (Broad Institute-NSF/USDA). The annotation will be performed with REPET, a transposable element detection and annotation pipeline developed at URGI (http://urgi.versailles.inra.fr/research/ transposable_elements.php). The development and improvement of bioinformatics tools will be necessary. Profile: To be considered applicants must have a non-French nationality and have a PhD degree in bioinformatics or genomics, a strong experience in computational genomics, and good programming skills. Basic knowledge on transposable elements will be much appreciated. Applications: Applications should provide a motivation letter, a curriculum vitae, a list of publications, letters of support from two reference scientists or their names and addresses to obtain further information. Position opened as soon as possible Requests for information or applications (REF-URGI-blugen2009-05) to: joelle.amselem@versailles.inra.fr -------------- next part -------------- An HTML attachment was scrubbed... URL: http://www.bio.net/bionet/mm/genstruc/attachments/20090426/8caaace5/attachment.html