Applied Computational Biology Course

Brian Fristensky frist at cc.umanitoba.ca
Tue Feb 22 16:33:15 EST 2005


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            APPLIED COMPUTATIONAL GENOMICS COURSE (ACGC)

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University of Calgary, Alberta
   Saturday, April 30th - Sunday,  May 8th, 2005

Scientific coordinator: Dr. Brian Fristensky, University of Manitoba


Bioinformatics in the post-genomic era requires the analysis of large and
diverse datasets using automated tools. While many Web-based tools are
available to the wet-lab researcher, the Web is not well suited for tasks
beyond single-sequence annotation. Researchers need to become productive in
a server-based Unix environment with its wealth of scripting and automation
tools. Even at an entry-level, this can be an intimidating task.

The Genome Canada Bioinformatics Platform is working to empower researchers
by teaching a hands-on course, outlining tried-and- proven approaches as
well as new developments, with lectures by a panel of experts and integrated
assignments to develop practical skills. The course will be taught using
tools and services which are available through the Genome Canada
Bioinformatics Platform.

Topics include (tentative):


    a.. Basic Unix skills on a network-centric desktop
    b.. Canadian Bioinformatics Resource (CBR)
    c.. BIRCH: Working with large numbers of sequences on a comprehensive
bioinformatics system
    d.. BIRCH: Creating your own in-house bioinformatics platform
    e.. Canadian Bioinformatics Help Desk
    f.. Perl scripting: Quick automation of data analysis tasks and
utilization of web services
    g.. How biological concepts are phrased in computational models and how
such models can be made operational in a database
    h.. Statistics and simulation testing with Perl
    i.. BIND: Analyzing a gene in its biological context and retrieving lists
of functionally related genes, i.e. interactors or co-regulated genes
    j.. BioPerl:  Object-oriented Perl; Data warehousing - the SeqHound API
    k.. BioMOBY: a transparent software layer that automatically finds and
uses web services
    l.. High-throughput genome annotation with TimeLogic and GeneMatcher
hardware
    m.. MAGPIE: Automated genome analysis and annotation
    n.. BLUEJAY: Genome data visualization
    o.. OSPREY: High-throughput oligonucleotide design
        For more information about this workshop or to download a
registration
form, please go to http://www.gcbioinformatics.ca or contact:

        Sophie Chung
        Training Coordinator
        Genome Prairie
        PH: (403) 210-8588
        Email: sophie.chung at visualgenomics.ca







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