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APPLIED COMPUTATIONAL GENOMICS COURSE (ACGC)
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WESTERN CANADA- Wednesday, June 2nd to Tuesday, June 8th, 2010 -
Victoria, British Columbia, Canada
EASTERN CANADA-Thursday, August 5th, 2010
to Wednesday, August 11, 2010
at Carleton University, Ottawa, Ontario
Contact: training@gcbioinformatics.ca
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Leverage the power of Unix for managing data; learn to write quick Perl scripts that get the job done; become proficient in using bioinformatics software and services:
- BIRCH (BIological Research Computer Hierarchy )
- Bluejay is a genome browser
- Help Desk offers many software tools and databases to the research community
- BioMoby is among the most successful and visible interoperability projects in the world
The ACGC uses tools and services available through the Bioinformatics Innovation Centre. Most Bioinformatics Innovation Centre tools used in the course are open-source and can be freely downloaded for use at one's home institution.
Why attend the ACGC?
Upon completion of this course, participants will have learned:
- Basic and advanced UNIX environments to become power users.
- How to design and write programs to support and speed up research.
- How to use existing bioinformatics tools and resources to create, manipulate, and annotate sequences.
- Annotation tools include BioMoby, BIRCH, Bluejay, MAGPIE, Osprey, and TimeLogic Decypher.
- After the course, all attendees will have FREE internet access to all Bioinformatics Innovation Centre tools and databases used in this course.
The ACGC is a great opportunity for networking with other researchers who are interested in bioinformatics.
Western Canada: University of Victoria,
(Victoria, British Columbia, Canada)
June 2 to June 8, 2010 University of Victoria course location sold out!
Download >> Registration | Agenda | FAQs | Travel & Lodging
Download >> MAP | Email Contact
Having trouble downloading registration form? Click here.
Eastern Canada: Carleton University,
(Ottawa, Ontario, Canada)
August 5, 2010 to August 11, 2010
Carleton University course location sold out!
Download >> Registration | Agenda | FAQs | Travel & Lodging
Download >> MAP |Email Contact
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| Pre-Reading Material for Bioinformatics Education |
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To make the most of your time at the ACGC, please read the following materials. The information below will provided you with some basic knowledge of Unix and general molecular biology.
The following readings are strongly recommended if you are not already familiar with these topics.
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UNIX
UNIX 1: An Introduction to the UNIX Operating System on IT Systems, from Rice University, will provide an overview on the UNIX environment.
https://docs.rice.edu/confluence/download/attachments/4588376/unix01.pdf?version=1
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PERL
Introduction to Perl Programming - A well-organized and concise introduction with examples. It teaches good programming practices along with the language itself.
http://www.free-ed.net/free-ed/InfoTech/perl/perl02.asp
Perl Programming Tutorial - A short introduction to some of the basics of Perl programming.
http://randu.org/tutorials/perl/
Introduction to Perl Programming ( Perl 5 ) - This is a good quick reference to Perl syntax, if you already are familiar with Perl programming.
http://www.well.ox.ac.uk/~johnb/comp/perl/intro.html#perlbuiltin
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Molecular Biology and Genomics
This is a quick introduction to elements of biology - cells, molecules, genes, functional genomics, microarrays from the European Bioinformatics Institute.
PDF
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| Additional Readings for Bioinformatics Training |
| If you have time, you could try out some of the various demo's and tools on the various pages. The instructor will take you through some demo's and then show you how to build your own code tools to do things in a more automated manner . |
Unix
Links to additional introductory material on Unix may be found at
http://home.cc.umanitoba.ca/~psgendb/Using_Unix/using.html
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Genome Annotation
Essentials of Genomics and Bioinformatics by Christoph W. Sensen (Ed.), WILEY-VCH, 2002 - Chapter 15: Genomic Data Representation through Images - MAGPIE as an example
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Perl
Beginning Perl for Bioinformatics by James. D. Tisdall, O'REILLY & ASSOCIATES, 2001
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BioBabel
http://www.sciam.com/article.cfm?id=the-semantic-web
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Distributed Annotation System
http://www.biodas.org
http://www.biodas.org/documents/spec.html
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Gene Ontology
http://www.geneontology.org
http://www.godatabase.org/cgi-bin/go.cgi
http://www.geneontology.org/#tools
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BioMOBY project
http://www.biomoby.org/
http://www.biomoby.org/overview.html
http://www.biomoby.org/wilkinson_links_2002.pdf
http://www.biomoby.org/twiki/bin/view/TWiki/BioMOBYAPI
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Help Desk Newsletters
http://gchelpdesk.ualberta.ca/news/news.php
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PAST ACGC Courses:
- McGill University in Montreal, Quebec - August 25-31, 2009
- University of Calgary in Calgary, Alberta - July 14-20, 2009
- Simon Fraser Univeristy in Burnaby, British Columbia - July 24-30, 2008
- University of Alberta in Edmonton, Alberta - July 25-31, 2007
- McGill University in Montreal, Quebec - April 13-19, 2007
- University of Manitoba in Winnipeg, Manitoba - September 8-14, 2006
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This project is supported by Genome Alberta and Genome Canada. Genome Canada is a private, non-profit corporation whose mandate is to develop and implement a national strategy in genomics and proteomics research for the benefit of all Canadians. |
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