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Program
The program targets specific introduction into using genomic data in a biomedical laboratory. We split the course into morning sessions, which introduce a topic with very applied and specific examples, highlighting just enough of the theory behind the tools to understand what's going on and how to choose parameters wisely. After the morning break, we will feature a lab scientist from our PGA or a collaborator to illustrate the use of genomics tools.
After lunch we will reconvene for a brief introduction into the assignments, followed by time to do the exercises on your laptop computer. Both wired and wireless network access will be provided. There will be staff on hand to answer any questions. There will be plenty of opportunity to work on your favorite gene(s) with experts to help you over hurdles.
The bold text links to PDF files of the presentations.
Session Plan:
- Basic sequence analaysis
Introduction to the PGA program. How to make sequence data useful? This session covers basic sequence analysis, sequence databases, and alignment tools. - Gene finding and genome annotation
Learn about gene finding tools and their limitations. Look at annotated genome sequences. Given that you found your gene with lots of annotation, find out what you can do to expand and verify possibly conflicting annotation. Learn to use additional resources to build your confidence or distrust of the annotation. - Comparative genomics tools
Learn to use tools and databases developed in the BerkeleyPGA to study conserved regions in cardiovascular genes. - Protein resources and tools
Explore web-based tools for the characterization of protein sequence and structure using database, motif, and profile searching, as well as transmembrane prediction and multiple alignment tools. - Using microarray data
Introduction into microarray technology and data analysis for comparative genomics.
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Monday April 29 |
Tuesday April 30 |
Wednesday May 1 |
Thursday May 2 |
Friday May 3 |
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8:30 10:30 |
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Session 2: |
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10:30 11:00 |
Morning Break |
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11:00 12:00 |
Testimonials by PGA scientists with hands-on experience |
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12:00 1:30 |
Lunch |
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1:30 2:00 |
Problem assignments and overview of computer exercises |
Free use |
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2:00 5:00 |
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Take a look at our class pictures to see the students hard at work.
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