- Module
One - Basic Genetic Analysis Workshop for Medical Research
The basic genetic analysis workshop
is designed to be
compatible with Linux/MacOS X or Windows/PC operating system.
We suggest running this module in a four to five day course (on
the first day all software applications are loaded in the machines).
The workshop lectures includes a mixture of theoretical and pratical
lectures on how to
install
and run bioinformatics programs, search sequence databases, alignnment
with reference datasets, phylogeny
inference, and recombination detection.
The pratical
section of the workshop uses genes from human pathogens in
the examples and exercises. Up to date this course module are adapted
to use one of the following human
pathogens: Human Immunodeficiency Virus type 1 (HIV-1), Human
Hepatitis
C Virus (HCV), Human Hepatitis B Virus (HBV), Micobacterium
Tuberculosis (TB), Avian Influenza, etc.
Topics covered in the basic
module:
Day One:
In the first day the computers
are configured and the
participants present their work and objectives within the course.
Day Two:
Introduction to Bioinformatics
and Sequence Analysis
tools.
Sequence Management.
Sequence Formats and Edition.
Sequence Alignment in ClustalX and BioEdit (Windows), and Genetic Data
Environment (Linux/Mac OSX).
Day Three:
Phylogenetic Reconstruction with
PAUP* (NJ)
Phylogenetic Exercises with PAUP*
Day Four:
Recombination Detection
Phylogenetic Questions? and Solutions!
Day Five:
Protein Sequence Analysis.
(In HIV covers drug resistance and epitope analysis)
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