Introduction to Bioinformatic Computation
UT- BPG course #: BIPG 6100/8100 - 3 cr
Prerequisites: BIPG 5100/7100 - Fundamentals of BPG (recommended)
Offered: Spring semester, Monday/Wednesday afternoons, room 127HEB
Course director: Dr. Alexei Fedorov, Dept. of Medicine, Director of Bioinformatics Lab, (419) 383-5270, Alexei.Fedorov@utoledo.edu. Dr. Fedorov's lab website can be viewed here.
Summary: Bioinformatics is a fundamental component of modern biomedical sciences.
Only computers have the capability to collect, organize, annotate, and process the
enormous amounts of information about the organization and structure of the biosphere.
Familiarity with a computer language is essential to those who seek expertise in bioinformatics.
The main goal of this course is to provide basic programming skills to biological
and medical students who may lack a background in computer sciences. Programming will
be taught using important biological examples. This course focuses in particular on
PERL because it is easy to acquire and is the most commonly-used language used in
genomics and database analysis. Since UNIX is the dominant platform in present-day
computational biology, students will be made familiar with UNIX environments, including
Linux and OSX. Each registered student will be given an account on the MUO Linux computer
cluster, the most powerful computer within the College. Hands-on programming experience
will be obtained in the Bioinformatics Computer Lab at UT. Students are encouraged
to bring their own problems and projects to work on during this course. In addition
to learning programming and other bioinformatic skills, the students of this course
acquire knowledge in how to present the final product of bioinformatic research and
how to write a scientific paper on the subject. This work resulted in the publication
of the articles listed below.* The major course objectives are to familiarize the
1. Use of UNIX-based operating systems;
2. Use of the PERL programming language in bioinformatic applications;
3. Describe the basic tasks needed to interface with supercomputers
4. Communicate competently with fellow team members in projects
Full course syllabus can be found here
Grading: The course grade will be determined by homework/project: 40%, labs and activities: 20%, Midterm exam: 15%, and the final exam 25%.
Instruction: The course is primarily taught by the course director, with some lectures from the faculty at the University of Toledo and Bowling Green State University.
Text: No textbooks are required. Students will work with the information/instructions provided online.
Syllabus for Computation Course: BIPG 6100 Syllabus, Spring 2015
END-OF-COURSE STUDENT EVALUATION FORM:
After completion of the Computation course, please click on the above link, print out the Evaluation Form, complete and return anonymously to:
Jo Anne Gray
3rd Floor CCE Building
Mail Stop: 1034