The University of Toledo

Fundamentals of Bioinformatics and Proteomics/Genomics

UTcourse #: BIPG 5100/7100 - 3 cr 
 
Prerequisites:  One or more courses in Biochemistry or Molecular Biology

Offered:  Fall semester.  Lectures are posted online.

Course director: Dr. Robert Trumbly, Dept. of Biochemistry and Cancer Biology, (419) 383-4347, robert.trumbly@utoledo.edu

Summary: This course introduces the student to the powerful tools for accessing and analyzing biological sequence and structural information. Topics presented include sequence databases, sequence comparisons, database searches, phylogenetic analysis, protein structure, proteomics, RNA structure prediction, gene prediction and identification, genetic analysis of disease, and microarray-based studies of gene expression. For each topic the basic theory will be presented, followed by practical applications of the theory. Each week, exercises based on the lectures will be assigned, which can be performed on bioinformatic resources available on the web or locally. There will be scheduled sessions at the UT Health Science Campus Bioinformatics Computer Lab to assist students in these exercises. There will also be a term project on a subject of the student's choosing (requiring instructor approval). This project will employ methods from the diverse topics covered in the lectures.

Grading: The course grade will be determined by performance on the weekly exercises (70%) and the term project (30%).

Instruction: The course is team-taught with lecturers from the faculty at the University of Toledo and Bowling Green State University.

Text: Mount. Bioinformatics: Sequence and Genome Analysis, Cold Spring Harbor Laboratory Press, Cold Springs Harbor, New York, 2004 See http://www.bioinformaticsonline.org/


END-OF-COURSE STUDENT EVALUATION FORM:  please click here
After completion of the Fundamentals in BPG course, please click on the above link, print out the Evaluation Form, complete and return anonymously to:
Jo Anne Gray
BPG Program
3rd Floor CCE Building
Mail Stop: 1034

 

EDUCATIONAL PROGRAM OBJECTIVES (EPO's) for Fundamentals Course I.  A BPG Graduate Will Be Knowledgeable In the course of their educational program, students are provided the opportunity to gain knowledge through instruction by content experts and by supervised participation in research projects.  Knowledge will be assessed by the student’s ability to define, describe, and explain facts and concepts, as well as at higher levels of cognition that will be measured by the ability to apply, analyze, and integrate content. Before graduation, a student will have demonstrated to the satisfaction of the faculty: K1. Knowledge of molecular, biochemical, and cellular mechanisms involved in regulation of cellular processes and development   K2. Knowledge of fundamental systems biology technologies, such as proteomics, genomics, and transcriptomics.   K3. Knowledge of algorithmic and statistical methods for analysis of nucleic acid and protein sequences, such as hidden Markov models and Bayesian statistics.   K4. Knowledge of database design & management.   II.  A BPG Graduate Will Be Skilled The BPG curriculum provides a training environment in which research and teaching skills are learned in concert with the correlated knowledge.  Students have the opportunity to gain these skills under the supervision of a faculty mentors with the advice and guidance of the student advisory committee, through direct contact with content and/or technical experts, and through direct participation in research projects. Before graduation, a student will have demonstrated to the satisfaction of the faculty: S1. The ability to retrieve biomedical information for solving problems that are relevant to the appropriate completion of a research project, and accurate reporting of the results.