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Schedule of Classes

• Spring 2012
• Summer 2012
• Fall 2012 

Current Course Descriptions

Spring 2012

Recommended Textbooks: The course content will be based on selected Bioinformatics textbooks considering diverse background of the prospective students and with no expectation of the prior exposure to this interdisciplinary area. The recommended textbooks are Biological Sequence Analysis by Durbin et al., Bioinformatics and Functional Genomics by Pevsner, and Statistical Methods in Bioinformatics by Ewens & Grant. New research developments will also be covered in this course, based mainly on research articles and review papers.

Course objective: The aim of this course is to familiarize students with state-of-the-art methodologies in Bioinformatics and Computational Biology, and help them understand how to apply these techniques to solving biological and biomedical problems. This course will include the following topics:

• An introduction to probability and probabilistic models for interpreting biological sequence data
• Markov chain models, hidden Markov models, profile hidden Markov models
• Genome architecture, genome assembly, gene prediction, protein topology prediction
• Pairwise and multiple sequence alignment
• Molecular phylogeny
• Genome evolution: vertical and horizontal modes of gene transfer
• Microarray and next generation sequencing data analysis
• Metagenomics: gene detection and phylogenetic classification
• Human genome variations: detection of structural variations and copy number variations, identification of disease-associated genes

Course outcomes: Appreciation of the interdisciplinary approaches to solving problems in biology; understanding of the essence of computational and mathematical methods in biology and medicine; familiarization with principles and models underlying standard bioinformatics methods/algorithms; practical experience of using bioinformatics tools for sequence analysis; development of skills to write simple computer programs for interpreting biological data.

Grading: Based on in-class discussions, in-class presentation, homework assignments and final project presentation.
 

Course Descriptions

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