Professor Berger offers two classes through the MIT department of mathematics. The first of these is offered in the fall as 18.417: Introduction to Computational Biology. The second is offered in the spring as 18.418: Topics in Computational Molecular Biology. Both of these classes were developed by Professor Berger to introduce the tools and methods that are used by computational biologists to understand the cell on a molecular level..

This class covers sequence alignment algorithms: dynamic programming, hashing, suffix trees, Gibbs sampling. Focuses on computational approaches to: genetic and physical mapping; genome sequencing, assembly, and annotation; RNA expression and secondary structure; protein structure and folding; and molecular interactions and dynamics.
18.417 Class Web Page (2001)
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This class covers current research topics in computational molecular biology. Recent research papers presented from leading conferences such as the SIGACT International Conference on Computational Molecular Biology (RECOMB). Topics include: original research (both theoretical and experimental) in genomics, molecular sequence analysis, recognition of genes and regulatory elements, molecular evolution, protein structure, and combinatorial libraries and drug design. Recent research by course participants is also covered. There may also be a project presentation and/or a small number of problem sets. *This class is only open to juniors and above or those who have taken 18.417 or by permission of the instructor.
18.418 Class Web Page (2001)
18.418 Class Web Page (2003)
18.418 Class Web Page (2004)
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