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.

18.418: Topics in Computational Biology

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). Topic areas include original research (both theoretical and experimental) in comparative genomics, medical genomics, deep genomics, structural bioinformatics, network inference, molecular sequence analysis, regulatory genomics, population genetics, genomic privacy, metagenomics, protein, and RNA structure, and combinatorial libraries for drug design. Recent research by course participants is also covered. Recent research by course participants is also covered. There may also be a project presentation and/or a small number of assignments. *This class is only open to juniors and above or those who have taken 18.417 or by permission of the instructor.

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18.417: Introduction to Computational Biology

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.

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