Bioinformatics
Fall 2011
Course description
This course provides an introduction to bioinformatics and computational biology. Various computational methods will address a broad spectrum of problems in functional genomics, including; analyses of sequences, (alignment, motif discovery, gene annotation), pattern recognition and discovery in large-scale expression data, phylogenetic trees, phylogeny, and alignment. Also included in this course are topics in computational modeling of biological processes, data-mining, algorithm development, as well as statistical and mathematical analyses.
Books
Course text
R. Durbin, S. R. Eddy, A. Krogh, and G. Mitchison, Biological Sequence Analysis: Probabilistic Models of Proteins and Nucleic Acids
References
D. Gusfield, Algorithms on Strings, Trees and Sequences: Computer Science and Computational Biology
Lectures
Below are slides from the lectures. They are not intended to make sense without attending the lectures.
Slides for some lectures given by Dr. Leelavati Narlikar
Some more that may be useful
Slides for lectures given by Prof. Burkhard Morgenstern
Post midterm:
- ChIP-seq and RNA-seq
- RNA secondary structure prediction
- Motif finding (external link)
- Evolution Models
Assignment on Nussinov’s algorithm Solutions