Chapter 1 Readings
Chapter 2 Readings
Eric Davidson Memorial Lecture Readings
- The class Piazza page for homework and class related questions.
- Introduction to Computational Biology: Maps, Sequences and Genomes by Michael Waterman. An important book, by one of the fathers of computational biology; basic and advanced statistical methods, algorithms.
- Biological Sequence Analysis: Probabilistic Models of Proteins and Nucleic Acids by Richard Durbin, Sean Eddy, Anders Krogh, and Graeme Mitchison. An important book, strong introduction to statistical methods, focused in large part on Hidden Markov models algorithms.
- An Introduction to Bioinformatics Algorithms by Neil Jones and Pavel Pevzner. A book on algorithms; computer science methods, no statistical methods.
- Algorithms on Strings, Trees, and Sequences by Dan Gusfield. A book dedicated to Suffix trees and combinatorial algorithms; computer science methods, no statistical methods.
- Understanding Bioinformatics by Marketa Zvelebil and Jeremy Baum. A book for biologists with great illustrations and tutorials about the biology and computational methods involved.
- Play with alignment! Evaluate the notebook and then move the match, mismatch, and gap penalty sliders to see how the parameters affect the output.
- In the spring, Professor Istrail teaches CSCI 1820, Algorithmic Foundations of Computational Biology. See here for a list of course topics.