There are no required texts for this course. However, some students will want to purchase a book on Unix, Emacs or vi, and additional texts are on reserve in the Health Sciences Library.
BIOINFORMATICS: Sequence and Genome Analysis, D. W. Mount (2004) Cold Spring Harbor Press ISBN 0-879-69712-1 Excellent, comprehensive text on sequence analysis, with new material on gene expression analysis. Highly recommended, but not required. (on reserve, HSL)
Bioinformatics for Dummies, J.-M. Claverie, C. Notredame (2003) Wiley ISBN 0-764-51696-5 Comprehensive mix of practical approaches
BIOINFORMATICS 2nd ed., A. D. Baxevanis and B. F. Ouellette (2001) Wiley-Interscience ISBN 0-471-38391-0 Excellent overview of databases and sequence analysis, stronger on "How To" than fundamentals. (on reserve, HSL)
Biological Sequence Analysis: Probabilistic Models Of Proteins And Nucleic Acids (1998) Durbin, Richard (Ed), Eddy, R., Krogh, A., Mitchison, G., Durbin, R., ISBN: 0-521-629-713 - Outstanding book on the statistical foundations of alignment and pattern finding methods, particularly Hidden Markov Models. Very mathematical.
Algorithms on strings, trees, and sequences : computer science and computational biology (1997) Dan Gusfield - Strong computer science orientation on algorithms.
Fundamentals of Molecular Evolution 2nd ed Li and Graur (2000) Sinauer - Evolution is a much larger discipline that we can begin to cover in this course, but this book will be used for the evolution lectures, and it provides an excellent general background to phylogenetic methods and evolutionary problems in general. Recommended strongly. (on reserve, HSL)
Molecular Systematics 2nd ed. Hillis, Moritz, and Mable (eds) (1996) Sinauer - Excellent comprehensive overview of molecular phylogenetics. See Chapt. 11, Phylogenetic Inference for the a current review of methods and programs for constructing evolutionary trees.
Learning GNU Emacs O'Reilly & Associates - To get the most out of this course, and the Unix computers, you MUST learn a Unix text editor, and emacs is a power choice. This is an excellent introduction that covers the most common emacs commands in 100 pages.