MCB 5472

Computer Methods in Molecular Evolution


None is required but the following are recommended.


Unix and Perl Primer for Biologists Keith Bradnam & Ian Korf Version 2.3.7 - February 2011.

Available at

Beginners Perl for BioinformaticsMastering Perl for Bioinformatics

Beginning and Mastering Perl for Bioinformatics By: James Tisdall

Available through via safari online - search for Perl for Bioinformatics


BLAST By: Ian Korf; Mark Yandell; Joseph Bedell Publisher: O'Reilly Media, Inc.

Available through via safari online - search for BLAST

Understanding Bioinformatics by Marketa Zvelebil and Jeremy Baum

Publisher: Garland Science; 1 edition (August 29, 2007)
Language: English
ISBN-10: 0815340249

Recommended by people in my lab

Bioinformatics: A Practical Guide to the Analysis of Genes and Proteins, Third Edition

Edited by Andreas D. Baxevanis and B. F. Francis Ouellette

The book covers many aspect of bioinformatics that we do not cover in class, but it is an excellent reference. The section on phylogenetics is rather weak, but you have your instructors to provide you with much more detail.

Includes a very short Perl primer at the end

Don't buy the 2nd edition by mistake!

link to link to publisher

Inferring Phylogenies
by Joe Felsenstein

ISBN: 0-87893-177-5;   $61.95 paper

Excellent book on phylogenetics and many aspects of population genetics (e.g., gene coalescence in populations, a topic that is rather relevant to species phylogenies in microorganisms :)).
For most MCBler this is not exactly bedtime reading, but if you need a well founded thorough explanation, this is a good book to consult.

Link to publisher, link to

Bioinformatics And Molecular Evolution (Paperback)
by Paul G. Higgs, Teresa K. Attwood

The authors discuss in detail many applications in molecular evolution and bioinformatics. This book should be very useful to those who want to study some aspects of things covered in this course in more detail.

Link to

Essential Bioinformatics (Paperback)
by Jin Xiong

Excellent book, it provides a very readable and concise overview of the most important tools and concepts in Bioinformatics

Link to


Learning Perl,
Fourth Edition
By Randal L. Schwartz, Tom Phoenix, brian d foy
Fourth Edition July 2005
ISBN: 0-596-10105-8

This book is available via safari online - search for learning PERL