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Graduate Bioinformatics: Molecular Systematics CBMG 688N/O
Syllabus Spring 2012 (with Tentative Lecture Schedule)
CBMG 688N/O (combined)  
      Topic Comments
Unit I: Background, Context, and Parsimony Analysis

W

 Jan. 25

Introduction, course mechanics, and sources of phylogenetic information

 
M   30 Parsimony analysis, optimality, exact vs. heuristic methods  
W Feb. 1

Heuristic methods (continued)

  
Unit II: Likelihood Methods. Maximum Likelihood, Models, Bayesian Methods
M   6

Likelihood approaches

 Homework 1
W   8

Models of sequence evolution

 Discussion
M   13

Likelihood algorithms and software

  
W   15 Genetic algorithms, monte carlo methods  
M   20 Bayesian methods Homework 2
Unit III: Multiple sequence alignment, simultaneous methods, automation
W   22

Bayesian methods (continued)

 Discussion
M   27 Multiple sequence alignment  
W   29 Simultaneous methods  
Unit IV: Applications
M Mar. 5 Gene family evolution Homework 3
W   7 Non-sequence datatypes Discussion
M   12 Automated pipelines  
W   14 EXAM EXAM
M   19 Spring Break  
W   21 Spring Break Project proposal due
Unit V (3 credit students only): Projects
M   26 Presentation of scientific information  
W   28 Minisymposium I - Overview of project proposal  
M Apr. 2

Minisymposium I - Overview of project proposal

  
W   4    
M   9 Update  
W   11

 

  
M . 16 Update  
W   18    
M   23

Update

 Project to reviewers
W   25    
M   30 Update Reviews due
W May 2    
M   7 Minisymposium II - Presentation of results  
W   9 Minisymposium II - Presentation of results Term Projects Due
 
      General Course Information  
         
         

Legacy syllabus: Fall 2010