Comparative Genomics and Evolution
BCB/GEN 556 Xun Gu Spring 2005
Time & Location:
Th and TR 3:40-5:00PM, Location MBB 1424
Instructor:
Xun Gu (332 Science II; Tel.: 294-8075)
Email: xgu@iastate.edu
WWW:
http://xgu.zool.iastate.edu
Office Hours:
by appointment
Synopsis
Prerequisites
Textbooks (for background)
Grading
Homework assignments and Discussion (25%)
Term-paper (literature-review) (40%)
Presentation (35%)
BCB/GEN 556 - Spring 2005
Tentative schedule
DAY
DATE
TOPIC
Tues
Jan 11
Introduction: Brief review of comparative genomics and
molecular evolution
Thur
Jan 13
Evolutionary changes of amino acid sequences
Tues
Jan 18
Evolutionary changes of DNA sequences
Thur
Jan 20
Synonymous/nonsynonymous substitutions
Tues
Jan 25
Evolutionary rate and positive selection detection
Thur
Jan 27
Molecular clock: relative rate test
Tues
Feb 1
Phylogenetic tee inference: distance methods
Thur
Feb 3
Phylogenetic tee inference: parsimony methods
Tues
Feb 8
Phylogenetic tee inference: likelihood methods
Thur
Feb 10
Phylogenetic tee inference: Discussion
Tues
Feb 15
Ancestral sequence inference
Thur
Feb 17
Ancestral sequence inference: examples
Tues
Feb 22
Phylogeny-based functional sequence analysis
Thur
Feb 24
Phylogeny-based functional sequence analysis: DIVERGE
Tues
Mar 1
Phylogenetic expression analysis
Thur
Mar 3
Phylogenetic expression analysis: yeast genome analysis
Tues
Mar 8
Brain-expression divergence among primates
Thur
Mar
10
Discussion
Tues
Mar15
SPRING BREAK
Thur
Mar17
SPRING BREAK
Tues
Mar22
BCB 593/Gen591 small RNA symposium
Thur
Mar24
Genome evolution of microRNA
Tues
Mar29
BCB 593/Gen591 small RNA symposium
Thur
Mar31
Alternative splicing and gene duplications
Tues
Apr 5
The role of genome duplication(s)
Thur
Apr 7
Gene-Content analysis and tree of life
Tues
Apr 12
BCB 593/Gen591 small RNA symposium
Thur
Apr 14
Student presentation/Discussion
Tues
Apr 19
BCB 593/Gen591 small RNA symposium
Thur
Apr 21
Student presentation/Discussion
Tues
Apr26
Student presentation/Discussion
Thur
Apr28
Student presentation/Discussion
Tues
May 3
Thur
May 5
5:00 pm term-papers due