Julius B. Lucks/Meetings and Notes/SMBE2007/models protein evolution 1
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Nicolas Rodrigue : Bayesian comparisons of codon substitution models
Tue Jun 26 12:39:33 EDT 2007
Words to Look Up
Talk
Questions
Corolin Kosoil : Empirical codon models and natural selection
Tue Jun 26 13:02:32 EDT 2007
- Bustamante group - Cornell
- Ian Holmes - Berkeley
Words to Look Up
Talk
- used to select positive selecction
- omega - defined as the nonsynonymous/synonymous rate ratio
- < 1 - purifying selection
- == 1 - neutral evolution
- > 1 - positive selection
Questions
Richard Goldstein : Mon-equilibrium models - modeling the evolution of extremophiles
Tue Jun 26 13:34:37 EDT 2007
Words to Look Up
- Levy skew alpha stable distribution
- Gassian special case
- lorentzian special case
- big tails
- more gen central limit theorum
Talk
- can treat evolution of Optimal Growth Temperature within a phylogenetic framework
- chonges in OGT in Bact and archaea show strongly non-normal behav
- large skew - non-neg tail
- GC content (avg over codens) does not chang much w/ AA comp change
- interesting changes in composition, reflecting T-dependence of intramolecular interactions
- mentioned Shakhnovich PLoS Comp Bio paper
Questions
- compare thermophiles to antifreeze proteins?
