Difference between revisions of "CDS 2704, 2010: BioControl"
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{ border=1 width=100%  { border=1 width=100%  
    
−   Week  Date  Lecture Topic   +   Week  Date  Lecture Topic  Papers considered in class  BioControl Journal Club 
    
 align=center rowspan=3  1   align=center rowspan=3  1  
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 2 April (F)   2 April (F)  
 Modeling: Ordinary Differential Equations. [http://www.cds.caltech.edu/~elisa/CDS27042010/CDS27042010Week12.pdf Slides]   Modeling: Ordinary Differential Equations. [http://www.cds.caltech.edu/~elisa/CDS27042010/CDS27042010Week12.pdf Slides]  
−    +   [http://www.liebertonline.com/doi/pdf/10.1089/10665270252833208 Review on modeling genetic regulatory networks] and [http://www.pnas.org/content/98/4/1364.full Modeling the trp operon] 
[http://nar.oxfordjournals.org/cgi/content/short/37/5/e38 Modelbased redesign of transcriptional networks]  [http://nar.oxfordjournals.org/cgi/content/short/37/5/e38 Modelbased redesign of transcriptional networks]  
    
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 6 April (T)   6 April (T)  
 Review of CDS methods for stability and periodic behaviors.   Review of CDS methods for stability and periodic behaviors.  
−    +  [http://www.math.rutgers.edu/~sontag/FTP_DIR/angeli_ferrell_sontag_pnas04_paper_and_supplementary.pdf Angeli et al. ] 
NA  NA  
    
 9 April (F)   9 April (F)  
 Modeling: Stochastic methods, Gillespie algorithm.   Modeling: Stochastic methods, Gillespie algorithm.  
−    +   [http://pubs.acs.org/doi/pdf/10.1021/j100540a008 Gillespie's fundamental paper] 
−    +   [http://www.ncbi.nlm.nih.gov/pmc/articles/PMC2832680/ Defining bifurcations in stochastic systems] 
    
}  } 
Revision as of 17:00, 5 April 2010
BioControl  
Spring 2010 
NOTE: The Friday lectures will include discussing a paper related to the week topic. Papers will be announced about a week prior to the discussion.
Course Schedule
Course AdministrationThis course is a special topics course in which the lecture material has been prepared by a senior graduate student. The class is P/F only and there is no required homework and no midterm or final exam. Students will be required to work on an individual or team course project. Course ProjectProject proposals are due at 5pm on the last day of the Midterm examination period (May 4) and are due by 5pm on the last day of the final examination period (June 7). Project theme: select a cellular regulatory mechanism, define a list of important features of the system, come up with a modeling framework and carry out an analysis of its properties (e.g. stability, robustness, modularity...).
