Difference between revisions of "CDS 2704, 2010: BioControl"
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 Definitions and basic theorems [http://www.cds.caltech.edu/~elisa/CDS27042010/CDS27042010Week51.pdf Slides]   Definitions and basic theorems [http://www.cds.caltech.edu/~elisa/CDS27042010/CDS27042010Week51.pdf Slides]  
−    +   [http://arxiv.org/abs/math/0206133 Monotone Control Systems] 
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 Predicting oscillations; monotonicity in CRNs. The MAPK pathway.   Predicting oscillations; monotonicity in CRNs. The MAPK pathway.  
    
−   [http://www.math.rutgers.edu/~sontag/PUBDIR/FTP_DIR/angeli_leenheer_sontag_graph_theoretic_monotone_journal_math_biology_online2009.pdf Graphtheoretic characterizations of monotonicity of chemical networks in reaction coordinates.]  +   [http://www.math.rutgers.edu/~sontag/PUBDIR/FTP_DIR/angeli_leenheer_sontag_graph_theoretic_monotone_journal_math_biology_online2009.pdf Graphtheoretic characterizations of monotonicity of chemical networks in reaction coordinates.] [http://citeseerx.ist.psu.edu/viewdoc/summary?doi=10.1.1.142.7404 Oscillations in I/O Monotone Systems Under Negative FeedbackOscillations in I/O Monotone Systems Under Negative Feedback] 
    
   
Revision as of 22:23, 29 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 Objectives: Biology and Control TheoryFeedback loops, which are ubiquitous in engineered systems, play a fundamental role in most biological processes. The survival of any organism strictly depends on its ability to sense and react to changes in its environment. Like electrical and mechanical control systems, cells have the molecular gear necessary to sense, compute and actuate. What are the theoretical and experimental tools available to understand the regulatory circuitry in biochemical systems? This course will provide students with an organized overview of research work between control theory and molecular biology. The first part of the class will be dedicated to modeling, identification and controltheoretic methods for the analysis of biological networks, following a systems biology perspective. The second part of the class will instead focus on design principles, and the challenges related to constructing biological pathways. Can we build modular and robust networks satisfying performance specifications? This fascinating field offers a wide range of challenging open questions, which the students will be encouraged to critically discuss. 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...).
