Difference between revisions of "Supplement: Biomolecular Feedback Systems"
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−  * {{BFS pdfPreface and Contentsbfsfrontmatter  +  * {{BFS pdfPreface and Contentsbfsfrontmatter05Dec13}} 
−  * Chapter 1: {{BFS pdfIntroductory Conceptsbfsintro  +  * Chapter 1: {{BFS pdfIntroductory Conceptsbfsintro05Dec13}} 
** Systems Biology: Modeling, Analysis and the Role of Feedback  ** Systems Biology: Modeling, Analysis and the Role of Feedback  
** The Cell as a System  ** The Cell as a System  
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** Simulation of Stochastic Systems  ** Simulation of Stochastic Systems  
** Input/Output Linear Stochastic Systems  ** Input/Output Linear Stochastic Systems  
+  <!  
* Chapter 5: {{BFS pdfFeedback Examplesbfsfbkexamps11Jul12}}  * Chapter 5: {{BFS pdfFeedback Examplesbfsfbkexamps11Jul12}}  
** The ''lac'' Operon  ** The ''lac'' Operon  
** Bacterial chemotaxisbfschemotaxis  ** Bacterial chemotaxisbfschemotaxis  
+  >  
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−  * Chapter  +  * Chapter 5: {{BFS pdfBiological Circuit Componentsbfscircuits11Jul12}} 
** Introduction to Biological Circuit Design  ** Introduction to Biological Circuit Design  
** Negative Autoregulation  ** Negative Autoregulation  
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** Activatorrepressor Clock  ** Activatorrepressor Clock  
** An Incoherent Feedforward Loop (IFFL)  ** An Incoherent Feedforward Loop (IFFL)  
−  * Chapter  +  * Chapter 6: {{BFS pdfInterconnecting Componentsbfsmodules11Jul12}} 
** Input/Output Modeling and the Modularity Assumption  ** Input/Output Modeling and the Modularity Assumption  
** Introduction to Retroactivity  ** Introduction to Retroactivity  
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** Retroactivity in Signaling Systems  ** Retroactivity in Signaling Systems  
** Insulation Devices: Retroactivity Attentuation  ** Insulation Devices: Retroactivity Attentuation  
−  * Chapter  +  * Chapter 7: {{BFS pdfDesign Tradeoffsbfstradeoffs11Jul12}} 
** Metabolic Burden  ** Metabolic Burden  
** Stochastic Effects: Design Tradeoffs between Retroactivity and Noise  ** Stochastic Effects: Design Tradeoffs between Retroactivity and Noise  
+  * Appendix A: Control Systems Primer  
+  <!  
* Appendix A: Cell Biology Primer (from NCBI)  * Appendix A: Cell Biology Primer (from NCBI)  
** [http://www.ncbi.nlm.nih.gov/About/primer/genetics_cell.html What is a Cell]  ** [http://www.ncbi.nlm.nih.gov/About/primer/genetics_cell.html What is a Cell]  
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** ContinuousState Random Processes  ** ContinuousState Random Processes  
** DiscreteState Random Processes  ** DiscreteState Random Processes  
−  * {{BFS pdfBibliography and Indexbfsbackmatter  +  > 
+  * {{BFS pdfBibliography and Indexbfsbackmatter05Dec13}}  
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Revision as of 17:30, 5 December 2013
Domitilla Del Vecchio (MIT) and Richard M. Murray (Caltech)
This textbook is intended for researchers interested in the application of feedback and control to biomolecular systems. The material has been designed so that it can be used in parallel with Feedback Systems as part of a course on biomolecular feedback and control systems, or as a standalone reference for readers who have had a basic course in feedback and
control theory. The supplement is being written by Domitilla Del Vecchio and Richard Murray based on a variety of presentations, lectures and notes.
Note: These notes are in draft form and may contain errors. Permission is granted to download and print a copy for individual use, but this material may not be reproduced, in whole or in part, without written consent from the author.
News (archive)
 20 Jul 2013: Updated outline and new PDFs are being posted over the next month.
 12 Jul 2012: Updated outline; new PDFs posted. A complete manuscript (PDF) is also available.
 16 Jan 2012: Updated outline; new PDFs for all chapters and appendices (coming later today)
Contents


Additional Information
 ASCC 2009 Workshop  Analysis and Design of Biomolecular Feedback Systems
 Engineering Principles in Biological Systems: 1012 December 2008, Cold Spring Harbor Laboratory
 Design Principles in Biological Systems: 2428 April 2008, Institute for Mathematics and Its Applications (IMA)
 Engineering Principles in Biological Systems: 68 December 2006, Cold Spring Harbor Laboratory