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(Manuscripts in the Pipeline)
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__NOTOC__
__NOTOC__
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== Manuscripts in the Pipeline ==
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== 2014 ==
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* R. Egbert and E. Klavins, '''Rapid, high resolution tuning of gene networks using simple sequence repeats".
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* K. Oishi and E. Klavins, '''A Framework for Implementing Finite State Machines in Gene Regulatory Networks''', ''ACS Synthetic Biology'' (Accepted).  
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* K. Oishi, S. Jang, R. Egbert, and E. Klavins, '''Specification and simulation of multicelled behaviors in gro'''.
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== 2013 ==
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* K. Havens, E. Pierre-Jerome, S. Jang, J. Guseman, N. Bolten, E. Klavins, and J. Nemhauser, '''A synthetic approach reveals tunability of auxin perception'''.
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* H. Yu, B. Moss, S. [[User:Jang|Jang]], M. Prigge, E. [[User:Klavins|Klavins]], J. [http://protist.biology.washington.edu/nemhauser/index.htm Nemhauser], and M. [http://labs.biology.ucsd.edu/estelle/ Estelle], '''Mutations in the TIR1 auxin receptor that increase affinity for Aux/IAA proteins result in auxin hypersensitivity''', ''Plant Physiology'',  pp.113.215582, March 2013. [http://www.plantphysiol.org/content/early/2013/03/28/pp.113.215582.short?keytype=ref&ijkey=xIcySjgtxXxmzkU url].
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* K. Havens, N. Bolton, J. Nemhauser, and E. Klavins, '''Construction of reliable, high efficiency yeast integrating vectors'''.
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== 2012 ==
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* J. Bishop and E. Klavins, '''Characterization of a biomolecular fuel delivery device'''.
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* D. [[User:Thorsley|Thorsley]] and E. [[User:Klavins|Klavins]], '''Estimation and Discrimination of Stochastic Biochemical Circuits From Time-Lapse Microscopy Data''', ''PLoS One'', Nov. 2012. [http://dx.plos.org/10.1371/journal.pone.0047151 url].
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* (Drafts available to close collaborators on request).
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* J. [[User:Bishop|Bishop]] and E. [[User:Klavins|Klavins]], '''Characterization of a Biomolecular Fuel Delivery Device under Load''', to appear in the ''Proceedings of the 51st IEEE Conference on Decision and Control'', Dec. 2012.
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* R.G. [[User:Egbert|Egbert]] and E. [[User:Klavins|Klavins]], '''Fine-tuning gene networks using simple sequence repeats''', ''Proceedings of the National Academy of Science'', vol. 109, no. 42, pp. 16817-16822. Oct. 2012. [http://www.pnas.org/content/early/2012/08/21/1205693109.abstract url]. Featured [http://www.pnas.org/content/109/42.toc on the cover]. See also the [http://www.pnas.org/content/early/2012/09/27/1214118109.full.pdf+html commentary] by [http://biodynamics.ucsd.edu/profiles/arthur Prindle] and [http://biodynamics.ucsd.edu/profiles/jeff Hasty].
 +
 
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* S.S. [[User:Jang|Jang]], K.T. [[User:Oishi|Oishi]],  R.G. [[User:Egbert|Egbert]], and E. [[User:Klavins|Klavins]], '''Specification and simulation of multicelled behaviors''', ''ACS Synthetic Biology'', Vol. 1, No. 8, pp. 365--374. 2012. [http://pubs.acs.org/doi/abs/10.1021/sb300034m url]
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* K. [[User:Havens|Havens]], E. Pierre-Jerome, S. [[User:Jang|Jang]],, J. Guseman, N. Bolten, E. [[User:Klavins|Klavins]], and J. [http://protist.biology.washington.edu/nemhauser/index.htm Nemhauser], '''A synthetic approach reveals extensive tunability of auxin perception''', ''Plant Physiology'',  July 2012 pp.112.202184. [http://www.plantphysiol.org/content/early/2012/07/27/pp.112.202184.short?keytype=ref&ijkey=StyKHCzD8kJwI1a url]
== 2011 ==
== 2011 ==
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* K. Oishi and E. Klavins, '''A biomolecular implementation of linear I/O systems''', ''IET Systems Biology'',  July 2011, vol 5, no. 4, p.252–260. [http://scitation.aip.org/getabs/servlet/GetabsServlet?prog=normal&id=ISBEAT000005000004000252000001&idtype=cvips&gifs=yes&ref=no url]
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* K. [[User:Oishi|Oishi]] and E. [[User:Klavins|Klavins]], '''A biomolecular implementation of linear I/O systems''', ''IET Systems Biology'',  July 2011, vol 5, no. 4, p.252–260. [http://scitation.aip.org/getabs/servlet/GetabsServlet?prog=normal&id=ISBEAT000005000004000252000001&idtype=cvips&gifs=yes&ref=no url]
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* N. Napp and E. Klavins, '''Load balancing for multi-robot construction''', ''2011 IEEE Conf. on Robotics and Automation'', pages 254 - 260, 2011. [http://ieeexplore.ieee.org/xpl/freeabs_all.jsp?arnumber=5979634 url].
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* N. [[User:Napp|Napp]] and E. [[User:Klavins|Klavins]], '''Load balancing for multi-robot construction''', ''2011 IEEE Conf. on Robotics and Automation'', pages 254 - 260, 2011. [http://ieeexplore.ieee.org/xpl/freeabs_all.jsp?arnumber=5979634 url].
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* N. Napp and E. Klavins, '''A Compositional Framework for Programming Stochastically Interacting Robots''', ''The International Journal of Robotics Research'', May 2011 vol. 30 no. 6 713-729. [http://ijr.sagepub.com/content/30/6/713.abstract?rss=1 url]
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* N. [[User:Napp|Napp]] and E. [[User:Klavins|Klavins]], '''A Compositional Framework for Programming Stochastically Interacting Robots''', ''The International Journal of Robotics Research'', May 2011 vol. 30 no. 6 713-729. [http://ijr.sagepub.com/content/30/6/713.abstract?rss=1 url]
== 2010 ==
== 2010 ==
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* E. [[User:Klavins|Klavins]], '''Proportional-Integral Control of Stochastic Gene Regulatory Networks''', ''2010 Conference on Decision and Control (CDC)'', Dec. 2010, pages 2547-2553. [http://ieeexplore.ieee.org/xpls/abs_all.jsp?arnumber=5717525&tag=1 url].
* E. [[User:Klavins|Klavins]], '''Proportional-Integral Control of Stochastic Gene Regulatory Networks''', ''2010 Conference on Decision and Control (CDC)'', Dec. 2010, pages 2547-2553. [http://ieeexplore.ieee.org/xpls/abs_all.jsp?arnumber=5717525&tag=1 url].
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* N. [[User:Napp|Napp]], S. Burden, and E. Klavins, '''Setpoint Regulation for Stochastically Interacting Robots''', ''Autonomous Robotics'', Vol. 30, No. 1. Sep. 2010. pp. 57--71. [http://www.springerlink.com/content/xg323226212jvt51/ url]
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* N. [[User:Napp|Napp]], S. Burden, and E. [[User:Klavins|Klavins]], '''Setpoint Regulation for Stochastically Interacting Robots''', ''Autonomous Robotics'', Vol. 30, No. 1. Sep. 2010. pp. 57--71. [http://www.springerlink.com/content/xg323226212jvt51/ url]
* D. [[User:Thorsley|Thorsley]] and E. [[User:Klavins|Klavins]], '''Approximating Stochastic Biochemical Processes With Wasserstein Pseudometrics'''.  ''IET Systems Biology'', May 2010, vol. 4, no. 3, pp. 193-211. [http://dx.doi.org/10.1049/iet-syb.2009.0039 url]
* D. [[User:Thorsley|Thorsley]] and E. [[User:Klavins|Klavins]], '''Approximating Stochastic Biochemical Processes With Wasserstein Pseudometrics'''.  ''IET Systems Biology'', May 2010, vol. 4, no. 3, pp. 193-211. [http://dx.doi.org/10.1049/iet-syb.2009.0039 url]
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* N. [[User:Napp|Napp]] and E. [[User:Klavins|Klavins]], '''Robust by Composition: Programs for Multi Robot Systems'''. ''2010 IEEE Conf. on Robotics and Automation'', pages 2459 - 2466, 2010.
* N. [[User:Napp|Napp]] and E. [[User:Klavins|Klavins]], '''Robust by Composition: Programs for Multi Robot Systems'''. ''2010 IEEE Conf. on Robotics and Automation'', pages 2459 - 2466, 2010.
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* D. Georgiev, M. [http://faculty.washington.edu/mfazel/ Fazel], and E. [[User:Klavins|Klavins]], '''Model Discrimination of Chemical Reaction Networks by Linearization''', ACC 2010.
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* D. Georgiev, M. [http://faculty.washington.edu/mfazel/ Fazel], and E. [[User:Klavins|Klavins]], '''Model Discrimination of Chemical Reaction Networks by Linearization''', ''American Control Conference (ACC)'', pages 5916 - 5922, 2010. [http://ieeexplore.ieee.org/xpls/abs_all.jsp?arnumber=5531228&tag=1 url]
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* D. [[User:Thorsley|Thorsley]], '''Diagnosability of Stochastic Chemical Kinetic Systems: A Discrete Event Systems Approach''', ACC 2010. [http://faculty.washington.edu/thorsley/papers/acc2010.pdf pdf]
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== 2009 ==
== 2009 ==
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* E. [[User:Klavins|Klavins]], '''Programmable Self-Assembly'''. ''Control Systems Magazine'', Aug. 2007. Vol. 24, No. 4, pp. 43-56. [http://ieeexplore.ieee.org/stamp/stamp.jsp?tp=&arnumber=4272328&isnumber=4272237 pdf].
* E. [[User:Klavins|Klavins]], '''Programmable Self-Assembly'''. ''Control Systems Magazine'', Aug. 2007. Vol. 24, No. 4, pp. 43-56. [http://ieeexplore.ieee.org/stamp/stamp.jsp?tp=&arnumber=4272328&isnumber=4272237 pdf].
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* W. B. Dunbar, N. A. Wilson, J. Schaeffer, E. Klavins, J. Bishop and B. Tanner. '''Dynamics and control of biomolecules: Research venues and opportunites'''. ''46th Conference on Decision and Control'', Dec. 2007. pp 3297--3307.  [http://ieeexplore.ieee.org/search/srchabstract.jsp?arnumber=4435051&isnumber=4434000&punumber=4433999&k2dockey=4435051@ieeecnfs&query=((klavins)%3Cin%3Eau+)&pos=9&access=no pdf].
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* W. B. Dunbar, N. A. Wilson, J. Schaeffer, E. [[User:Klavins|Klavins]], J. Bishop and B. Tanner. '''Dynamics and control of biomolecules: Research venues and opportunites'''. ''46th Conference on Decision and Control'', Dec. 2007. pp 3297--3307.  [http://ieeexplore.ieee.org/search/srchabstract.jsp?arnumber=4435051&isnumber=4434000&punumber=4433999&k2dockey=4435051@ieeecnfs&query=((klavins)%3Cin%3Eau+)&pos=9&access=no pdf].
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* M. Yim, W.M. Shen, B. Salemi, D. Rus, M. Moll, H. Lipson, E. Klavins and G.S. Chirickjian, '''Modular Self-Reconfigurable Robot Systems''', ''IEEE Robotics and Automation Magazine'', Mar. 2007. Vol. 14, No. 1, pp. 43-42. [http://ieeexplore.ieee.org/xpl/RecentIssue.jsp?punumber=100 pdf].
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* M. Yim, W.M. Shen, B. Salemi, D. Rus, M. Moll, H. Lipson, E. [[User:Klavins|Klavins]] and G.S. Chirickjian, '''Modular Self-Reconfigurable Robot Systems''', ''IEEE Robotics and Automation Magazine'', Mar. 2007. Vol. 14, No. 1, pp. 43-42. [http://ieeexplore.ieee.org/xpl/RecentIssue.jsp?punumber=100 pdf].
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* C. Belta, A. Bicchi, M. Egerstedt, E. Frazzoli, E. Klavins and G.J. Pappas, '''Symbolic Planning and Control of Robot Motion''', ''IEEE Robotics and Automation Magazine''. Mar. 2007. Vol. 14, No. 1, pp. 61-70. [http://ieeexplore.ieee.org/xpl/RecentIssue.jsp?punumber=100 pdf]
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* C. Belta, A. Bicchi, M. Egerstedt, E. Frazzoli, E. [[User:Klavins|Klavins]] and G.J. Pappas, '''Symbolic Planning and Control of Robot Motion''', ''IEEE Robotics and Automation Magazine''. Mar. 2007. Vol. 14, No. 1, pp. 61-70. [http://ieeexplore.ieee.org/xpl/RecentIssue.jsp?punumber=100 pdf]
* J. M. [[User:McNew|McNew]], E. [[User:Klavins|Klavins]] and M. [http://users.ece.gatech.edu/~magnus/ Egerstedt]. '''Solving Coverage Problems with Embedded Graph Grammars'''. ''Hybrid Systems: Computation and Control''. 2007. [http://faculty.washington.edu/klavins/papers/hscc2007.pdf pdf].
* J. M. [[User:McNew|McNew]], E. [[User:Klavins|Klavins]] and M. [http://users.ece.gatech.edu/~magnus/ Egerstedt]. '''Solving Coverage Problems with Embedded Graph Grammars'''. ''Hybrid Systems: Computation and Control''. 2007. [http://faculty.washington.edu/klavins/papers/hscc2007.pdf pdf].
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* J. M. McNew and E. [[User:Klavins|Klavins]], '''Model-Checking and Control of Self-Assembly''',  ''American Control Conference'', Jun. 2006. [http://faculty.washington.edu/klavins/papers/mcnew-klavins-acc06.pdf pdf]
* J. M. McNew and E. [[User:Klavins|Klavins]], '''Model-Checking and Control of Self-Assembly''',  ''American Control Conference'', Jun. 2006. [http://faculty.washington.edu/klavins/papers/mcnew-klavins-acc06.pdf pdf]
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* S. [http://www.eecs.berkeley.edu/~sburden/personal.html Burden], N. [[User:Napp|Napp]], E. Klavins, '''The Statistical Dynamics of Programmed Robotic Self-Assembly''', ''International Conference on Robotics and Automation''. May 2006. pp. 1469--76. [http://faculty.washington.edu/klavins/papers/icra06-sa.pdf pdf]
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* S. [http://www.eecs.berkeley.edu/~sburden/personal.html Burden], N. [[User:Napp|Napp]], E. [[User:Klavins|Klavins]], '''The Statistical Dynamics of Programmed Robotic Self-Assembly''', ''International Conference on Robotics and Automation''. May 2006. pp. 1469--76. [http://faculty.washington.edu/klavins/papers/icra06-sa.pdf pdf]
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* E. Klavins, R. Ghrist and D. Lipsky, '''A Grammatical Approach to Self-Organizing Robotic Systems''', ''IEEE Transactions on Automatic Control''. Jun. 2006, Vol. 51, No. 5, pp. 949-962. [http://ieeexplore.ieee.org/xpls/abs_all.jsp?isnumber=34438&arnumber=1643367&count=25&index=4 url]
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* E. [[User:Klavins|Klavins]], R. Ghrist and D. Lipsky, '''A Grammatical Approach to Self-Organizing Robotic Systems''', ''IEEE Transactions on Automatic Control''. Jun. 2006, Vol. 51, No. 5, pp. 949-962. [http://ieeexplore.ieee.org/xpls/abs_all.jsp?isnumber=34438&arnumber=1643367&count=25&index=4 url]
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* D. Del Vecchio, R. Murray and E. Klavins, '''Discrete State Estimators for Systems on a Lattice''', ''Automatica''. 2006, Vol. 42, No. 2, pp. 271-285.
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* D. Del Vecchio, R. Murray and E. [[User:Klavins|Klavins]], '''Discrete State Estimators for Systems on a Lattice''', ''Automatica''. 2006, Vol. 42, No. 2, pp. 271-285.
== 2005 ==
== 2005 ==
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* J. M. McNew and E. Klavins, '''A Grammatical Approach to Cooperative Control: The wanderers and Scouts Example''', ''Cooperative Control''.  2005. [http://faculty.washington.edu/klavins/papers/mcnew-klavins-cco05.pdf pdf]
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* J. M. McNew and E. [[User:Klavins|Klavins]], '''A Grammatical Approach to Cooperative Control: The wanderers and Scouts Example''', ''Cooperative Control''.  2005. [http://faculty.washington.edu/klavins/papers/mcnew-klavins-cco05.pdf pdf]
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* J. Bishop, S. Burden, E. Klavins, R. Kreisberg, W. Malone, N. [[User:Napp|Napp]] and T. Nguyen, '''Self-Organizing Programmable Parts''', ''International Conference on Intelligent Robots and Systems'', 2005. [http://faculty.washington.edu/klavins/papers/iros05.pdf pdf]
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* J. Bishop, S. Burden, E. [[User:Klavins|Klavins]], R. Kreisberg, W. Malone, N. [[User:Napp|Napp]] and T. Nguyen, '''Self-Organizing Programmable Parts''', ''International Conference on Intelligent Robots and Systems'', 2005. [http://faculty.washington.edu/klavins/papers/iros05.pdf pdf]
== 2004 ==
== 2004 ==
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*  E. Klavins, '''Universal Self-Replication Using Graph Grammars''', In ''2004 International Conference on MEMs, NANO and Smart Systems''. Banff, Canada, 2004. [http://faculty.washington.edu/klavins/papers/klavins-icmens04.pdf pdf].
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*  E. [[User:Klavins|Klavins]], '''Universal Self-Replication Using Graph Grammars''', In ''2004 International Conference on MEMs, NANO and Smart Systems''. Banff, Canada, 2004. [http://faculty.washington.edu/klavins/papers/klavins-icmens04.pdf pdf].
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* E. Klavins, '''Directed Self-Assembly Using Graph Grammars''', ''Foundations of Nanoscience: Self Assembled Architectures and Devices''. Snowbird, UT, 2004. Invited Talk + Extended Abstract. This online version has some corrections. [http://faculty.washington.edu/klavins/papers/fnano.pdf pdf]
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* E. [[User:Klavins|Klavins]], '''Directed Self-Assembly Using Graph Grammars''', ''Foundations of Nanoscience: Self Assembled Architectures and Devices''. Snowbird, UT, 2004. Invited Talk + Extended Abstract. This online version has some corrections. [http://faculty.washington.edu/klavins/papers/fnano.pdf pdf]
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* E. Klavins, R. Ghrist, and D. Lipsky, '''Graph Grammars for Self-Assembling Robotic Systems''',  ''Proceedings of the International Conference on Robotics and Automation''. May, 2004, pp. 5293- 5300. [http://faculty.washington.edu/klavins/papers/icra04-sa.pdf pdf]
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* E. [[User:Klavins|Klavins]], R. Ghrist, and D. Lipsky, '''Graph Grammars for Self-Assembling Robotic Systems''',  ''Proceedings of the International Conference on Robotics and Automation''. May, 2004, pp. 5293- 5300. [http://faculty.washington.edu/klavins/papers/icra04-sa.pdf pdf]
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* E. Klavins, '''A Language for Modeling and Programming Cooperative Control Systems''', ''Proceedings of the International Conference on Robotics and Automation''.  May 2004, pp. 3403- 3410. [http://faculty.washington.edu/klavins/papers/icra04-ccl.pdf pdf]
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* E. [[User:Klavins|Klavins]], '''A Language for Modeling and Programming Cooperative Control Systems''', ''Proceedings of the International Conference on Robotics and Automation''.  May 2004, pp. 3403- 3410. [http://faculty.washington.edu/klavins/papers/icra04-ccl.pdf pdf]
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* E. Klavins and R. Murray, '''Distributed Algorithms for Cooperative Control''', ''IEEE Pervasive Computing''. 2004, Vol. 3, No. 1, pp. 56--65. [http://ieeexplore.ieee.org/xpl/freeabs_all.jsp?arnumber=1269132 pdf]
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* E. [[User:Klavins|Klavins]] and R. Murray, '''Distributed Algorithms for Cooperative Control''', ''IEEE Pervasive Computing''. 2004, Vol. 3, No. 1, pp. 56--65. [http://ieeexplore.ieee.org/xpl/freeabs_all.jsp?arnumber=1269132 pdf]
== 2003 ==
== 2003 ==
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* E. Klavins, '''A Formal Model of a Multi-Robot Control and Communication Task''', ''42nd IEEE Conference on Decision and Control''. Dec. 2003. [http://faculty.washington.edu/klavins/papers/cdc2003-klavins-ccl.pdf pdf]
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* E. [[User:Klavins|Klavins]], '''A Formal Model of a Multi-Robot Control and Communication Task''', ''42nd IEEE Conference on Decision and Control''. Dec. 2003. [http://faculty.washington.edu/klavins/papers/cdc2003-klavins-ccl.pdf pdf]
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* D. Del Vecchio and E. Klavins, '''Observation of Hybrid Guarded Command Programs''', ''42nd IEEE Conference on Decision and Control''. Dec. 2003.  
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* D. Del Vecchio and E. [[User:Klavins|Klavins]], '''Observation of Hybrid Guarded Command Programs''', ''42nd IEEE Conference on Decision and Control''. Dec. 2003.  
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* S. Waydo. B. Dunbar and E. Klavins, '''Toward Feedback Stabilization of Faulty Software Systems: {A} Case Study''', ''42nd IEEE Conference on Decision and Control''. Dec. 2003. [http://faculty.washington.edu/klavins/papers/waydo-dunbar-klavins-cdc03.pdf pdf]
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* S. Waydo. B. Dunbar and E. [[User:Klavins|Klavins]], '''Toward Feedback Stabilization of Faulty Software Systems: {A} Case Study''', ''42nd IEEE Conference on Decision and Control''. Dec. 2003. [http://faculty.washington.edu/klavins/papers/waydo-dunbar-klavins-cdc03.pdf pdf]
== 2002 ==
== 2002 ==
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* E. Klavins, '''Automatically Synthesized Controllers for Distributed Assembly: Partial Correctness''',  ''Cooperative Control: Models, Applications and Algorithms''. Eds. S. Butenko, R. Murphey and P. M. Pardalos. Kluwer, 2002, pp. 111-127. [http://faculty.washington.edu/klavins/papers/klavins-cco2001.pdf pdf]
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* E. [[User:Klavins|Klavins]], '''Automatically Synthesized Controllers for Distributed Assembly: Partial Correctness''',  ''Cooperative Control: Models, Applications and Algorithms''. Eds. S. Butenko, R. Murphey and P. M. Pardalos. Kluwer, 2002, pp. 111-127. [http://faculty.washington.edu/klavins/papers/klavins-cco2001.pdf pdf]
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* E. Klavins, '''Toward the Control of Self-Assembling Systems''', ''Control Problems in Robotics''. Eds. A. Bicchi, H. Christensen and D. Prattichizzo. Springer, 2003, Vol. 4, pp. 153-168. [http://faculty.washington.edu/klavins/papers/klavins-cpra02.pdf pdf]
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* E. [[User:Klavins|Klavins]], '''Toward the Control of Self-Assembling Systems''', ''Control Problems in Robotics''. Eds. A. Bicchi, H. Christensen and D. Prattichizzo. Springer, 2003, Vol. 4, pp. 153-168. [http://faculty.washington.edu/klavins/papers/klavins-cpra02.pdf pdf]
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* E. Klavins and U. Saranli, '''Object Oriented State Machines''', ''Embedded Systems Magazine''. May 2002. pp. 30-42.
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* E. [[User:Klavins|Klavins]] and U. Saranli, '''Object Oriented State Machines''', ''Embedded Systems Magazine''. May 2002. pp. 30-42.
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* E. Klavins, '''Automatic Synthesis of Controllers for Distributed Assembly and Formation Forming''', In ''Proceedings of the IEEE Conference on Robotics and Automation''. May 2002. [http://faculty.washington.edu/klavins/papers/icra2002.pdf pdf]
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* E. [[User:Klavins|Klavins]], '''Automatic Synthesis of Controllers for Distributed Assembly and Formation Forming''', In ''Proceedings of the IEEE Conference on Robotics and Automation''. May 2002. [http://faculty.washington.edu/klavins/papers/icra2002.pdf pdf]
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* E. Klavins and D. E. Koditschek, '''Phase Regulation of Decentralized Cyclic Robotic Systems''', ''International Journal of Robotics Research''. 2002, Vol. 21, No. 3, pp. 257-276. [http://ijr.sagepub.com/cgi/content/abstract/21/3/257 pdf].
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* E. [[User:Klavins|Klavins]] and D. E. Koditschek, '''Phase Regulation of Decentralized Cyclic Robotic Systems''', ''International Journal of Robotics Research''. 2002, Vol. 21, No. 3, pp. 257-276. [http://ijr.sagepub.com/cgi/content/abstract/21/3/257 pdf].
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* T. Chung, L. Cremean, B. Dunbar, Z. Jin, E. Klavins, D. Moore, A. Tiwari, D. van Gogh and S. Waydo, '''A Platform for Cooperative and Coordinated Control of Multiple Vehicles: The Caltech Multi-Vehicle Wireless Testbed''', ''Proceedings of the Conference on Cooperative Control and Optimization''. Kluwer, 2002. [http://faculty.washington.edu/klavins/papers/ccdjkmtvw02-cco.pdf pdf]
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* T. Chung, L. Cremean, B. Dunbar, Z. Jin, E. [[User:Klavins|Klavins]], D. Moore, A. Tiwari, D. van Gogh and S. Waydo, '''A Platform for Cooperative and Coordinated Control of Multiple Vehicles: The Caltech Multi-Vehicle Wireless Testbed''', ''Proceedings of the Conference on Cooperative Control and Optimization''. Kluwer, 2002. [http://faculty.washington.edu/klavins/papers/ccdjkmtvw02-cco.pdf pdf]
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* E. Klavins, '''Communication Complexity of Multi-Robot Systems''', ''Algorithmic Foundations of Robotics V''. Eds. J.-D. Boissonnat, J. Burdick, K. Goldberg, S. Hutchinson. Springer, 2003, Vol. 7, pp. 275-292. [http://faculty.washington.edu/klavins/papers/mvcc.pdf pdf]
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* E. [[User:Klavins|Klavins]], '''Communication Complexity of Multi-Robot Systems''', ''Algorithmic Foundations of Robotics V''. Eds. J.-D. Boissonnat, J. Burdick, K. Goldberg, S. Hutchinson. Springer, 2003, Vol. 7, pp. 275-292. [http://faculty.washington.edu/klavins/papers/mvcc.pdf pdf]
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* L. Cremean, B. Dunbar, D. van Gogh, J. Hickey, E. Klavins, J. Meltzer and R. M. Murray, '''The Caltech Multi-Vehicle Wireless Testbed''', In ''41st IEEE Conference on Decision and Control''. Dec. 2002.
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* L. Cremean, B. Dunbar, D. van Gogh, J. Hickey, E. [[User:Klavins|Klavins]], J. Meltzer and R. M. Murray, '''The Caltech Multi-Vehicle Wireless Testbed''', In ''41st IEEE Conference on Decision and Control''. Dec. 2002.
== 2001 ==
== 2001 ==
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* E. Klavins, H. Komsuoglu, R. J. Full and D. E. Koditschek, '''The Role of Reflexes Versus Central Pattern Generators in Dynamical Legged Locomotion''', ''Neurotechnology for Biomimetic Robots''. Eds. J. Ayers,  J. Davis and A. Rudolph. MIT Press, 2001.
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* E. [[User:Klavins|Klavins]], H. Komsuoglu, R. J. Full and D. E. Koditschek, '''The Role of Reflexes Versus Central Pattern Generators in Dynamical Legged Locomotion''', ''Neurotechnology for Biomimetic Robots''. Eds. J. Ayers,  J. Davis and A. Rudolph. MIT Press, 2001.
-
* E. Klavins and D. E. Koditschek, '''Stability of Hybrid Coupled Oscillators''', In ''International Conference on Robotics and Automation''. 2001.[http://faculty.washington.edu/klavins/papers/icra2001.pdf pdf]
+
* E. [[User:Klavins|Klavins]] and D. E. Koditschek, '''Stability of Hybrid Coupled Oscillators''', In ''International Conference on Robotics and Automation''. 2001.[http://faculty.washington.edu/klavins/papers/icra2001.pdf pdf]
-
* E. Klavins. '''Decentralized Phase Regulation of Cyclic Robotic Systems''', Ph.D. Thesis, University of Michigan, June 2001. [http://faculty.washington.edu/klavins/papers/klavins-thesis-final.pdf pdf]
+
* E. [[User:Klavins|Klavins]]. '''Decentralized Phase Regulation of Cyclic Robotic Systems''', Ph.D. Thesis, University of Michigan, June 2001. [http://faculty.washington.edu/klavins/papers/klavins-thesis-final.pdf pdf]
== 2000 ==
== 2000 ==
-
* E. Klavins, '''Automatic Compilation of Concurrent Hybrid Factories from Product Assembly Specifications''', ''Hybrid Systems: Computation and Control''. LNCS 1790. Springer-Verlag, 2000, pp. 174-187. [http://faculty.washington.edu/klavins/papers/hs00.pdf pdf]
+
* E. [[User:Klavins|Klavins]], '''Automatic Compilation of Concurrent Hybrid Factories from Product Assembly Specifications''', ''Hybrid Systems: Computation and Control''. LNCS 1790. Springer-Verlag, 2000, pp. 174-187. [http://faculty.washington.edu/klavins/papers/hs00.pdf pdf]
-
* E. Klavins and D. E. Koditschek, '''A Formalism for the Composition of Concurrent Robot Behaviors''', In ''Proceedings of the IEEE Conference on Robotics and Automation'', 2000. [http://faculty.washington.edu/klavins/papers/icra2000.pdf pdf]
+
* E. [[User:Klavins|Klavins]] and D. E. Koditschek, '''A Formalism for the Composition of Concurrent Robot Behaviors''', In ''Proceedings of the IEEE Conference on Robotics and Automation'', 2000. [http://faculty.washington.edu/klavins/papers/icra2000.pdf pdf]
-
* E. Klavins, D. E. Koditschek and R. Ghrist, '''Toward the Regulation and Composition of Cyclic Behaviors''', ''Algorithmic and Computational Robotics: New Directions (2000 WAFR)''. Eds. B. R. Donald, K. M. Lynch and D. Rus. A. K. Peters, 2001, pp. 205-220. [http://faculty.washington.edu/klavins/papers/wafr2000.ps ps]
+
* E. [[User:Klavins|Klavins]], D. E. Koditschek and R. Ghrist, '''Toward the Regulation and Composition of Cyclic Behaviors''', ''Algorithmic and Computational Robotics: New Directions (2000 WAFR)''. Eds. B. R. Donald, K. M. Lynch and D. Rus. A. K. Peters, 2001, pp. 205-220. [http://faculty.washington.edu/klavins/papers/wafr2000.ps ps]
-
* E. Klavins, '''The Construction of Attention Functions for Phase Regulation''', University of Michigan Technical Report No. CSE-TR-422-00, 2000.[http://faculty.washington.edu/klavins/papers/tr2000.pdf pdf]
+
* E. [[User:Klavins|Klavins]], '''The Construction of Attention Functions for Phase Regulation''', University of Michigan Technical Report No. CSE-TR-422-00, 2000.[http://faculty.washington.edu/klavins/papers/tr2000.pdf pdf]
== 1999 ==
== 1999 ==
-
* E. Klavins, '''A Formalism for the Composition of Loosely Coupled Robot Behaviors''', University of Michigan Technical Report No. CSE-TR-412-99, 1999. [http://faculty.washington.edu/klavins/papers/tr1999.pdf pdf]
+
* E. [[User:Klavins|Klavins]], '''A Formalism for the Composition of Loosely Coupled Robot Behaviors''', University of Michigan Technical Report No. CSE-TR-412-99, 1999. [http://faculty.washington.edu/klavins/papers/tr1999.pdf pdf]
== 1998 ==
== 1998 ==
-
* E. Klavins, W. C. Rounds, and Q.-Q. Zhang, '''Experimenting with Power Default Reasoning''', In ''Proceedings of AAAI-98''. 1998. [http://faculty.washington.edu/klavins/papers/aaai98.ps ps]
+
* E. [[User:Klavins|Klavins]], W. C. Rounds, and Q.-Q. Zhang, '''Experimenting with Power Default Reasoning''', In ''Proceedings of AAAI-98''. 1998. [http://faculty.washington.edu/klavins/papers/aaai98.ps ps]

Current revision


2014

  • K. Oishi and E. Klavins, A Framework for Implementing Finite State Machines in Gene Regulatory Networks, ACS Synthetic Biology (Accepted).

2013

  • H. Yu, B. Moss, S. Jang, M. Prigge, E. Klavins, J. Nemhauser, and M. Estelle, Mutations in the TIR1 auxin receptor that increase affinity for Aux/IAA proteins result in auxin hypersensitivity, Plant Physiology, pp.113.215582, March 2013. url.

2012

  • D. Thorsley and E. Klavins, Estimation and Discrimination of Stochastic Biochemical Circuits From Time-Lapse Microscopy Data, PLoS One, Nov. 2012. url.
  • J. Bishop and E. Klavins, Characterization of a Biomolecular Fuel Delivery Device under Load, to appear in the Proceedings of the 51st IEEE Conference on Decision and Control, Dec. 2012.
  • R.G. Egbert and E. Klavins, Fine-tuning gene networks using simple sequence repeats, Proceedings of the National Academy of Science, vol. 109, no. 42, pp. 16817-16822. Oct. 2012. url. Featured on the cover. See also the commentary by Prindle and Hasty.
  • S.S. Jang, K.T. Oishi, R.G. Egbert, and E. Klavins, Specification and simulation of multicelled behaviors, ACS Synthetic Biology, Vol. 1, No. 8, pp. 365--374. 2012. url
  • K. Havens, E. Pierre-Jerome, S. Jang,, J. Guseman, N. Bolten, E. Klavins, and J. Nemhauser, A synthetic approach reveals extensive tunability of auxin perception, Plant Physiology, July 2012 pp.112.202184. url

2011

  • K. Oishi and E. Klavins, A biomolecular implementation of linear I/O systems, IET Systems Biology, July 2011, vol 5, no. 4, p.252–260. url
  • N. Napp and E. Klavins, Load balancing for multi-robot construction, 2011 IEEE Conf. on Robotics and Automation, pages 254 - 260, 2011. url.
  • N. Napp and E. Klavins, A Compositional Framework for Programming Stochastically Interacting Robots, The International Journal of Robotics Research, May 2011 vol. 30 no. 6 713-729. url

2010

  • E. Klavins, Proportional-Integral Control of Stochastic Gene Regulatory Networks, 2010 Conference on Decision and Control (CDC), Dec. 2010, pages 2547-2553. url.
  • N. Napp, S. Burden, and E. Klavins, Setpoint Regulation for Stochastically Interacting Robots, Autonomous Robotics, Vol. 30, No. 1. Sep. 2010. pp. 57--71. url
  • D. Thorsley and E. Klavins, Approximating Stochastic Biochemical Processes With Wasserstein Pseudometrics. IET Systems Biology, May 2010, vol. 4, no. 3, pp. 193-211. url
  • N. Napp and E. Klavins, Robust by Composition: Programs for Multi Robot Systems. 2010 IEEE Conf. on Robotics and Automation, pages 2459 - 2466, 2010.
  • D. Georgiev, M. Fazel, and E. Klavins, Model Discrimination of Chemical Reaction Networks by Linearization, American Control Conference (ACC), pages 5916 - 5922, 2010. url

2009

  • N. Napp, S. Burden and E. Klavins. Setpoint Regulation for Stochastically Interacting Robots, Robotics: Science and Systems V. MIT Press. 2009. pdf
  • F. W. Shaw and E. Klavins. Distributed Estimation and State Assignment For Stochastically Interacting Robots. 2009 Workshop on Network Estimation and Control. pdf
  • N. Napp, D. Thorsley and E. Klavins, Hidden Markov Models for Non-Well-Mixed Reaction Networks, Proceedings of the American Control Conference, 2009. pdf
  • D. Thorsley and E. Klavins. A Theory of Approximation for Stochastic Biochemical Networks, Control Theory and Systems Biology. Eds. B. Ingalls and P. Iglesias. MIT Press, 2009. preprint

2008

  • D. Georgiev and E. Klavins. Model Discrimination of Polynomial Systems via Stochastic Inputs. 2008 Conference on Decision and Control. pdf
  • F. Shaw and E. Klavins. Distributed Estimation and Control For Stochastically Interacting Robots. 2008 Conference on Decision and Control. pdf
  • J. M. McNew and E. Klavins. Non-deterministic Reconfiguration of Tree Formations. American Control Conference, June 2008, pp. 690-697. pdf
  • D. Thorsley and E. Klavins. Model Reduction of Stochastic Processes Using Wasserstein Pseudometrics. American Control Conference, June 2008, pp. 1374-1381. pdf

2007

  • E. Klavins, Programmable Self-Assembly. Control Systems Magazine, Aug. 2007. Vol. 24, No. 4, pp. 43-56. pdf.
  • W. B. Dunbar, N. A. Wilson, J. Schaeffer, E. Klavins, J. Bishop and B. Tanner. Dynamics and control of biomolecules: Research venues and opportunites. 46th Conference on Decision and Control, Dec. 2007. pp 3297--3307. pdf.
  • M. Yim, W.M. Shen, B. Salemi, D. Rus, M. Moll, H. Lipson, E. Klavins and G.S. Chirickjian, Modular Self-Reconfigurable Robot Systems, IEEE Robotics and Automation Magazine, Mar. 2007. Vol. 14, No. 1, pp. 43-42. pdf.
  • C. Belta, A. Bicchi, M. Egerstedt, E. Frazzoli, E. Klavins and G.J. Pappas, Symbolic Planning and Control of Robot Motion, IEEE Robotics and Automation Magazine. Mar. 2007. Vol. 14, No. 1, pp. 61-70. pdf
  • J. M. McNew, E. Klavins and M. Egerstedt. Solving Coverage Problems with Embedded Graph Grammars. Hybrid Systems: Computation and Control. 2007. pdf.
  • S. Waydo, J. Hauser and R. Bailey, E. Klavins and R. Murray, UAV as a Reliable Wingman: A Flight Demonstration, IEEE Transactions on Control Systems Technology, Jul. 2007, Vol. 15, No. 4, pp. 680--688.

2006

  • E. Klavins, S. Burden and N. Napp, Optimal Rules for Programmed Stochastic Self-Assembly, Robotics: Science and Systems II. MIT Press, 2006. pp. 9-16. pdf.
  • J. Bishop and E. Klavins, Collective Sensing with Self-Organizing Robots, 45th IEEE Conference on Decision and Control. 2006, pp. 4175-81. pdf
  • J. M. McNew and E. Klavins, Locally Interacting Hybrid Systems with Embedded Graph Grammars, 45th IEEE Conference on Decision and Control. 2006, pp. 6080--87. pdf
  • E. Klavins, Self-Assembly From the Point of View of Its Pieces, American Control Conference. Jun. 2006. pdf
  • J. M. McNew and E. Klavins, Model-Checking and Control of Self-Assembly, American Control Conference, Jun. 2006. pdf
  • S. Burden, N. Napp, E. Klavins, The Statistical Dynamics of Programmed Robotic Self-Assembly, International Conference on Robotics and Automation. May 2006. pp. 1469--76. pdf
  • E. Klavins, R. Ghrist and D. Lipsky, A Grammatical Approach to Self-Organizing Robotic Systems, IEEE Transactions on Automatic Control. Jun. 2006, Vol. 51, No. 5, pp. 949-962. url
  • D. Del Vecchio, R. Murray and E. Klavins, Discrete State Estimators for Systems on a Lattice, Automatica. 2006, Vol. 42, No. 2, pp. 271-285.

2005

  • J. M. McNew and E. Klavins, A Grammatical Approach to Cooperative Control: The wanderers and Scouts Example, Cooperative Control. 2005. pdf
  • J. Bishop, S. Burden, E. Klavins, R. Kreisberg, W. Malone, N. Napp and T. Nguyen, Self-Organizing Programmable Parts, International Conference on Intelligent Robots and Systems, 2005. pdf

2004

  • E. Klavins, Universal Self-Replication Using Graph Grammars, In 2004 International Conference on MEMs, NANO and Smart Systems. Banff, Canada, 2004. pdf.
  • E. Klavins, Directed Self-Assembly Using Graph Grammars, Foundations of Nanoscience: Self Assembled Architectures and Devices. Snowbird, UT, 2004. Invited Talk + Extended Abstract. This online version has some corrections. pdf
  • E. Klavins, R. Ghrist, and D. Lipsky, Graph Grammars for Self-Assembling Robotic Systems, Proceedings of the International Conference on Robotics and Automation. May, 2004, pp. 5293- 5300. pdf
  • E. Klavins, A Language for Modeling and Programming Cooperative Control Systems, Proceedings of the International Conference on Robotics and Automation. May 2004, pp. 3403- 3410. pdf
  • E. Klavins and R. Murray, Distributed Algorithms for Cooperative Control, IEEE Pervasive Computing. 2004, Vol. 3, No. 1, pp. 56--65. pdf

2003

  • E. Klavins, A Formal Model of a Multi-Robot Control and Communication Task, 42nd IEEE Conference on Decision and Control. Dec. 2003. pdf
  • D. Del Vecchio and E. Klavins, Observation of Hybrid Guarded Command Programs, 42nd IEEE Conference on Decision and Control. Dec. 2003.
  • S. Waydo. B. Dunbar and E. Klavins, Toward Feedback Stabilization of Faulty Software Systems: {A} Case Study, 42nd IEEE Conference on Decision and Control. Dec. 2003. pdf

2002

  • E. Klavins, Automatically Synthesized Controllers for Distributed Assembly: Partial Correctness, Cooperative Control: Models, Applications and Algorithms. Eds. S. Butenko, R. Murphey and P. M. Pardalos. Kluwer, 2002, pp. 111-127. pdf
  • E. Klavins, Toward the Control of Self-Assembling Systems, Control Problems in Robotics. Eds. A. Bicchi, H. Christensen and D. Prattichizzo. Springer, 2003, Vol. 4, pp. 153-168. pdf
  • E. Klavins and U. Saranli, Object Oriented State Machines, Embedded Systems Magazine. May 2002. pp. 30-42.
  • E. Klavins, Automatic Synthesis of Controllers for Distributed Assembly and Formation Forming, In Proceedings of the IEEE Conference on Robotics and Automation. May 2002. pdf
  • E. Klavins and D. E. Koditschek, Phase Regulation of Decentralized Cyclic Robotic Systems, International Journal of Robotics Research. 2002, Vol. 21, No. 3, pp. 257-276. pdf.
  • T. Chung, L. Cremean, B. Dunbar, Z. Jin, E. Klavins, D. Moore, A. Tiwari, D. van Gogh and S. Waydo, A Platform for Cooperative and Coordinated Control of Multiple Vehicles: The Caltech Multi-Vehicle Wireless Testbed, Proceedings of the Conference on Cooperative Control and Optimization. Kluwer, 2002. pdf
  • E. Klavins, Communication Complexity of Multi-Robot Systems, Algorithmic Foundations of Robotics V. Eds. J.-D. Boissonnat, J. Burdick, K. Goldberg, S. Hutchinson. Springer, 2003, Vol. 7, pp. 275-292. pdf
  • L. Cremean, B. Dunbar, D. van Gogh, J. Hickey, E. Klavins, J. Meltzer and R. M. Murray, The Caltech Multi-Vehicle Wireless Testbed, In 41st IEEE Conference on Decision and Control. Dec. 2002.

2001

  • E. Klavins, H. Komsuoglu, R. J. Full and D. E. Koditschek, The Role of Reflexes Versus Central Pattern Generators in Dynamical Legged Locomotion, Neurotechnology for Biomimetic Robots. Eds. J. Ayers, J. Davis and A. Rudolph. MIT Press, 2001.
  • E. Klavins and D. E. Koditschek, Stability of Hybrid Coupled Oscillators, In International Conference on Robotics and Automation. 2001.pdf
  • E. Klavins. Decentralized Phase Regulation of Cyclic Robotic Systems, Ph.D. Thesis, University of Michigan, June 2001. pdf

2000

  • E. Klavins, Automatic Compilation of Concurrent Hybrid Factories from Product Assembly Specifications, Hybrid Systems: Computation and Control. LNCS 1790. Springer-Verlag, 2000, pp. 174-187. pdf
  • E. Klavins and D. E. Koditschek, A Formalism for the Composition of Concurrent Robot Behaviors, In Proceedings of the IEEE Conference on Robotics and Automation, 2000. pdf
  • E. Klavins, D. E. Koditschek and R. Ghrist, Toward the Regulation and Composition of Cyclic Behaviors, Algorithmic and Computational Robotics: New Directions (2000 WAFR). Eds. B. R. Donald, K. M. Lynch and D. Rus. A. K. Peters, 2001, pp. 205-220. ps
  • E. Klavins, The Construction of Attention Functions for Phase Regulation, University of Michigan Technical Report No. CSE-TR-422-00, 2000.pdf

1999

  • E. Klavins, A Formalism for the Composition of Loosely Coupled Robot Behaviors, University of Michigan Technical Report No. CSE-TR-412-99, 1999. pdf

1998

  • E. Klavins, W. C. Rounds, and Q.-Q. Zhang, Experimenting with Power Default Reasoning, In Proceedings of AAAI-98. 1998. ps