KITP Program: Biological Switches and Clocks http://www.kitp.ucsb.edu/online/bioclocks07/ KITP Program: Biological Switches and Clocks KITP Program: Biological Switches and Clocks en-us © 2007 by the individual authors doug@kitp.ucsb.edu webmaster@kitp.ucsb.edu Wed, 08 Aug 2007 06:57:12 -0700 Wed, 08 Aug 2007 06:57:12 -0700 Education http://blogs.law.harvard.edu/tech/rss 240 Network Analysis http://online.kitp.ucsb.edu/online/bioclocks07/albert/ Reka Albert, Penn State & KITP (Reka Albert, Penn State & KITP) Reka Albert, Penn State & KITP http://online.kitp.ucsb.edu/online/bioclocks07/albert/ Thu, 05 Jul 2007 11:00:00 -0700 1:37:17 Complexity in the Neurospora Circadian Clock http://online.kitp.ucsb.edu/online/bioclocks07/bellpedersen/ Deborah Bell-Pedersen, Texas A&M & KITP (Deborah Bell-Pedersen, Texas A&M & KITP) Deborah Bell-Pedersen, Texas A&M & KITP http://online.kitp.ucsb.edu/online/bioclocks07/bellpedersen/ Fri, 13 Jul 2007 09:00:00 -0700 1:48:44 Discrete Dynamical Networks as Toy Models for Computation in the Cell http://online.kitp.ucsb.edu/online/bioclocks07/bornholdt/ Stefan Bornholdt, Univ. of Bremen & KITP (Stefan Bornholdt, Univ. of Bremen & KITP) Stefan Bornholdt, Univ. of Bremen & KITP http://online.kitp.ucsb.edu/online/bioclocks07/bornholdt/ Mon, 06 Aug 2007 09:00:00 -0700 1:37:33 High Frequency 'Circadian' Oscillations / Amplitude Effects http://online.kitp.ucsb.edu/online/bioclocks07/brody/ Stuart Brody, UCSD (Stuart Brody, UCSD) Stuart Brody, UCSD http://online.kitp.ucsb.edu/online/bioclocks07/brody/ Thu, 12 Jul 2007 09:00:00 -0700 1:46:21 Controlling the Budding Yeast Cell Cycle http://online.kitp.ucsb.edu/online/bioclocks07/charvin/ Gilles Charvin, Rockefeller Univ. (Gilles Charvin, Rockefeller Univ.) Gilles Charvin, Rockefeller Univ. http://online.kitp.ucsb.edu/online/bioclocks07/charvin/ Mon, 16 Jul 2007 11:00:00 -0700 1:40:06 Methods for Robustness Analysis of Boolean Models of Gene/Protein Networks http://online.kitp.ucsb.edu/online/bioclocks07/chaves/ Madalena Chaves, COMORE/INRIA & KITP (Madalena Chaves, COMORE/INRIA & KITP) Madalena Chaves, COMORE/INRIA & KITP http://online.kitp.ucsb.edu/online/bioclocks07/chaves/ Mon, 09 Jul 2007 11:00:00 -0700 1:25:58 A Model of the Spindle Assembly Checkpoint Based on Autocatalysis http://online.kitp.ucsb.edu/online/bioclocks07/ciliberto/ Andrea Ciliberto, IFOM & KITP (Andrea Ciliberto, IFOM & KITP) Andrea Ciliberto, IFOM & KITP http://online.kitp.ucsb.edu/online/bioclocks07/ciliberto/ Fri, 27 Jul 2007 09:00:00 -0700 1:18:47 Regulation of DNA Synthesis, Cell Division and Cell Growth Zones in Fission Yeast http://online.kitp.ucsb.edu/online/bioclocks07/csikasznagy/ Attila Csikasz-Nagy, Univ.Trento & KITP (Attila Csikasz-Nagy, Univ.Trento & KITP) Attila Csikasz-Nagy, Univ.Trento & KITP http://online.kitp.ucsb.edu/online/bioclocks07/csikasznagy/ Thu, 26 Jul 2007 11:00:00 -0700 1:18:54 Robustness & Sensitivity of Biological Switches & Clocks http://online.kitp.ucsb.edu/online/bioclocks07/doyle/ Frank Doyle, UCSB (Frank Doyle, UCSB) Frank Doyle, UCSB http://online.kitp.ucsb.edu/online/bioclocks07/doyle/ Fri, 06 Jul 2007 11:00:00 -0700 1:44:53 The Neurospora Circadian System -- Some New Tools and New Insights http://online.kitp.ucsb.edu/online/bioclocks07/dunlap/ Jay Dunlap, Dartmouth Med. School (Jay Dunlap, Dartmouth Med. School) Jay Dunlap, Dartmouth Med. School http://online.kitp.ucsb.edu/online/bioclocks07/dunlap/ Tue, 17 Jul 2007 11:00:00 -0700 1:41:46 Signal Specificity in Practice and Theory http://online.kitp.ucsb.edu/online/bioclocks07/elston/ Tim Elston, UNC (Tim Elston, UNC) Tim Elston, UNC http://online.kitp.ucsb.edu/online/bioclocks07/elston/ Thu, 02 Aug 2007 09:00:00 -0700 1:22:26 Approaches to Study the Plant Circadian Network http://online.kitp.ucsb.edu/online/bioclocks07/farre/ Eva Farre, Scripps (Eva Farre, Scripps) Eva Farre, Scripps http://online.kitp.ucsb.edu/online/bioclocks07/farre/ Mon, 23 Jul 2007 09:00:00 -0700 1:40:13 'Simple' and 'Complex' Models of Circadian Rhythms http://online.kitp.ucsb.edu/online/bioclocks07/forger/ Daniel Forger, Univ. of Michigan & KITP (Daniel Forger, Univ. of Michigan & KITP) Daniel Forger, Univ. of Michigan & KITP http://online.kitp.ucsb.edu/online/bioclocks07/forger/ Fri, 13 Jul 2007 11:00:00 -0700 1:20:55 Double Toggle Switch in E. coli http://online.kitp.ucsb.edu/online/bioclocks07/forger1/ Daniel Forger, Univ. of Michigan & KITP (Daniel Forger, Univ. of Michigan & KITP) Daniel Forger, Univ. of Michigan & KITP http://online.kitp.ucsb.edu/online/bioclocks07/forger1/ Tue, 07 Aug 2007 11:00:00 -0700 45:28 Biological Clocks http://online.kitp.ucsb.edu/online/bioclocks07/goldbeter/ Albert Goldbeter, Univ. Bruxelles & KITP (Albert Goldbeter, Univ. Bruxelles & KITP) Albert Goldbeter, Univ. Bruxelles & KITP http://online.kitp.ucsb.edu/online/bioclocks07/goldbeter/ Thu, 05 Jul 2007 09:00:00 -0700 1:42:54 Symmetry-breaking, Using Some Math to Study Development, and Connecting Simple Development to a Medical Problem http://online.kitp.ucsb.edu/online/bioclocks07/gomer/ Richard Gomer, Rice & KITP (Richard Gomer, Rice & KITP) Richard Gomer, Rice & KITP http://online.kitp.ucsb.edu/online/bioclocks07/gomer/ Tue, 17 Jul 2007 09:00:00 -0700 1:38:49 Stochastic models for Circadian Rhythms http://online.kitp.ucsb.edu/online/bioclocks07/gonze/ Didier Gonze, Univ. Bruxelles & KITP (Didier Gonze, Univ. Bruxelles & KITP) Didier Gonze, Univ. Bruxelles & KITP http://online.kitp.ucsb.edu/online/bioclocks07/gonze/ Thu, 19 Jul 2007 09:00:00 -0700 1:22:39 Half-baked Theoretical Approach to Synchronization within the SCN http://online.kitp.ucsb.edu/online/bioclocks07/granada/ Adrian Granada, Humboldt, Berlin & KITP (Adrian Granada, Humboldt, Berlin & KITP) Adrian Granada, Humboldt, Berlin & KITP http://online.kitp.ucsb.edu/online/bioclocks07/granada/ Tue, 07 Aug 2007 09:00:00 -0700 34:51 Multisite Phosphorylation http://online.kitp.ucsb.edu/online/bioclocks07/gunawardena/ Jeremy Gunawardena, Harvard Med. School & KITP (Jeremy Gunawardena, Harvard Med. School & KITP) Jeremy Gunawardena, Harvard Med. School & KITP http://online.kitp.ucsb.edu/online/bioclocks07/gunawardena/ Mon, 09 Jul 2007 09:00:00 -0700 1:37:32 Connecting the Plant Clock to its Outputs http://online.kitp.ucsb.edu/online/bioclocks07/harmer/ Stacey Harmer, UCD (Stacey Harmer, UCD) Stacey Harmer, UCD http://online.kitp.ucsb.edu/online/bioclocks07/harmer/ Fri, 20 Jul 2007 09:00:00 -0700 1:29:33 Period Determination in the Mammalian Circadian System http://online.kitp.ucsb.edu/online/bioclocks07/herzog/ Erik Herzog, WA Univ in St. Louis (Erik Herzog, WA Univ in St. Louis) Erik Herzog, WA Univ in St. Louis http://online.kitp.ucsb.edu/online/bioclocks07/herzog/ Tue, 24 Jul 2007 11:00:00 -0700 1:42:38 Stress-induced Oscillatory Nucleocytoplasmic Behavior of the Transcription Factor Msn2 in Yeast http://online.kitp.ucsb.edu/online/bioclocks07/jacquet/ Michel Jacquet, Univ. Paris & KITP (Michel Jacquet, Univ. Paris & KITP) Michel Jacquet, Univ. Paris & KITP http://online.kitp.ucsb.edu/online/bioclocks07/jacquet/ Mon, 16 Jul 2007 09:00:00 -0700 1:38:36 Dynamic Changes of Cdk1 Signals in Budding Yeast Cell Cycle http://online.kitp.ucsb.edu/online/bioclocks07/loog/ Mart Loog, Univ. Tartu & KITP (Mart Loog, Univ. Tartu & KITP) Mart Loog, Univ. Tartu & KITP http://online.kitp.ucsb.edu/online/bioclocks07/loog/ Fri, 03 Aug 2007 09:00:00 -0700 1:25:14 Synchronized Cycles, Allosteric Transitions, and the Cyanobacterial Circadian Oscillator http://online.kitp.ucsb.edu/online/bioclocks07/lubensky/ David Lubensky, Univ. of Michigan & KITP (David Lubensky, Univ. of Michigan & KITP) David Lubensky, Univ. of Michigan & KITP http://online.kitp.ucsb.edu/online/bioclocks07/lubensky/ Fri, 03 Aug 2007 11:00:00 -0700 1:21:27 Noise in Bacterial Gene Expression: Experiments and Models. http://online.kitp.ucsb.edu/online/bioclocks07/mcmillen/ Dave McMillen, Univ. of Toronto & KITP (Dave McMillen, Univ. of Toronto & KITP) Dave McMillen, Univ. of Toronto & KITP http://online.kitp.ucsb.edu/online/bioclocks07/mcmillen/ Thu, 19 Jul 2007 11:00:00 -0700 1:24:59 Chemotaxis in E-Coli http://online.kitp.ucsb.edu/online/bioclocks07/meir/ Yigal Meir, Ben Gurion Univ. & KITP (Yigal Meir, Ben Gurion Univ. & KITP) Yigal Meir, Ben Gurion Univ. & KITP http://online.kitp.ucsb.edu/online/bioclocks07/meir/ Mon, 30 Jul 2007 11:00:00 -0700 1:32:45 A New Season's Model for the Plant Clock http://online.kitp.ucsb.edu/online/bioclocks07/millar/ Andrew Millar, Univ. of Edinburgh (Andrew Millar, Univ. of Edinburgh) Andrew Millar, Univ. of Edinburgh http://online.kitp.ucsb.edu/online/bioclocks07/millar/ Fri, 20 Jul 2007 11:00:00 -0700 1:48:54 Clocks and Dominoes: Studies into Positive Feedback and the Continuum from Early Embryo to Somatic Cell http://online.kitp.ucsb.edu/online/bioclocks07/pomerening/ Joe Pomerening, Indiana Univ. & KITP (Joe Pomerening, Indiana Univ. & KITP) Joe Pomerening, Indiana Univ. & KITP http://online.kitp.ucsb.edu/online/bioclocks07/pomerening/ Thu, 26 Jul 2007 09:00:00 -0700 1:39:22 Mapping Sensitivity & Using It to Design Experiments http://online.kitp.ucsb.edu/online/bioclocks07/rand/ David Rand, Univ of Warwick & KITP (David Rand, Univ of Warwick & KITP) David Rand, Univ of Warwick & KITP http://online.kitp.ucsb.edu/online/bioclocks07/rand/ Thu, 12 Jul 2007 11:00:00 -0700 1:38:52 Chemical Oscillations and Circadian Rhythms http://online.kitp.ucsb.edu/online/bioclocks07/ruoff/ Peter Ruoff, University of Stavanger & KITP (Peter Ruoff, University of Stavanger & KITP) Peter Ruoff, University of Stavanger & KITP http://online.kitp.ucsb.edu/online/bioclocks07/ruoff/ Fri, 06 Jul 2007 09:00:00 -0700 1:43:44 Perfect Adaptation with Zero Control Coefficients http://online.kitp.ucsb.edu/online/bioclocks07/ruoff1/ Peter Ruoff, Univ. of Stavanger & KITP (Peter Ruoff, Univ. of Stavanger & KITP) Peter Ruoff, Univ. of Stavanger & KITP http://online.kitp.ucsb.edu/online/bioclocks07/ruoff1/ Tue, 07 Aug 2007 09:45:00 -0700 32:58 Bistability in the Lactose Operon http://online.kitp.ucsb.edu/online/bioclocks07/santillan/ Moy Santillan, Cinvestav-IPN & KITP (Moy Santillan, Cinvestav-IPN & KITP) Moy Santillan, Cinvestav-IPN & KITP http://online.kitp.ucsb.edu/online/bioclocks07/santillan/ Tue, 10 Jul 2007 09:00:00 -0700 1:22:25 Modeling Signal Transduction: How quantitative can one get? http://online.kitp.ucsb.edu/online/bioclocks07/shraiman/ Boris Shraiman, UCSB, KITP (Boris Shraiman, UCSB, KITP) Boris Shraiman, UCSB, KITP http://online.kitp.ucsb.edu/online/bioclocks07/shraiman/ Mon, 30 Jul 2007 09:00:00 -0700 1:31:49 Modeling from an Experimentalist's Perspective: How to mine the literature and design experiments to provide data that informs mathematical models of signaling networks http://online.kitp.ucsb.edu/online/bioclocks07/sible/ Jill Sible, VA Polytechnic Inst & KITP (Jill Sible, VA Polytechnic Inst & KITP) Jill Sible, VA Polytechnic Inst & KITP http://online.kitp.ucsb.edu/online/bioclocks07/sible/ Tue, 24 Jul 2007 09:00:00 -0700 1:26:16 Biological Switches http://online.kitp.ucsb.edu/online/bioclocks07/tyson/ John Tyson, Virginia Polytechnic & KITP (John Tyson, Virginia Polytechnic & KITP) John Tyson, Virginia Polytechnic & KITP http://online.kitp.ucsb.edu/online/bioclocks07/tyson/ Tue, 03 Jul 2007 11:00:00 -0700 1:19:58 Cell Cycle Regulation in Yeast http://online.kitp.ucsb.edu/online/bioclocks07/tyson1/ John Tyson, Kathy Chen (Virginia Tech & KITP) (John Tyson, Kathy Chen (Virginia Tech & KITP)) John Tyson, Kathy Chen (Virginia Tech & KITP) http://online.kitp.ucsb.edu/online/bioclocks07/tyson1/ Fri, 27 Jul 2007 11:00:00 -0700 1:34:40 The Underlying Mechanism for Singularity Behavior of Circadian Clock http://online.kitp.ucsb.edu/online/bioclocks07/ueda/ Hiroki Ueda, Riken (Hiroki Ueda, Riken) Hiroki Ueda, Riken http://online.kitp.ucsb.edu/online/bioclocks07/ueda/ Tue, 10 Jul 2007 11:00:00 -0700 1:38:47 The Frequency Dependence and Perfect Adaptation of Osmosensing in Saccharomyces Cerevisiae http://online.kitp.ucsb.edu/online/bioclocks07/vanoudenaarden/ Alexander Van Oudenaarden, MIT (Alexander Van Oudenaarden, MIT) Alexander Van Oudenaarden, MIT http://online.kitp.ucsb.edu/online/bioclocks07/vanoudenaarden/ Tue, 31 Jul 2007 11:00:00 -0700 1:33:12 Energy Landscape Theory of Cellular Networks http://online.kitp.ucsb.edu/online/bioclocks07/wang/ Jin Wang, SUNY Stony Brook & KITP (Jin Wang, SUNY Stony Brook & KITP) Jin Wang, SUNY Stony Brook & KITP http://online.kitp.ucsb.edu/online/bioclocks07/wang/ Mon, 06 Aug 2007 11:00:00 -0700 1:28:38 Design Principles from HIV's Latency Circuit: Noisy positive feedback, monostability, and a simple 'timing' fuse http://online.kitp.ucsb.edu/online/bioclocks07/weinberger/ Leor Weinberger, Princeton & KITP (Leor Weinberger, Princeton & KITP) Leor Weinberger, Princeton & KITP http://online.kitp.ucsb.edu/online/bioclocks07/weinberger/ Thu, 02 Aug 2007 11:00:00 -0700 1:32:09 Of Microbes and Memory http://online.kitp.ucsb.edu/online/bioclocks07/wolf/ Denise Wolf, LBNL (Denise Wolf, LBNL) Denise Wolf, LBNL http://online.kitp.ucsb.edu/online/bioclocks07/wolf/ Tue, 31 Jul 2007 09:00:00 -0700 1:29:34