BE 150/Bi 250 Spring 2014 - Revision history

Vhsiao: /* Lecture Schedule */

2014-05-21T21:10:01Z

Lecture Schedule

← Older revision		Revision as of 21:10, 21 May 2014
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	* {{be150 pdf\|sp14\|caltech/bfs-class-tradeoffs_31Mar14.pdf\|BFS Ch 7}}: Design Tradeoffs		* {{be150 pdf\|sp14\|caltech/bfs-class-tradeoffs_31Mar14.pdf\|BFS Ch 7}}: Design Tradeoffs
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	~~<!-- HW 6 -->~~		[http://www.cds.caltech.edu/~murray/courses/be150/sp14/hw6.pdf HW6]
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Vhsiao: /* Lecture Schedule */

2014-05-21T18:35:16Z

Lecture Schedule

← Older revision		Revision as of 18:35, 21 May 2014
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	* [http://www.nature.com/nature/journal/v455/n7212/full/nature07292.html Frequency-modulated nuclear localization bursts coordinate gene regulation], Long Cai, Chiraj K. Dalal and Michael B. Elowitz. Nature 455:485-490, 2008.		* [http://www.nature.com/nature/journal/v455/n7212/full/nature07292.html Frequency-modulated nuclear localization bursts coordinate gene regulation], Long Cai, Chiraj K. Dalal and Michael B. Elowitz. Nature 455:485-490, 2008.
	* [http://www.nature.com/nature/journal/v446/n7136/full/nature05685.html Antibiotic interactions that select against resistance.], Remy Chait ''et al''. ''Nature'', 2007 Apr 5;446(7136):668-71.		* [http://www.nature.com/nature/journal/v446/n7136/full/nature05685.html Antibiotic interactions that select against resistance.], Remy Chait ''et al''. ''Nature'', 2007 Apr 5;446(7136):668-71.
			* [http://www.nature.com/ng/journal/v37/n1/abs/ng1489.html Modular epistasis in yeast metabolism.], Daniel Segrè ''et al''. ''Nature Genetics'', 37, 77 - 83 (2004) .

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Vhsiao: /* Lecture Schedule */

2014-05-21T18:28:15Z

Lecture Schedule

← Older revision		Revision as of 18:28, 21 May 2014
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	* [http://www.sciencedirect.com/science/article/pii/S0092867403003465 Development of Genetic Circuitry Exhibiting Toggle Switch or Oscillatory Behavior in Escherichia coli], Mariette R. Atkinson ''et al''. ''Cell'', Volume 113, Issue 5, 30 May 2003, Pages 597–607		* [http://www.sciencedirect.com/science/article/pii/S0092867403003465 Development of Genetic Circuitry Exhibiting Toggle Switch or Oscillatory Behavior in Escherichia coli], Mariette R. Atkinson ''et al''. ''Cell'', Volume 113, Issue 5, 30 May 2003, Pages 597–607
	* [http://www.nature.com/nature/journal/v455/n7212/full/nature07292.html Frequency-modulated nuclear localization bursts coordinate gene regulation], Long Cai, Chiraj K. Dalal and Michael B. Elowitz. Nature 455:485-490, 2008.		* [http://www.nature.com/nature/journal/v455/n7212/full/nature07292.html Frequency-modulated nuclear localization bursts coordinate gene regulation], Long Cai, Chiraj K. Dalal and Michael B. Elowitz. Nature 455:485-490, 2008.
			* [http://www.nature.com/nature/journal/v446/n7136/full/nature05685.html Antibiotic interactions that select against resistance.], Remy Chait ''et al''. ''Nature'', 2007 Apr 5;446(7136):668-71.

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	* [http://www.nature.com/ng/journal/v36/n2/full/ng1293.html Dynamics of the p53-Mdm2 feedback loop in individual cells], Galit Lahav ''et al''. ''Nature Genetics'', 36:147-150, 2004.		* [http://www.nature.com/ng/journal/v36/n2/full/ng1293.html Dynamics of the p53-Mdm2 feedback loop in individual cells], Galit Lahav ''et al''. ''Nature Genetics'', 36:147-150, 2004.

Vhsiao: /* Lecture Schedule */

2014-05-21T16:05:52Z

Lecture Schedule

← Older revision		Revision as of 16:05, 21 May 2014
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	* [http://www.sciencedirect.com/science/article/pii/S0092867403003465 Development of Genetic Circuitry Exhibiting Toggle Switch or Oscillatory Behavior in Escherichia coli], Mariette R. Atkinson ''et al''. ''Cell'', Volume 113, Issue 5, 30 May 2003, Pages 597–607		* [http://www.sciencedirect.com/science/article/pii/S0092867403003465 Development of Genetic Circuitry Exhibiting Toggle Switch or Oscillatory Behavior in Escherichia coli], Mariette R. Atkinson ''et al''. ''Cell'', Volume 113, Issue 5, 30 May 2003, Pages 597–607
			* [http://www.nature.com/nature/journal/v455/n7212/full/nature07292.html Frequency-modulated nuclear localization bursts coordinate gene regulation], Long Cai, Chiraj K. Dalal and Michael B. Elowitz. Nature 455:485-490, 2008.
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	* [http://www.nature.com/ng/journal/v36/n2/full/ng1293.html Dynamics of the p53-Mdm2 feedback loop in individual cells], Galit Lahav ''et al''. ''Nature Genetics'', 36:147-150, 2004.		* [http://www.nature.com/ng/journal/v36/n2/full/ng1293.html Dynamics of the p53-Mdm2 feedback loop in individual cells], Galit Lahav ''et al''. ''Nature Genetics'', 36:147-150, 2004.

Vhsiao: /* Lecture Schedule */

2014-05-21T05:20:11Z

Lecture Schedule

← Older revision		Revision as of 05:20, 21 May 2014
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	* Pulsing can enable dynamic multiplexing (example: p53)		* Pulsing can enable dynamic multiplexing (example: p53)
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			* [http://www.sciencedirect.com/science/article/pii/S0092867403003465 Development of Genetic Circuitry Exhibiting Toggle Switch or Oscillatory Behavior in Escherichia coli], Mariette R. Atkinson ''et al''. ''Cell'', Volume 113, Issue 5, 30 May 2003, Pages 597–607
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	* [http://www.nature.com/ng/journal/v36/n2/full/ng1293.html Dynamics of the p53-Mdm2 feedback loop in individual cells], Galit Lahav ''et al''. ''Nature Genetics'', 36:147-150, 2004.		* [http://www.nature.com/ng/journal/v36/n2/full/ng1293.html Dynamics of the p53-Mdm2 feedback loop in individual cells], Galit Lahav ''et al''. ''Nature Genetics'', 36:147-150, 2004.

Murray: /* Lecture Schedule */

2014-05-19T18:18:07Z

Lecture Schedule

← Older revision		Revision as of 18:18, 19 May 2014
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	* Tools for analyzing/designing biocircuits to predict limiting effects		* Tools for analyzing/designing biocircuits to predict limiting effects
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			* {{be150 pdf\|sp14\|caltech/bfs-class-dynamics_31Mar14.pdf\|BFS Ch 3}}: Sec 3.2 (sensitivity analysis)
	* {{be150 pdf\|sp14\|caltech/bfs-class-components_31Mar14.pdf\|BFS Ch 5}}: Biological Circuit Components		* {{be150 pdf\|sp14\|caltech/bfs-class-components_31Mar14.pdf\|BFS Ch 5}}: Biological Circuit Components
	* {{be150 pdf\|sp14\|caltech/bfs-class-interconnection_31Mar14.pdf\|BFS Ch 6}}: Interconnecting Components		* {{be150 pdf\|sp14\|caltech/bfs-class-interconnection_31Mar14.pdf\|BFS Ch 6}}: Interconnecting Components

Murray: /* Lecture Schedule */

2014-05-18T22:22:44Z

Lecture Schedule

← Older revision		Revision as of 22:22, 18 May 2014
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	\| Engineered circuits		\| Engineered circuits
	* Current approaches for analysis and design of engineered biocircuits + limitations		* Current approaches for analysis and design of engineered biocircuits + limitations
	• Tools for analyzing/designing biocircuits to predict limiting effects		* Tools for analyzing/designing biocircuits to predict limiting effects
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	* {{be150 pdf\|sp14\|caltech/bfs-class-components_31Mar14.pdf\|BFS Ch 5}}: Biological Circuit Components		* {{be150 pdf\|sp14\|caltech/bfs-class-components_31Mar14.pdf\|BFS Ch 5}}: Biological Circuit Components

Murray: /* Lecture Schedule */

2014-05-18T22:16:20Z

Lecture Schedule

← Older revision		Revision as of 22:16, 18 May 2014
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	\| 12 May <br> 14 May <br> RMM		\| 12 May <br> 14 May <br> RMM
	\| Engineered circuits		\| Engineered circuits
			* Current approaches for analysis and design of engineered biocircuits + limitations
			• Tools for analyzing/designing biocircuits to predict limiting effects
	\|		\|
			* {{be150 pdf\|sp14\|caltech/bfs-class-components_31Mar14.pdf\|BFS Ch 5}}: Biological Circuit Components
			* {{be150 pdf\|sp14\|caltech/bfs-class-interconnection_31Mar14.pdf\|BFS Ch 6}}: Interconnecting Components
			* {{be150 pdf\|sp14\|caltech/bfs-class-tradeoffs_31Mar14.pdf\|BFS Ch 7}}: Design Tradeoffs
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	<!-- HW 6 -->		<!-- HW 6 -->

Murray: /* Lecture Schedule */

2014-05-18T20:43:44Z

Lecture Schedule

← Older revision		Revision as of 20:43, 18 May 2014
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	'''9'''		'''9'''
	\| 29 May <br> 30 May <br> 2 Jun		\| 29 May <br> 30 May <br> 2 Jun
	\| colspan=3 \| Project presentations		\| colspan=3 \| [[BE 150/Bi 250 Spring 2014, Project presentation schedule\|Project presentations]]
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Vsinghal: /* Lecture Schedule */

2014-05-05T18:21:45Z

Lecture Schedule

← Older revision		Revision as of 18:21, 5 May 2014
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	* Alon, Ch 8: Robust Patterning in Development		* Alon, Ch 8: Robust Patterning in Development
			* [http://www.nature.com/nature/journal/v419/n6904/pdf/nature01061.pdf Robustness of the BMP morphogen gradient in Drosophila embryonic patterning], Eldar et al. Nature 419, 304-308 (19 September 2002)
	* [http://~~linkinghub~~.~~elsevier~~.com/~~retrieve~~/~~pii~~/~~S0959437X04000887 Elucidating mechanisms underlying robustness~~ of morphogen ~~gradients~~], Avigdor Eldar, Ben-Zion Shilo and Naama Barkai. ~~''Curr Opin Genet Dev~~.'', ~~14(4):435-439~~, ~~2004.~~		* [http://ac.els-cdn.com/S1534580703002922/1-s2.0-S1534580703002922-main.pdf?_tid=4155dfe4-d481-11e3-8359-00000aacb360&acdnat=1399313916_fc28c2a5c2eee01a7821157a8df44aee Self-Enhanced Ligand Degradation Underlies Robustness of Morphogen Gradients], Avigdor Eldar, Dalia Rosin, Ben-Zion Shilo, and Naama Barkai. Developmental Cell, Vol. 5, 635–646, October, 2003
	* [http://www.pnas.org/content/107/15/6924.short Scaling of morphogen gradients by an expansion-repression integral feedback control], Danny Ben-Zvia and Naama Barkai. ''PNAS'', 107(15):6924-6929, 2010.		* [http://www.pnas.org/content/107/15/6924.short Scaling of morphogen gradients by an expansion-repression integral feedback control], Danny Ben-Zvia and Naama Barkai. ''PNAS'', 107(15):6924-6929, 2010.
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			* [http://linkinghub.elsevier.com/retrieve/pii/S0959437X04000887 Elucidating mechanisms underlying robustness of morphogen gradients], Avigdor Eldar, Ben-Zion Shilo and Naama Barkai. ''Curr Opin Genet Dev.'', 14(4):435-439, 2004.
	* [http://www.ncbi.nlm.nih.gov/pubmed/9015458 Pattern formation by lateral inhibition with feedback: a mathematical model of delta-notch intercellular signalling], Collier et al. Journal of theoretical biology (1996) vol. 183 (4) pp. 429-46.		* [http://www.ncbi.nlm.nih.gov/pubmed/9015458 Pattern formation by lateral inhibition with feedback: a mathematical model of delta-notch intercellular signalling], Collier et al. Journal of theoretical biology (1996) vol. 183 (4) pp. 429-46.
	* [http://www.ncbi.nlm.nih.gov/pubmed/20418862 Cis-interactions between Notch and Delta generate mutually exclusive signalling states], Sprinzak et al. Nature (2010) vol. 465 (7294) pp. 86-90		* [http://www.ncbi.nlm.nih.gov/pubmed/20418862 Cis-interactions between Notch and Delta generate mutually exclusive signalling states], Sprinzak et al. Nature (2010) vol. 465 (7294) pp. 86-90