BE 150/Bi 250b Winter 2013 - Revision history

Vhsiao: /* Lecture Schedule */

2013-03-06T18:49:53Z

Lecture Schedule

← Older revision		Revision as of 18:49, 6 March 2013
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	\| rowspan=2 \| [http://www.cds.caltech.edu/~murray/courses/be150/wi13/hw6.pdf HW6]		\| rowspan=2 \| [http://www.cds.caltech.edu/~murray/courses/be150/wi13/hw6.pdf HW6]
	[http://www.cds.caltech.edu/~murray/courses/be150/wi13/matlab/NotchDeltaGui.m NotchDeltaGui.m]		[http://www.cds.caltech.edu/~murray/courses/be150/wi13/matlab/NotchDeltaGui.m NotchDeltaGui.m]
			[http://www.cds.caltech.edu/~murray/courses/be150/wi13/matlab/NotchDeltaGui2.m NotchDeltaGui2.m]
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Vhsiao: /* Lecture Schedule */

2013-03-06T08:08:18Z

Lecture Schedule

← Older revision		Revision as of 08:08, 6 March 2013
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	* [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.
	\| rowspan=2 \| [http://www.cds.caltech.edu/~murray/courses/be150/wi13/hw6.pdf HW6]		\| rowspan=2 \| [http://www.cds.caltech.edu/~murray/courses/be150/wi13/hw6.pdf HW6]
	[http://www.cds.caltech.edu/~murray/courses/be150/wi13/NotchDeltaGui.m NotchDeltaGui.m]		[http://www.cds.caltech.edu/~murray/courses/be150/wi13/matlab/NotchDeltaGui.m NotchDeltaGui.m]

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Vhsiao: /* Lecture Schedule */

2013-03-05T22:46:57Z

Lecture Schedule

← Older revision		Revision as of 22:46, 5 March 2013
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	* [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.
	\| rowspan=2 \| [http://www.cds.caltech.edu/~murray/courses/be150/wi13/hw6.pdf HW6]		\| rowspan=2 \| [http://www.cds.caltech.edu/~murray/courses/be150/wi13/hw6.pdf HW6]
			[http://www.cds.caltech.edu/~murray/courses/be150/wi13/NotchDeltaGui.m NotchDeltaGui.m]

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Murray: /* Lecture Schedule */

2013-02-28T05:50:23Z

Lecture Schedule

← Older revision		Revision as of 05:50, 28 February 2013
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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://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.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.
	\| rowspan=2 \| ~~HW 6~~		\| rowspan=2 \| [http://www.cds.caltech.edu/~murray/courses/be150/wi13/hw6.pdf HW6]

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Murray: /* Lecture Schedule */

2013-02-16T18:33:12Z

Lecture Schedule

← Older revision		Revision as of 18:33, 16 February 2013
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	\| 20 Feb+*<br>		\| 15 Feb+*<br>
	\| colspan=3 \| Course project discussion with TAs		\| colspan=3 \| Course project discussion with TAs

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	'''7'''		'''7'''
	\| 22 Feb* <br> 25 Feb <br> RMM		\| <s>18 Feb</s><br><s>20 Feb</s><br>22 Feb* <br> 25 Feb <br> RMM
	\| Patterning		\| Patterning
	* Morphogenesis		* Morphogenesis

Murray: /* Lecture Schedule */

2013-02-13T01:19:27Z

Lecture Schedule

← Older revision		Revision as of 01:19, 13 February 2013
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	* {{be150 pdf\|wi13\|caltech/bfs-class-stochastic_05Jan13.pdf\|BFS, Ch 4}}: Stochastic behavior		* {{be150 pdf\|wi13\|caltech/bfs-class-stochastic_05Jan13.pdf\|BFS, Ch 4}}: Stochastic behavior
	* {{be150 pdf\|wi13\|caltech/bfs-class-random_05Jan13.pdf\|BFS, App B}}: Probability and random processes (optional)		* {{be150 pdf\|wi13\|caltech/bfs-class-random_05Jan13.pdf\|BFS, App B}}: Probability and random processes (optional)
	\| rowspan=2 \| ~~HW 5~~		\| rowspan=2 \| [http://www.cds.caltech.edu/~murray/courses/be150/wi13/hw5.pdf HW5]

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Murray at 05:52, 4 February 2013

2013-02-04T05:52:14Z

← Older revision		Revision as of 05:52, 4 February 2013
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	* [http://www.nature.com/nature/journal/v440/n7082/full/nature04599.html Stochastic protein expression in individual cells at the single molecule level], Long Cai, Nir Friedman and X. Sunney Xie. ''Nature'', 440:358-362, 2006.		* [http://www.nature.com/nature/journal/v440/n7082/full/nature04599.html Stochastic protein expression in individual cells at the single molecule level], Long Cai, Nir Friedman and X. Sunney Xie. ''Nature'', 440:358-362, 2006.
	BE 150:		BE 150:
	* {{be150 pdf\|~~wi12~~\|caltech/bfs-class-stochastic_05Jan13.pdf\|BFS, Ch 4}}: Stochastic behavior		* {{be150 pdf\|wi13\|caltech/bfs-class-stochastic_05Jan13.pdf\|BFS, Ch 4}}: Stochastic behavior
	* {{be150 pdf\|~~wi12~~\|caltech/bfs-class-random_05Jan13.pdf\|BFS, App B}}: Probability and random processes (optional)		* {{be150 pdf\|wi13\|caltech/bfs-class-random_05Jan13.pdf\|BFS, App B}}: Probability and random processes (optional)
	\| rowspan=2 \| HW 5		\| rowspan=2 \| HW 5

Murray at 05:50, 4 February 2013

2013-02-04T05:50:15Z

← Older revision		Revision as of 05:50, 4 February 2013
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	* [http://www.nature.com/nature/journal/v440/n7082/full/nature04599.html Stochastic protein expression in individual cells at the single molecule level], Long Cai, Nir Friedman and X. Sunney Xie. ''Nature'', 440:358-362, 2006.		* [http://www.nature.com/nature/journal/v440/n7082/full/nature04599.html Stochastic protein expression in individual cells at the single molecule level], Long Cai, Nir Friedman and X. Sunney Xie. ''Nature'', 440:358-362, 2006.
	BE 150:		BE 150:
	* {{be150 pdf\|wi12\|caltech/bfs-class-~~stochastic_29Jan12~~.pdf\|BFS, Ch 4}}: Stochastic behavior		* {{be150 pdf\|wi12\|caltech/bfs-class-stochastic_05Jan13.pdf\|BFS, Ch 4}}: Stochastic behavior
	* {{be150 pdf\|wi12\|caltech/bfs-class-~~random_29Jan12~~.pdf\|BFS, App C}}: Probability and random processes (optional)		* {{be150 pdf\|wi12\|caltech/bfs-class-random_05Jan13.pdf\|BFS, App B}}: Probability and random processes (optional)
	\| rowspan=2 \| HW 5		\| rowspan=2 \| HW 5

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	* Note: these notes are being written and will be updated during the course		* Note: these notes are being written and will be updated during the course
	* The public version is missing some copyrighted figures. These are available in the class version.		* The public version is missing some copyrighted figures. These are available in the class version.
	* Class version (Caltech access only, 5 Jan 2013): {{be150 pdf\|wi13\|caltech/bfs-class-frontmatter_05Jan13.pdf\|TOC}}, {{be150 pdf\|wi13\|caltech/bfs-class-intro_05Jan13.pdf\|Ch 1}}, {{be150 pdf\|wi13\|caltech/bfs-class-coreproc_05Jan13.pdf\|Ch 2}}, {{be150 pdf\|wi13\|caltech/bfs-class-dynamics_05Jan13.pdf\|Ch 3}}, {{be150 pdf ~~hold~~\|wi13\|caltech/bfs-class-~~stochastic_29Jan13~~.pdf\|Ch 4}}, {{be150 pdf\|wi13\|caltech/bfs-class-chemotaxis_05Jan13.pdf\|Sec 5.2}}, {{be150 pdf ~~hold~~\|wi13\|caltech/bfs-class-~~random_29Jan13~~.pdf\|App C}}, {{be150 pdf\|wi13\|caltech/bfs-class-backmatter_05Jan13.pdf\|Refs}}		* Class version (Caltech access only, 5 Jan 2013): {{be150 pdf\|wi13\|caltech/bfs-class-frontmatter_05Jan13.pdf\|TOC}}, {{be150 pdf\|wi13\|caltech/bfs-class-intro_05Jan13.pdf\|Ch 1}}, {{be150 pdf\|wi13\|caltech/bfs-class-coreproc_05Jan13.pdf\|Ch 2}}, {{be150 pdf\|wi13\|caltech/bfs-class-dynamics_05Jan13.pdf\|Ch 3}}, {{be150 pdf\|wi13\|caltech/bfs-class-stochastic_05Jan13.pdf\|Ch 4}}, {{be150 pdf\|wi13\|caltech/bfs-class-chemotaxis_05Jan13.pdf\|Sec 5.2}}, {{be150 pdf\|wi13\|caltech/bfs-class-random_05Jan13.pdf\|App B}}, {{be150 pdf\|wi13\|caltech/bfs-class-backmatter_05Jan13.pdf\|Refs}}
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Vhsiao: /* Lecture Schedule */

2013-02-01T19:39:41Z

Lecture Schedule

← Older revision		Revision as of 19:39, 1 February 2013
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	* Controls analysis of robustness		* Controls analysis of robustness
	Recitation (1 Feb): sensitivity analysis		Recitation (1 Feb): sensitivity analysis
			*Demo of sensitivity analysis and how to add events in simbio: {{be150-wi13 matlab\|I1FFL_sens_event_demo.sbproj}}
			*Demo of how to use compartments within one model: {{be150-wi13 matlab\|multiple_compartments.sbproj}}

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	* Alon, Ch 7: Robustness of protein circuits : the example of bacterial chemotaxis		* Alon, Ch 7: Robustness of protein circuits : the example of bacterial chemotaxis

Murray: /* Lecture Schedule */

2013-02-01T04:55:29Z

Lecture Schedule

← Older revision		Revision as of 04:55, 1 February 2013
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	\| 1 Feb		\| 1 Feb
	\| colspan=3 \| [[BE 150/Bi 250b project ideas, Winter 2013\|Course projects]] posted. Instructions:		\| colspan=3 \| [[BE 150/Bi 250b project ideas, Winter 2013\|'''Course projects''']] posted. Instructions:
	{{BE 150 project instructions, Winter 2013}}		{{BE 150 project instructions, Winter 2013}}