Raj Lab:Reading list - Revision history

Arjunraj at 12:23, 5 January 2010

2010-01-05T12:23:58Z

←Older revision		Revision as of 12:23, 5 January 2010
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	{{Raj}}		{{Raj}}

-	Here's a list of papers that we think are interesting or useful (still very much a work in progress.~~..):~~	+	Here's a list of papers that we think are interesting or useful--still very much a work in progress.

	== Introduction to stochastic effects in gene expression ==		== Introduction to stochastic effects in gene expression ==

Arjunraj at 20:01, 28 December 2009

2009-12-28T20:01:47Z

←Older revision		Revision as of 20:01, 28 December 2009
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	#ozbudak-natgen-02 pmid=11967532		#ozbudak-natgen-02 pmid=11967532
	//Perhaps the first demonstration of the dependence of variability upon biochemical parameters.		//Perhaps the first demonstration of the dependence of variability upon biochemical parameters.
		+	</biblio>
		+
		+	== Numbers in biology ==
		+
		+	<biblio>
		+	#berg-biophysj-77 pmid=911982
		+	//A classic paper about the physical limits of receptor function.
		+	#phillips-pnas-09 pmid=20018695
		+	//A really cool paper about the role that quantitative measurements can play in studying biology
	</biblio>		</biblio>

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	#turing-ptrslb-52 pmid=2185858		#turing-ptrslb-52 pmid=2185858
	//This paper talks about how patterns can form from the spatial interactions between diffusing chemical species. Check out the date this paper was published: before the structure of DNA (this ref says 1953, but it was actually 1952)! Also, it's one of the first papers to recognize the role that computer simulations could play in studying these types of problems.		//This paper talks about how patterns can form from the spatial interactions between diffusing chemical species. Check out the date this paper was published: before the structure of DNA (this ref says 1953, but it was actually 1952)! Also, it's one of the first papers to recognize the role that computer simulations could play in studying these types of problems.
-	~~#berg-biophysj-77 pmid=911982~~
-	~~//A classic paper about the physical limits of receptor function.~~
	#gregor-cell-07 pmid=17632062		#gregor-cell-07 pmid=17632062
	#wernet-nature06 pmid=16525464		#wernet-nature06 pmid=16525464

Arjunraj: /* Developmental biology */

2009-10-29T14:43:02Z

Developmental biology

←Older revision		Revision as of 14:43, 29 October 2009
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	<biblio>		<biblio>
	#turing-ptrslb-52 pmid=2185858		#turing-ptrslb-52 pmid=2185858
-	//This paper talks about how patterns can form from the spatial interactions between diffusing chemical species. Check out the date this paper was published: before the structure of DNA! Also, it's one of the first papers to recognize the role that computer simulations could play in studying these types of problems.	+	//This paper talks about how patterns can form from the spatial interactions between diffusing chemical species. Check out the date this paper was published: before the structure of DNA (this ref says 1953, but it was actually 1952)! Also, it's one of the first papers to recognize the role that computer simulations could play in studying these types of problems.
	#berg-biophysj-77 pmid=911982		#berg-biophysj-77 pmid=911982
	//A classic paper about the physical limits of receptor function.		//A classic paper about the physical limits of receptor function.

Arjunraj: /* Developmental biology */

2009-10-29T14:41:53Z

Developmental biology

←Older revision		Revision as of 14:41, 29 October 2009
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	<biblio>		<biblio>
		+	#turing-ptrslb-52 pmid=2185858
		+	//This paper talks about how patterns can form from the spatial interactions between diffusing chemical species. Check out the date this paper was published: before the structure of DNA! Also, it's one of the first papers to recognize the role that computer simulations could play in studying these types of problems.
	#berg-biophysj-77 pmid=911982		#berg-biophysj-77 pmid=911982
	//A classic paper about the physical limits of receptor function.		//A classic paper about the physical limits of receptor function.

Arjunraj: /* Developmental biology */

2009-10-11T18:20:00Z

Developmental biology

←Older revision		Revision as of 18:20, 11 October 2009
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	#wernet-nature06 pmid=16525464		#wernet-nature06 pmid=16525464
	//A technical tour de force in which the authors show that stochastic expression established the retinal mosaic in fruit flies.		//A technical tour de force in which the authors show that stochastic expression established the retinal mosaic in fruit flies.
		+	#chang-nature08 pmid=18497826
		+	//In this paper, the authors show that stochastic lineage commitment is a result of transcriptome wide variability in gene expression. Cool!

Arjunraj at 17:25, 21 September 2009

2009-09-21T17:25:12Z

←Older revision		Revision as of 17:25, 21 September 2009
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	Here's a list of papers that we think are interesting or useful (still very much a work in progress...):		Here's a list of papers that we think are interesting or useful (still very much a work in progress...):

-	== ~~Stochastic~~ gene expression ==	+	== Introduction to stochastic effects in gene expression ==

	<biblio>		<biblio>
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	//Perhaps the first demonstration of the dependence of variability upon biochemical parameters.		//Perhaps the first demonstration of the dependence of variability upon biochemical parameters.
	</biblio>		</biblio>
		+
		+	== Developmental biology ==
		+
		+	<biblio>
		+	#berg-biophysj-77 pmid=911982
		+	//A classic paper about the physical limits of receptor function.
		+	#gregor-cell-07 pmid=17632062
		+	#wernet-nature06 pmid=16525464
		+	//A technical tour de force in which the authors show that stochastic expression established the retinal mosaic in fruit flies.

Arjunraj at 13:17, 21 September 2009

2009-09-21T13:17:18Z

←Older revision		Revision as of 13:17, 21 September 2009
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	{{Raj}}		{{Raj}}

-	~~Of course,~~ we think ~~our papers~~ are ~~the coolest :), but if you HAVE to read some other papers, here are some we really like~~ (still very much in progress...):	+	Here's a list of papers that we think are interesting or useful (still very much a work in progress...):

	== Stochastic gene expression ==		== Stochastic gene expression ==

Arjunraj: /* Stochastic gene expression */

2009-09-20T20:49:01Z

Stochastic gene expression

←Older revision		Revision as of 20:49, 20 September 2009
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	//A surprisingly modern analysis of non-genetic variability in gene expression in mammalian cells.		//A surprisingly modern analysis of non-genetic variability in gene expression in mammalian cells.
	#elowitz-science-02 pmid=12183631		#elowitz-science-02 pmid=12183631
-	//A beautiful demonstration that variability in gene expression is ~~explicitly~~ random.	+	//A beautiful demonstration that variability in gene expression is intrinsically random.
	#ozbudak-natgen-02 pmid=11967532		#ozbudak-natgen-02 pmid=11967532
	//Perhaps the first demonstration of the dependence of variability upon biochemical parameters.		//Perhaps the first demonstration of the dependence of variability upon biochemical parameters.
	</biblio>		</biblio>

Arjunraj at 20:48, 20 September 2009

2009-09-20T20:48:44Z

←Older revision		Revision as of 20:48, 20 September 2009
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	#ko-emboj-90 pmid=2167833		#ko-emboj-90 pmid=2167833
	//A surprisingly modern analysis of non-genetic variability in gene expression in mammalian cells.		//A surprisingly modern analysis of non-genetic variability in gene expression in mammalian cells.
-	#elowitz-science-02 pmid=12183631 [A beautiful demonstration that variability in gene expression is explicitly random]	+	#elowitz-science-02 pmid=12183631
		+	//A beautiful demonstration that variability in gene expression is explicitly random.
	#ozbudak-natgen-02 pmid=11967532		#ozbudak-natgen-02 pmid=11967532
		+	//Perhaps the first demonstration of the dependence of variability upon biochemical parameters.
	</biblio>		</biblio>

Arjunraj at 20:45, 20 September 2009

2009-09-20T20:45:08Z

←Older revision		Revision as of 20:45, 20 September 2009
Line 8:		Line 8:
	#ko-emboj-90 pmid=2167833		#ko-emboj-90 pmid=2167833
	//A surprisingly modern analysis of non-genetic variability in gene expression in mammalian cells.		//A surprisingly modern analysis of non-genetic variability in gene expression in mammalian cells.
-	#elowitz-science-02 pmid=12183631	+	#elowitz-science-02 pmid=12183631 [A beautiful demonstration that variability in gene expression is explicitly random]
	#ozbudak-natgen-02 pmid=11967532		#ozbudak-natgen-02 pmid=11967532
	</biblio>		</biblio>