Promoter Kinetics - Revision history

WikiSysop: /* Promoter Kinetics and Stochasticity of Gene Expression */

2007-12-10T15:46:53Z

‎Promoter Kinetics and Stochasticity of Gene Expression

Miwaters at 14:48, 6 December 2007

2007-12-06T14:48:26Z

Miwaters at 14:45, 6 December 2007

2007-12-06T14:45:42Z

Miwaters at 19:50, 5 December 2007

2007-12-05T19:50:37Z

Miwaters at 19:50, 5 December 2007

2007-12-05T19:50:05Z

Miwaters at 19:49, 5 December 2007

2007-12-05T19:49:20Z

Miwaters at 19:48, 5 December 2007

2007-12-05T19:48:05Z

Miwaters at 19:47, 5 December 2007

2007-12-05T19:47:54Z

Miwaters at 04:00, 13 November 2007

2007-11-13T04:00:28Z

Miwaters at 04:00, 13 November 2007

2007-11-13T04:00:13Z

@@ Line 1: / Line 1: @@
 =Promoter Kinetics and Stochasticity of Gene Expression=
-A fast transition between promoter states is one assumption that has to be true in order for deterministic gene expression models to resemble experimental data (Collins et. al., 2003). This is because promoters that remains in an active state allow many "short bursts" of mRNA synthesis; the same rate limiting steps that inhibit turnover time of promoter activation also force the promoter to stay in a repressed state for longer time periods during which production of mRNA is very low.
+A fast transition between promoter states is one assumption that has to be true in order for deterministic gene expression models to resemble experimental data (Collins et. al., 2003). This is because promoters that remain in an active state allow many "short bursts" of mRNA synthesis; the same rate limiting steps that inhibit turnover time of promoter activation also force the promoter to stay in a repressed state for longer time periods during which production of mRNA is very low.
 Diagrams of protein accumulation in genes with slow promoter transitions (between induction and repression) are often characterized by two bistable states that mirror the state of the promoter (Figure 1). This is contrasted with the steady-state concentration of proteins that are expressed by promoters with fast transition kinetics. While most biochemical processes in prokaryotes are assumed to have such a fast turnover rate of promoter state that the effect can be ignored, the kinetics of the expression of some genes are a source of a large amount of variability. The variable number of mRNA synthesis is also referred to as transcriptional bursting or transcriptional efficiency.

@@ Line 7: / Line 7: @@
 <center>Figure 1 <br>
 [[Image:Promoter_kinetics.png | 500 px]]<br>
-Figure 1 was obtained at
+Figure 1 was obtained at http://www.ncbi.nlm.nih.gov/sites/entrez?db=pubmed&uid=15883588&cmd=showdetailview&indexed=google permission pending</center> <br>
-http://www.ncbi.nlm.nih.gov/sites/entrez?db=pubmed&uid=15883588&cmd=showdetailview&indexed=google permission pending</center> <br>
+Figure 1 visually depicts the comparison between the steady state of protein production achieved by a promoter with a fast turnover rate (a), and the bistable state of protein production resulting from a slow promoter turnover rate (b).
 <br><br><br>
 <center>[[Stochasticity in a Eukaryotic Background |Next Section in Origins and Characterization]] | [[Origins and Characterization of Stochasticity | Back to Origins and Characterization Home]]</center>

@@ Line 1: / Line 1: @@
 =Promoter Kinetics and Stochasticity of Gene Expression=
-Fast transitions between promoter states is one of the assumptions that has to be fufilled in order for deterministic gene expression models to resemble experimental data (Collins et. al., 2003). This is becuase promoters that remains in an active state allow many "short bursts" of mRNA synthesis; the same rate limiting steps that inhibit turnover time of promoter activation also force the promoter to stay in a repressed state for longer time periods during which production of mRNA is very low.
+A fast transition between promoter states is one assumption that has to be true in order for deterministic gene expression models to resemble experimental data (Collins et. al., 2003). This is because promoters that remains in an active state allow many "short bursts" of mRNA synthesis; the same rate limiting steps that inhibit turnover time of promoter activation also force the promoter to stay in a repressed state for longer time periods during which production of mRNA is very low.
-Diagrams of protein accumulation in genes with slow transition states are characterized by two bistable states that mirror the state of the promoter (Figure 1). This is contrasted with the steady-state concentration of proteins that are expressed by promoters with fast transition kinetics. While most biochemical processes in prokaryotes are assumed to have such a fast turnover rate of promoter state that the effect can be ignored, the kinetics of the expression of some genes are a source of a large amount of variability. The variable number of mRNA synthesis is also reffered to as transcriptional bursting or transcriptional efficiency.
+Diagrams of protein accumulation in genes with slow promoter transitions (between induction and repression) are often characterized by two bistable states that mirror the state of the promoter (Figure 1). This is contrasted with the steady-state concentration of proteins that are expressed by promoters with fast transition kinetics. While most biochemical processes in prokaryotes are assumed to have such a fast turnover rate of promoter state that the effect can be ignored, the kinetics of the expression of some genes are a source of a large amount of variability. The variable number of mRNA synthesis is also referred to as transcriptional bursting or transcriptional efficiency.
 <center>Figure 1 <br>

@@ Line 7: / Line 7: @@
 [[Image:Promoter_kinetics.png | 500 px]]<br>
 Figure 1 was obtained at
-http://www.ncbi.nlm.nih.gov/sites/entrez?db=pubmed&uid=15883588&cmd=showdetailview&indexed=google permission pending <br>
+http://www.ncbi.nlm.nih.gov/sites/entrez?db=pubmed&uid=15883588&cmd=showdetailview&indexed=google permission pending</center> <br>
-Figure 1 visually depicts the comparision between the steady state of protein production acheived by a promoter with a fast turnover rate (a), and the bistable state of protein production resulting from a slow promoter turnover rate (b)</center>
+Figure 1 visually depicts the comparision between the steady state of protein production acheived by a promoter with a fast turnover rate (a), and the bistable state of protein production resulting from a slow promoter turnover rate (b)
 <br><br><br>
 <center>[[Stochasticity in a Eukaryotic Background |Next Section in Origins and Characterization]] | [[Origins and Characterization of Stochasticity | Back to Origins and Characterization Home]]</center>

@@ Line 8: / Line 8: @@
 Figure 1 was obtained at
 http://www.ncbi.nlm.nih.gov/sites/entrez?db=pubmed&uid=15883588&cmd=showdetailview&indexed=google permission pending <br>
-Figure 1 visually depicts the comparision between a promoter with fast kinetics (a) and the bistable state of protein production resulting from a slow promoter turnover rate (b)</center>
+Figure 1 visually depicts the comparision between the steady state of protein production acheived by a promoter with a fast turnover rate (a), and the bistable state of protein production resulting from a slow promoter turnover rate (b)</center>
 <br><br><br>
 <center>[[Stochasticity in a Eukaryotic Background |Next Section in Origins and Characterization]] | [[Origins and Characterization of Stochasticity | Back to Origins and Characterization Home]]</center>

@@ Line 2: / Line 2: @@
 Fast transitions between promoter states is one of the assumptions that has to be fufilled, according to (), in order for deterministic gene expression models to resemble experimental data. This is becuase promoters that remains in an active state  allow many "short bursts" of mRNA synthesis; the same rate limiting steps that inhibit turnover time of promoter activation also force the promoter to stay in a repressed state for longer time periods during which production of mRNA is very low.
-<center>[[Image:Promoter_kinetics.png | 400 px]]
+<center>[[Image:Promoter_kinetics.png | 500 px]]
 Diagrams of protein accumulation in genes with slow transition states are characterized by two bistable states that mirror the state of the promoter as shown here. This is contrasted with the steady-state concentration of proteins who are expressed by promoters with fast transition kinetics. While most biochemical processes in prokaryotes are assumed to have such a fast turnover rate of promoter state that the effect can be ignored, the kinetics of the expression of some genes are a source of a large amount of variability. The variable number of mRNA synthesis is also reffered to as transcriptional bursting or transcriptional efficiency.</center>