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#http://bionumbers.hms.harvard.edu/bionumber.aspx?&id=109211&ver=3&trm=polymerase | #http://bionumbers.hms.harvard.edu/bionumber.aspx?&id=109211&ver=3&trm=polymerase | ||
#Bintu et al., "Transcriptional regulation by the numbers". Current Opinion in Genetics and Development. 15, pp. 116-124 (2005) | #Bintu et al., "Transcriptional regulation by the numbers". Current Opinion in Genetics and Development. 15, pp. 116-124 (2005) | ||
#Meckler et al., "Quantitative analysis of TALE-DNA interactions suggests polarity effects". Nucl. Acids Res. (2013) 41 (7): 4118-4128. | #Meckler et al., "Quantitative analysis of TALE-DNA interactions suggests polarity effects". Nucl. Acids Res. (2013) 41 (7): 4118-4128. | ||
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[[File:Pbound_vs_freg_graph.png|750px|center]] | [[File:Pbound_vs_freg_graph.png|750px|center]] | ||
Revision as of 01:05, 22 September 2013
Contents |
Mathematical Modeling of Bistable Toggle Switch
Application of the Thermodynamic Model of Cooperative Repression
To recap the derivation from the previous section, the key equation for thermodynamic model of cooperative repression is:
Figure 1. Recap of Thermodynamic Model
In this section, the above model will be explored; specifically, the relationship between the red-colored terms will be studied. First, the relationship between P_bound and the number of F_reg's will show the effect of changing number of binding sites on level of gene expression. Then, the relationship between P_bound and Ks_rd (Dissociation constant of repressor bound to DNA) will show the effect of changing binding strengths of repressors on level of gene expression.
Gene Expression Level vs. Number of Repressor Binding Sites
Figure 2. P_bound vs. Number of Freg's
Figure 2. P_bound vs. Number of Freg's
D
- http://www.yeastgenome.org/cache/genomeSnapshot.html
- http://bionumbers.hms.harvard.edu/bionumber.aspx?&id=109211&ver=3&trm=polymerase
- Bintu et al., "Transcriptional regulation by the numbers". Current Opinion in Genetics and Development. 15, pp. 116-124 (2005)
- Meckler et al., "Quantitative analysis of TALE-DNA interactions suggests polarity effects". Nucl. Acids Res. (2013) 41 (7): 4118-4128.
Figure 3. Graph of P_bound vs. Number of Freg's
Gene Expression Level vs. Number of Repressor Binding Sites
Figure 4. P_bound vs. Kd
Figure 5. Graph of P_bound vs. Kd
