By Uri Alon
Provides layout rules that govern the constitution and behaviour of organic networks corresponding to gene circuits, highlighting easy, ordinary circuit parts that make up the community. This ebook offers a quantitative idea for which circuits are present in a given surroundings and a mathematical framework for knowing organic circuits.
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Additional resources for An Introduction to Systems Biology: Design Principles of Biological Circuits
4 Dynamics of negatively autoregulated gene product (full line) and simply regulated gene product (dashed line), which reach the same steady-state level and have equal degradation/dilution rates, a. r) and simply regulated gene products, respectively. The parameters b = 5, a = 1, and bsimple = 1 were used. protein. On the other hand, parameters such as the repression threshold K vary much less from cell to cell, because they are specified by the strength of the chemical bonds between X and its DNA binding site and the position and number of the X binding sites in the promoter.
1) The solution of such an equation is generally Y = C1 + C2 e–α t, where the constants C1 and C2 need to be determined so that Y(t = 0) = b1/α, and Y at long times reaches its new steady state, b2/α. 1 is fulfilled. 2. mRNA dynamics. In the main text, we considered the activation of transcription of a gene (mRNA production) and used a dynamical equation to describe the changes in the concentration of the gene product, the protein Y. In this equation, dY/dt = b – α Y, the parameter b describes the rate of protein production.
Coli. The cascade was built using genetic engineering, by combining the appropriate promoter DNA fragments to the appropriate genes. TetR was made to also repress the green fluorescent protein gene, acting as a reporter for the second cascade step. The bacteria thus turn green in proportion to the promoter activity regulated by TetR. In a separate E. coli strain prepared for this experiment, LacI represses a green fluorescent protein gene, acting as a reporter for the first cascade step. (b) Response time is about one cell generation per cascade step.
An Introduction to Systems Biology: Design Principles of Biological Circuits by Uri Alon