Biomod/2012/UTokyo/UT-Komaba/Experiment/Indirect Bistable

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Concept

Indirect Bistable Concept
Indirect Bistable Concept

We could not get enough information from normal bistable sytem experiment so that we change the system into indirect bistable system. That is because input of C or D indirectly increase the concentration of A or B so that the concentrations do not change rapidly and radically. We only input C or D, not A or B. As the diagram above, input C and D indirectly affect the cycle of bistable system. The purpose of the experiment is to attain proper data of concentrations.

Experiment

September 28th

We could not get a good result of the bistable system so that we change several part of the system. We introduce two types of DNA, "DII" and "NII", and two types of templates, "D to V" and "N to X" in the system. We change the concentration of "D to V" and "N to X", which are always the saame concentration. We also kept these tubes in 42°C.

  • The Experiment of VII
The concept of the experiment VII
The concept of the experiment VII

In the experiment, we first input templates CvII, CXII, V to inhX, X to inhV and DNA VII. After putting them in PCR for several hours, we put DNA NII and observe the change of the concentration of VII. We want to know which concentration of XII decreases most radically. The purpose of the experiment is to find out the best concentration of D to V and N to X. The concentration would be introduced to the bistable system so that we can change the state from "there is VII" to "there is XII".


  • The Experiment of XII
The concept of the experiment XII
The concept of the experiment XII

This one is the opposite experiment of VII. We first input the same templates and DNA XII. After putting them in PCR for several hours, we put DNA NII and observe the change of the concentration of XII. The purpose of the experiment is to find out the best concentration of D to V and N to X. The concentration would be introduced to the bistable system so that we can change the state from "there is XII" to "there is VII".


October 1st

We conducted the same experiment as what we did in September 28th. We got enough information about the experiment of VII, so we only conducted that of VII. The purpose of the experiment is to find out the best condition of the experiment of XII. We changed the concentration of CvII and X to inhV and compared the results.

  • The Concentration of X to inhV: 10.00nM.

(µL)

BST NBI tt-RecJ DTT BSA Smix 4x V to inhX X to inhv dTTP XII CxII CvII D to V N to X mQ Total Amount
CvII: 20.00nM 0.16 0.80 0.30 0.20 0.20 5.00 0.40 0.20 0.20 0.10 0.10 0.40 0.20 0.20 11.54 20.00
CvII: 22.50nM 0.16 0.80 0.30 0.20 0.20 5.00 0.40 0.20 0.20 0.10 0.10 0.45 0.20 0.20 11.49 20.00
CvII: 25.00nM 0.16 0.80 0.30 0.20 0.20 5.00 0.40 0.20 0.20 0.10 0.10 0.50 0.20 0.20 11.44 20.00


  • The Concentration of X to inhV: 15.00nM

(µL)

BST NBI tt-RecJ DTT BSA Smix 4x V to inhX X to inhv dTTP XII CxII CvII D to V N to X mQ Total Amount
CvII: 20.00nM 0.16 0.80 0.30 0.20 0.20 5.00 0.40 0.30 0.20 0.10 0.10 0.40 0.20 0.20 11.44 20.00
CvII: 22.50nM 0.16 0.80 0.30 0.20 0.20 5.00 0.40 0.30 0.20 0.10 0.10 0.45 0.20 0.20 11.39 20.00
CvII: 25.00nM 0.16 0.80 0.30 0.20 0.20 5.00 0.40 0.30 0.20 0.10 0.10 0.50 0.20 0.20 11.34 20.00
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