Biomod/2014/UCR/Breaking RNA/Results

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Contents



ODE Models


Aptamer-Klemtamer Pairs

The oligonucleotide sequences are specified in the Supplementary section. Once we designed the necessary genelets and strands for our RNA clocks and switches systems, it was important to characterize and verify that our DNA sequences were designed correctly.

Inhibition of SP6 RNA Polymerase.
Inhibition of T7 RNA Polymerase.

Enzyme Inhibition with RNA Aptamers

The topologies of our RNA clocks and switches rely on the idea that there is inhibition of a module, whether it is self-mediated or caused by another module. A fluorescent RNA aptamer genelets, Malachite Green and Spinach, are used to characterize and quantify our system. This reporting system will our visual determining guide of whether the enzyme's transcriptional funciton is altered. A spectrofluorometer is used to characterize the inhibition of T7 RNA Polymerase and SP6 RNA Polymerase. These experiments successfully demonstrated three important concepts that are necessary for our system:
1) The proper binding of specific enzymes to the inhibiting aptamer sequences.
2) The production of RNA aptamer strands
3) Inhibitor aptamer sequence RNA product suppress transcriptional function of their specific target enzymes



DNA Strands Binding to RNA Aptamers


Aptamer-Kleptamer Interaction



Assembling the Circuits


EDIT

<html> <body> <div id='cssmenu'> <ul> 

  <li><a href='http://openwetware.org/wiki/Biomod/2014/UCR/Breaking_RNA'><span>Home</span></a></li>
  <li><a href='http://openwetware.org/wiki/Biomod/2014/UCR/Breaking_RNA/Project'><span>Motivation & Objectives</span></a></li>
  <li><a href='http://openwetware.org/wiki/Biomod/2014/UCR/Breaking_RNA/Methods'><span>Results</span></a></li>
  <li><a href='http://openwetware.org/wiki/Biomod/2014/UCR/Breaking_RNA/Results'><span>Methods</span></a></li>
  <li><a href='http://openwetware.org/wiki/Biomod/2014/UCR/Breaking_RNA/Members'><span>Supplement</span></a></li>
  <li><a href='http://openwetware.org/wiki/Biomod/2014/UCR/Breaking_RNA/Achievements'><span>Team</span></a></li>

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