Difference between revisions of "Team:IIT Delhi/Resources"
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#banner { | #banner { | ||
| − | background: url("https://static.igem.org/mediawiki/2017/ | + | background: url("https://static.igem.org/mediawiki/2017/8/85/T--IIT_Delhi--modellhhhhhlll.jpg") ; |
background-position: center; | background-position: center; | ||
background-repeat: no-repeat; | background-repeat: no-repeat; | ||
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<div class="dropdown-content"> | <div class="dropdown-content"> | ||
<a href="/Team:IIT_Delhi/Circuit_Design">Circuit design and construction</a> | <a href="/Team:IIT_Delhi/Circuit_Design">Circuit design and construction</a> | ||
| − | <a href="/Team:IIT_Delhi/Microfluidics">Microfluidics and | + | <a href="/Team:IIT_Delhi/Microfluidics">Microfluidics and Fluorescence</a> |
<a href="/Team:IIT_Delhi/Photobleaching">Photobleaching</a> | <a href="/Team:IIT_Delhi/Photobleaching">Photobleaching</a> | ||
<a href="/Team:IIT_Delhi/Promoter">Promoter strength</a> | <a href="/Team:IIT_Delhi/Promoter">Promoter strength</a> | ||
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</p> | </p> | ||
| − | <h2 id="pfont | + | <h2 id="pfont" > |
| − | The transcription and translation mechanism although theoretically | + | The transcription and translation mechanism although theoretically processes, in practice it may not be as predicted. The model considered above (or in general |
| − | + | ||
practice) considers abundance of cellular resources such as ribosomes, or amino acids to | practice) considers abundance of cellular resources such as ribosomes, or amino acids to | ||
| − | carry out the function . In reality, the present quantity may not be sufficient to the | + | carry out the function . In reality, the present quantity may not be sufficient to the facilitate smooth function of each individual biological processes. When we insert a synthetic |
| − | + | ||
plasmid inside a cell, the host has to share the resources it suppose to use for cell growth | plasmid inside a cell, the host has to share the resources it suppose to use for cell growth | ||
| − | and other activities. One can model the competition of cellular processes as virtual | + | and other activities. One can model the competition of cellular processes as virtual induced negative feedback. Suppose, A and B are two mRNA require the ribosome and the |
| − | + | ||
only available ribosome binds with A due to strong RBS in the sequence, then B wont be | only available ribosome binds with A due to strong RBS in the sequence, then B wont be | ||
| − | translated to the protein form soon. These kind of behavior is known as post | + | translated to the protein form soon. These kind of behavior is known as post transcriptional control. There could be any possible combination of such competition behavior, as |
| − | + | ||
| − | a case study we are considering a competing between p1 and p4. Such competition | + | a case study we are considering a competing between p1 and p4. Such competition introduced two implicit feedback to each other in the oscillator. The model of such dynamics |
| − | + | ||
can be written as,<br><br> | can be written as,<br><br> | ||
| − | <img src = "https://static.igem.org/mediawiki/2017/f/f9/T--IIT_Delhi--Theorem2RS.jpg" style='border:3px solid #000000' width = "60%">< | + | <center><img src = "https://static.igem.org/mediawiki/2017/f/f9/T--IIT_Delhi--Theorem2RS.jpg" style='border:3px solid #000000' width = "60%"></center><br> |
where the parameters are same as earlier. The model is simulated and response is as | where the parameters are same as earlier. The model is simulated and response is as | ||
| − | shown in | + | shown in figure below. Here, we observe an increase in period as expected. This is due to an |
| − | additional delay involved for ribosome (or any other resource | + | additional delay involved for ribosome (or any other resource queuing). The competition |
| − | of resource sharing may quench the oscillation if the delay is more | + | of resource sharing may quench the oscillation if the delay is more than required. This |
is a preliminary step to understand how the resource may effect the ideal biomolecular | is a preliminary step to understand how the resource may effect the ideal biomolecular | ||
system performance. | system performance. | ||
| − | + | <br><br> | |
</h2> | </h2> | ||
| − | + | <center><img src = "https://static.igem.org/mediawiki/2017/f/f9/T--IIT_Delhi--FigureRS.jpg" style='border:3px solid #000000' width = "99%"><br> | |
| + | <h6>Fig. GFP expression with and without resource sharing</h6><br> | ||
| + | <img src = "https://static.igem.org/mediawiki/2017/b/b1/T--IIT_Delhi--5_node_resource_sharing.png" style='border:3px solid #000000' width = "99%"><br> | ||
| + | <h6>Fig. Two nodes of 5-node circuit repressing each other</h6> | ||
| + | </center> | ||
| + | </header> | ||
| − | |||
| − | |||
| − | |||
| − | |||
<br> | <br> | ||
<br> | <br> | ||
Latest revision as of 22:49, 1 November 2017
Resource Sharing
The transcription and translation mechanism although theoretically processes, in practice it may not be as predicted. The model considered above (or in general
practice) considers abundance of cellular resources such as ribosomes, or amino acids to
carry out the function . In reality, the present quantity may not be sufficient to the facilitate smooth function of each individual biological processes. When we insert a synthetic
plasmid inside a cell, the host has to share the resources it suppose to use for cell growth
and other activities. One can model the competition of cellular processes as virtual induced negative feedback. Suppose, A and B are two mRNA require the ribosome and the
only available ribosome binds with A due to strong RBS in the sequence, then B wont be
translated to the protein form soon. These kind of behavior is known as post transcriptional control. There could be any possible combination of such competition behavior, as
a case study we are considering a competing between p1 and p4. Such competition introduced two implicit feedback to each other in the oscillator. The model of such dynamics
can be written as,
where the parameters are same as earlier. The model is simulated and response is as
shown in figure below. Here, we observe an increase in period as expected. This is due to an
additional delay involved for ribosome (or any other resource queuing). The competition
of resource sharing may quench the oscillation if the delay is more than required. This
is a preliminary step to understand how the resource may effect the ideal biomolecular
system performance.
Fig. GFP expression with and without resource sharing
