Difference between revisions of "Team:Valencia UPV/Model"
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<section><div class="container-fluid"><div class="row"><div class="col-md-2 col-sm-3"><div class="side-nav margin-bottom-60 margin-top-30"><div class="side-nav-head"><button class="fa fa-bars"></button><h4>Index</h4></div><ul class="list-group list-group-bordered list-group-noicon uppercase"><li class="list-group-item"><a href="https://2016.igem.org/Team:Valencia_UPV/Model#Overview._id"> | <section><div class="container-fluid"><div class="row"><div class="col-md-2 col-sm-3"><div class="side-nav margin-bottom-60 margin-top-30"><div class="side-nav-head"><button class="fa fa-bars"></button><h4>Index</h4></div><ul class="list-group list-group-bordered list-group-noicon uppercase"><li class="list-group-item"><a href="https://2016.igem.org/Team:Valencia_UPV/Model#Overview._id"> | ||
<span class="size-11 text-muted pull-right"></span>Overview.</a></li></ul></div></div><div class="col-md-10 col-sm-9"><div class="blog-post-item" id="Overview._id"><h3>Overview.</h3><p> | <span class="size-11 text-muted pull-right"></span>Overview.</a></li></ul></div></div><div class="col-md-10 col-sm-9"><div class="blog-post-item" id="Overview._id"><h3>Overview.</h3><p> | ||
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The aim of the Testing System is to provide information about the gRNA ability to localize the target. Therefore, <b>external</b> and <b>intrinsic</b> factors affecting the CRISPR/Cas9 mechanism should be blocked, letting us <b>relate the light measurement exclusively with the gRNA efficacy</b> to find the target. Moreover, this system emulates the performance of the gRNA in the real variety which is desired to be improved. Thus, the fact of implementing the Testing System in <i>Nicotiana benthamiana</i> should not affect the reliability of the result, making it <b>scalable</b> and <b>realistic</b>.</p> | The aim of the Testing System is to provide information about the gRNA ability to localize the target. Therefore, <b>external</b> and <b>intrinsic</b> factors affecting the CRISPR/Cas9 mechanism should be blocked, letting us <b>relate the light measurement exclusively with the gRNA efficacy</b> to find the target. Moreover, this system emulates the performance of the gRNA in the real variety which is desired to be improved. Thus, the fact of implementing the Testing System in <i>Nicotiana benthamiana</i> should not affect the reliability of the result, making it <b>scalable</b> and <b>realistic</b>.</p> | ||
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<div style="text-align:center;"><img class="img-responsive" style="width:450px" align="right" src="https://static.igem.org/mediawiki/2016/1/16/T--Valencia_UPV--overview_modelling_index.png"></div> | <div style="text-align:center;"><img class="img-responsive" style="width:450px" align="right" src="https://static.igem.org/mediawiki/2016/1/16/T--Valencia_UPV--overview_modelling_index.png"></div> | ||
| − | <p>The goal is to characterize the performance of our Testing System in <i>Nicotiana benthamiana</i>, studying the influence of different factors affecting each stage of the CRIPSR/Cas9 mechanism. We have developed a mathematical model | + | <p><br>The goal is to characterize the performance of our Testing System in <i>Nicotiana benthamiana</i>, studying the influence of different factors affecting each stage of the CRIPSR/Cas9 mechanism, which relies on <b>binding</b> and <b>unbinding</b> reactions, <b>gene expression regulation</b>, <b>diffusion</b> of biochemical compounds inside the nucleus and even <b>thermodynamics</b>. <br><br>We have developed a mathematical model accounting all these processes, structured in the main steps of the performance of CRISPR/Cas9:<br><br></p> |
<p><br><br> | <p><br><br> | ||
This model has been used to simulate <b>different conditions</b> that result in variations of our reporter: Luciferase. Thus, we can analyze determinant factors affecting Testing System repeatability, <b>reliability</b> and <b>robustness</b>, which are mandatory achievements in order to spread our gRNA <b>Testing System as a standard gRNA efficiency predictor</b>. | This model has been used to simulate <b>different conditions</b> that result in variations of our reporter: Luciferase. Thus, we can analyze determinant factors affecting Testing System repeatability, <b>reliability</b> and <b>robustness</b>, which are mandatory achievements in order to spread our gRNA <b>Testing System as a standard gRNA efficiency predictor</b>. | ||
Revision as of 08:12, 2 December 2016
Model
Index
Overview.
The aim of the Testing System is to provide information about the gRNA ability to localize the target. Therefore, external and intrinsic factors affecting the CRISPR/Cas9 mechanism should be blocked, letting us relate the light measurement exclusively with the gRNA efficacy to find the target. Moreover, this system emulates the performance of the gRNA in the real variety which is desired to be improved. Thus, the fact of implementing the Testing System in Nicotiana benthamiana should not affect the reliability of the result, making it scalable and realistic.
The goal is to characterize the performance of our Testing System in Nicotiana benthamiana, studying the influence of different factors affecting each stage of the CRIPSR/Cas9 mechanism, which relies on binding and unbinding reactions, gene expression regulation, diffusion of biochemical compounds inside the nucleus and even thermodynamics.
We have developed a mathematical model accounting all these processes, structured in the main steps of the performance of CRISPR/Cas9:
This model has been used to simulate different conditions that result in variations of our reporter: Luciferase. Thus, we can analyze determinant factors affecting Testing System repeatability, reliability and robustness, which are mandatory achievements in order to spread our gRNA Testing System as a standard gRNA efficiency predictor.
