|
|
| (34 intermediate revisions by the same user not shown) |
| Line 1: |
Line 1: |
| − | {{:Team:Valencia_UPV/Templates:headUPV}}
| |
| − | {{:Team:Valencia_UPV/Templates:menuUPV}}
| |
| − |
| |
| − | <html>
| |
| − | <!-- Banner -->
| |
| | | | |
| − | <style>
| |
| − | #banner{background-image: url("images/overlay.png"), url("https://static.igem.org/mediawiki/2015/1/1b/Valencia_upv_modelling.jpg");}
| |
| − | </style>
| |
| − |
| |
| − | <section id="banner" style="color:black">
| |
| − | <h2><b>Modelling</b></h2>
| |
| − | <p>Be patient, we are under construction</p>
| |
| − | <ul class="actions">
| |
| − | <li><a href="#scroll1" class="button">First steps</a></li>
| |
| − | <li><a href="#scroll2" class="button">The circuit</a></li>
| |
| − | <li><a href="#scroll2" class="button">Expression levels</a></li>
| |
| − | </ul>
| |
| − | </section>
| |
| − |
| |
| − |
| |
| − | <!-- Main -->
| |
| − |
| |
| − | <section id="main" class="container">
| |
| − | <div id="scroll1" class="row" style="font-size:initial">
| |
| − | <div class="12u">
| |
| − | <section class="box">
| |
| − | <header class="major">
| |
| − | <h2>First steps<br />
| |
| − | </h2><hr>
| |
| − | </header>
| |
| − |
| |
| − | <p>We started by figuring out how it should work in a tree diagram, keeping the idea simple:</p><br/>
| |
| − | <div class="row no-collapse 50% uniform" style="padding: 1em 1em 1em 1em;">
| |
| − | <img class="image left" style="width:19em" src="https://static.igem.org/mediawiki/2015/a/a8/Alpha.png" alt="simple circuit" /></span>
| |
| − | <img style="width:28em" class="image right" src="https://static.igem.org/mediawiki/2015/e/e5/Valencia_upv_tablaverdad.jpg" alt="truth table" /></span>
| |
| − | </div>
| |
| − | <br/>
| |
| − | <p style="text-align:center;font-weight:bold">
| |
| − | 2 pulses <br/>
| |
| − | 4 possible combinations <br/>
| |
| − | 4 different products <br/>
| |
| − | </p>
| |
| − |
| |
| − | <br/>
| |
| − |
| |
| − | <header id="scrollsect1" class="major">
| |
| − | <h3 style="text-align:left">Overview<br />
| |
| − | </h3>
| |
| − | </header>
| |
| − |
| |
| − | <div style="text-align: center;"><img width=600em src="https://static.igem.org/mediawiki/2015/9/93/Valencia_upv_blackboxcircuit.png" usemap="#dnamap"></div>
| |
| − |
| |
| − | <map name="dnamap">
| |
| − | <area shape="rect" coords="227,59,393,311" alt="dna" href="https://2015.igem.org/Team:Valencia_UPV/Modelling#scrollsect2">
| |
| − | </map>
| |
| − | <p style="text-align:center;font-size:big">Our idea is to model a biological multiplexor that responds to two different light pulses.</p>
| |
| − |
| |
| − | </section>
| |
| − |
| |
| − | <div id="scroll2" class="row" style="font-size:initial">
| |
| − | <div class="12u">
| |
| − | <section class="box">
| |
| − | <header id="scrollsect2" class="major">
| |
| − | <h2>The circuit<br />
| |
| − | </h2><hr>
| |
| − | </header>
| |
| − |
| |
| − | <div style="text-align: center;"><img width="900em" src="https://static.igem.org/mediawiki/2015/0/00/Valencia_upv_wholecircuit.png" usemap="#circuitmap"></div>
| |
| − | <map name="circuitmap">
| |
| − | <area shape="rect" coords="0,0,120,120" alt="dna" href="https://2015.igem.org/Team:Valencia_UPV/Modelling#scrollsect1">
| |
| − | <area shape="rect" coords="130,10,2046,190" alt="dna" href="https://2015.igem.org/Team:Valencia_UPV/Modelling#scrollsect3">
| |
| − | <area shape="rect" coords="50,210,2134,420" alt="dna" href="https://2015.igem.org/Team:Valencia_UPV/Modelling#scrollsect4">
| |
| − | </map>
| |
| − | <div style="text-align: center;"><img width="700px" height="600px" src="https://static.igem.org/mediawiki/2015/a/a6/Valencia_upv_circuitkey.png"></div>
| |
| − | </section>
| |
| − | </div>
| |
| − | </div>
| |
| − |
| |
| − | <div id="scroll3" class="row" style="font-size:initial">
| |
| − | <div class="12u">
| |
| − | <section class="box">
| |
| − | <header class="major">
| |
| − | <h2>Expression levels<br />
| |
| − | </h2><hr>
| |
| − | </header>
| |
| − |
| |
| − | <p id="scrollsect3" style="color:white">.</p>
| |
| − |
| |
| − | <header class="major">
| |
| − | <h3 style="text-align:left">Constitutive expression<br />
| |
| − | </h3>
| |
| − | </header>
| |
| − |
| |
| − | <p>
| |
| − | <img class="resize" style="float: left; margin: 0px 15px 15px 0px; width:15em;" src="https://static.igem.org/mediawiki/2015/8/8a/Valencia_upv_equation1.png" />
| |
| − | Proteins A, B, C and D, are used to control the expression of next level. As they keep being produced before light pulses are given to the organism, we will assume that their concentrations have reached their balanced values. This assumption lets us simplify several expressions from this first level, as we will demonstrate in the development of the mathemathical model.
| |
| − | </p> <br/>
| |
| − | <p>
| |
| − | <div style="text-align: center;"><img width=600em src="https://static.igem.org/mediawiki/2015/6/61/Valencia_upv_equation2.png"></div>
| |
| − | <p style="text-align:right;font-size:big">same for B,C,D and E.</p>
| |
| − | <div style="text-align: center;"><img width=400em src="https://static.igem.org/mediawiki/2015/7/77/Valencia_upv_equation3.png"></div>
| |
| − | </p>
| |
| − |
| |
| − | <p id="scrollsect4" style="color:white">.</p>
| |
| − |
| |
| − | <header class="major">
| |
| − | <h3 style="text-align:left">Regulated expression: 2nd level<br />
| |
| − | </h3>
| |
| − | </header>
| |
| − |
| |
| − | <span class="image right"><img width="500em" src="https://static.igem.org/mediawiki/2015/e/e5/Valencia_upv_equation4.png"></span>
| |
| − | <div style="margin-right:40px">When A (E-PIF6), B (PhyB-VP16), C (Gal4-KDronpa) and D (NDronpa-VP16) are pro- duced, they interact with the operator binding sites OBD1 (in gE, gF and gG) and OBD2 (in gH, gI and gJ). Thus, proteins produced in previous levels, regulate the expression of the following ones. Light induced transcription, is due to the activacion of proteins B and D, whose structures change according to a certain light wavelenght. Theoretically, only if B* (activated) binds A (which is already attached to the genes), proteins E, F and G will be produced. On the other hand, it occurs similarly with D*, C and proteins H, I and J. The symbol ”+”, makes reference to those genes which can be transcripted because recombinases have not bind to them. </div> <br/>
| |
| − |
| |
| − | </section>
| |
| − | </div>
| |
| − | </div>
| |
| − |
| |
| − | </section>
| |
| − |
| |
| − | </html>
| |
| − |
| |
| − | {{:Team:Valencia_UPV/Templates:footerUPV}}
| |