Difference between revisions of "Team:Vanderbilt/Project/Achievements"

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            <a href="#" class="btn btn-default"><img src="https://static.igem.org/mediawiki/2015/e/ef/Vanderbilt_2015_flask_red_unselected.png" alt="project" height="20" width="15"/></a>
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            <a href="https://2015.igem.org/Team:Vanderbilt/Project/Sequence" class="btn btn-default">Sequence</a>
−
  <img src="https://static.igem.org/mediawiki/2015/d/d1/Vanderbilt_2015_dna_strand_2.png"/>
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            <a href="https://2015.igem.org/Team:Vanderbilt/Project/Circuit" class="btn btn-default">Circuit</a>
−
  <img src="https://static.igem.org/mediawiki/2015/2/2a/Vanderbilt_2015_dna_strand_3.png"/>
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            <a href="https://2015.igem.org/Team:Vanderbilt/Project/Organism" class="btn btn-default">Organism</a>
−
  <img src="https://static.igem.org/mediawiki/2015/f/f4/Vanderbilt_2015_dna_strand_4.png"/>
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            <a href="https://2015.igem.org/Team:Vanderbilt/Project/Nanopore" class="btn btn-default">Nanopore</a>
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            <a href="https://2015.igem.org/Team:Vanderbilt/Project/Achievements" class="btn btn-default chosen">Achievements</a>
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   <div class="col-lg-2" style="height:100%">
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  <h2>Sequence</h2>
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    <h3><font color="#7e1d2e">Team</font></h3>
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  <div class='row'>
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    <a href="https://2015.igem.org/Team:Vanderbilt/Team/About"><font color="#9e515e">About</font></a>
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    <div class="col-md-9">
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    <br>
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      <ul>
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    <a href="https://2015.igem.org/Team:Vanderbilt/Team/Members"><font color="#9e515e">Members</font></a>
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        <li>Invented an innovative software tool for minimizing any gene’s susceptibility to mutation</li>
−
    <br>
+
        <li>Validated rapid spread of mutants in a genetically modified population by mathematical and empirical techniques</li>
−
    <a href="https://2015.igem.org/Team:Vanderbilt/Team/Attributes"><font color="#9e515e">Attributes</font></a>
+
        <li>Experimentally validated decreased mutation in optimized sequences with</li>
−
     <br>
+
        <ul>
−
     <a href="https://2015.igem.org/Team:Vanderbilt/Team/Sponsors"><font color="#9e515e">Sponsors</font></a>
+
          <li>Multiple mutagen types (UV radiation, oxidation)</li>
−
     <br>
+
          <li>Multiple quantification protocols (Alkaline gel, plasmid conformation, PCR inhibition)</li>
 +
        </ul>
 +
        <li>Established high expression of optimized sequences</li>
 +
        <li>Modeling and computational strategies for further improvements and expansion of software</li>
 +
        <li>Investigated potential for nanopore sequencing to become next-generation of ultra high-throughput DNA damage detection</li>
 +
      </ul>
 +
     </div>
 +
     <div class="col-md-3">
 +
      <img class="no-shadow fit" src="https://static.igem.org/mediawiki/2015/5/57/VU15_sequence_logo.png" />
 +
     </div>
 
   </div>
 
   </div>
−
   <div class="col-lg-2" style="height:100%">
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  <h2> Circuit </h2>
−
    <h3><font color="#7e1d2e">Project</font></h3>
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−
    <a href="https://2015.igem.org/Team:Vanderbilt/Project/Background"><font color="#9e515e">Background</font></a>
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    <div class="col-md-9">
−
    <br>
+
      <ul>
−
    <a href="https://2015.igem.org/Team:Vanderbilt/Project/Sequence"><font color="#9e515e">Sequence</font></a>
+
        <li>Introduced quantitative metric of expected evolutionary stability and computationally modeled simple circuits</li>
−
    <br>
+
        <li>Invented software tool to analyze circuit designs, calculate stability, and suggest modifications to improvements </li>
−
    <a href="https://2015.igem.org/Team:Vanderbilt/Project/Circuit"><font color="#9e515e">Circuit</font></a>
+
        <li>Developed software for minimizing sequence homology between synthesized genes</li>
−
     <br>
+
      <li>Designed assay for quantifying the effect of lowering homology on rates of unwanted recombination</li>
−
     <a href="https://2015.igem.org/Team:Vanderbilt/Project/Organism"><font color="#9e515e">Organism</font></a>
+
        <li>Constructed optimized circuit to demonstrate improved stability with VERT technique</li>
−
    <br>
+
        <li>Validated bidirectional promoter for use with an antibiotic system to select against promoter mutation</li>
−
    <a href="https://2015.igem.org/Team:Vanderbilt/Project/Nanopore"><font color="#9e515e">Nanopore</font></a>
+
      </ul>
−
    <br>
+
     </div>
−
    <a href="https://2015.igem.org/Team:Vanderbilt/Project/Achievements"><font color="#9e515e">Achievements</font></a>
+
     <div class="col-md-3">
−
     <br>
+
      <img class="no-shadow fit" src="https://static.igem.org/mediawiki/2015/1/14/VU15_circuit_logo.png" style="width:70%;"/>
 +
     </div>
 
   </div>
 
   </div>
−
   <div class="col-lg-2" style="height:100%">
+
   <h2> Organism </h2>
−
    <h3><font color="#7e1d2e">Parts</font></h3>
+
  <div class='row'>
−
 
+
  <div class="col-md-9">
−
    <a href="https://2015.igem.org/Team:Vanderbilt/Parts/Part_Collection"><font color="#9e515e">Part Collection</font></a>
+
     <ul>
−
     <br>
+
      <li>Verified modeling predictions about population growth with simulated mutant cells</li>
−
    <a href="https://2015.igem.org/Team:Vanderbilt/Parts/Optimized_RFPs"><font color="#9e515e">Optimized RFPs</font></a>
+
      <li> Calculated the selective pressure against transgene expression by comparing experimental data with the Price equation</li>
−
    <br>
+
      <li>Cloned five exogenous DNA repair enzymes </li>
−
    <a href="https://2015.igem.org/Team:Vanderbilt/Parts/Visualizing_Evolution"><font color="#9e515e">Visualizing Evolution</font></a>
+
      <li>Incorporated KIKO vector for genomic integration and simultaneous knock-out</li>
−
    <br>
+
      <li>Designed “Incorruptible Cell” that commits suicide instead of passing on mutations</li>
−
    <a href="https://2015.igem.org/Team:Vanderbilt/Parts/Repair Enzymes"><font color="#9e515e">Repair Enzymes</font></a>
+
     </ul>
−
     <br>
+
 
   </div>
 
   </div>
−
   <div class="col-lg-2" style="height:100%">
+
   <div class="col-md-3">
−
     <h3><font color="#7e1d2e">Notebook</font></h3>
+
     <img class="no-shadow fit" src="https://static.igem.org/mediawiki/2015/2/27/VU15_organism_logo.png" style="width:60%;"/>
−
    <a href="https://2015.igem.org/Team:Vanderbilt/Notebook/May"><font color="#9e515e">May</font></a>
+
      <br>
−
    <br>
+
−
    <a href="https://2015.igem.org/Team:Vanderbilt/Notebook/June"><font color="#9e515e">June</font></a>
+
−
    <br>
+
−
    <a href="https://2015.igem.org/Team:Vanderbilt/Notebook/July"><font color="#9e515e">July</font></a>
+
−
    <br>
+
−
    <a href="https://2015.igem.org/Team:Vanderbilt/Notebook/August"><font color="#9e515e">August</font></a>
+
−
    <br>
+
−
    <a href="https://2015.igem.org/Team:Vanderbilt/Notebook/September"><font color="#9e515e">September</font></a>
+
−
    <br>
+
−
  </div>
+
−
  <div class="col-lg-2" style="height:100%">
+
−
    <h3><font color="#7e1d2e">Practices</font></h3>
+
−
    <a href="https://2015.igem.org/Team:Vanderbilt/Practices/Safety"><font color="#9e515e">Safety</font></a>
+
−
    <br>
+
−
    <a href="https://2015.igem.org/Team:Vanderbilt/Practices/Collaborations"><font color="#9e515e">Collaborations</font></a>
+
−
    <br>
+
−
    <a href="https://2015.igem.org/Team:Vanderbilt/Practices/Real_World_Applications"><font color="#9e515e">Applications</font></a>
+
−
    <br>
+
−
    <a href="https://2015.igem.org/Team:Vanderbilt/Practices/Interlab"><font color="#9e515e">Interlab</font></a>
+
−
    <br>
+
−
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+
−
  <div class="col-lg-2" style="height:100%">
+
−
    <h3><font color="#7e1d2e">Software</font></h3>
+
−
    <a href="https://2015.igem.org/Team:Vanderbilt/Software/Development"><font color="#9e515e">Development</font></a>
+
−
    <br>
+
−
    <a href="https://2015.igem.org/Team:Vanderbilt/Software/User_Guide"><font color="#9e515e">User Guide</font></a>
+
−
    <br>
+
−
    <a href="https://2015.igem.org/Team:Vanderbilt/Software/Stats"><font color="#9e515e">Statistics</font></a>
+
−
    <br>
+
 
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Latest revision as of 03:57, 26 November 2015

Vanderbilt iGEM 2015

Sequence

  • Invented an innovative software tool for minimizing any gene’s susceptibility to mutation
  • Validated rapid spread of mutants in a genetically modified population by mathematical and empirical techniques
  • Experimentally validated decreased mutation in optimized sequences with
    • Multiple mutagen types (UV radiation, oxidation)
    • Multiple quantification protocols (Alkaline gel, plasmid conformation, PCR inhibition)
  • Established high expression of optimized sequences
  • Modeling and computational strategies for further improvements and expansion of software
  • Investigated potential for nanopore sequencing to become next-generation of ultra high-throughput DNA damage detection

Circuit

  • Introduced quantitative metric of expected evolutionary stability and computationally modeled simple circuits
  • Invented software tool to analyze circuit designs, calculate stability, and suggest modifications to improvements
  • Developed software for minimizing sequence homology between synthesized genes
  • Designed assay for quantifying the effect of lowering homology on rates of unwanted recombination
  • Constructed optimized circuit to demonstrate improved stability with VERT technique
  • Validated bidirectional promoter for use with an antibiotic system to select against promoter mutation

Organism

  • Verified modeling predictions about population growth with simulated mutant cells
  • Calculated the selective pressure against transgene expression by comparing experimental data with the Price equation
  • Cloned five exogenous DNA repair enzymes
  • Incorporated KIKO vector for genomic integration and simultaneous knock-out
  • Designed “Incorruptible Cell” that commits suicide instead of passing on mutations


Team

About
Members
Attributes
Sponsors

Project

Background
Sequence
Circuit
Organism
Nanopore
Achievements

Parts

Part Collection
Optimized RFPs
Visualizing Evolution
Repair Enzymes

Notebook

May
June
July
August
September

Practices

Safety
Collaborations
Applications
Interlab

Software

Development
User Guide
Statistics

Modeling

Sequences
Circuits
Populations