Wiki/Outreach_HP_Silver.html at master · MiBioSoft2017/Wiki · GitHub

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<!DOCTYPE html>
<html>
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                  <li class="navig_bar_button"><a href="Homepage.html">Home</a></li>
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                     <a class="dropdown-toggle" data-toggle="dropdown" href="#">Project <span class="caret"></span></a>
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                        <li><a href="Project_Overview.html">Overview</a></li>
                        <li><a href="Project_Installation.html">Installation</a></li>
                        <li><a href="Project_Demonstrate.html">User Guide/Demonstrate</a></li>
                        <li><a href="Project_Results.html">Results</a></li>
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                     <a class="dropdown-toggle" data-toggle="dropdown" href="#">Outreach <span class="caret"></span></a>
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                        <li><a href="Outreach_Collaboration.html">Collaboration</a></li>
                        <li><a href="Outreach_HP_Silver.html">HP Silver</a></li>
                        <li><a href="Outreach_HP_Gold.html">HP Gold</a></li>
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               <div class="col-12" id = "headerImage">
                  <img class = "Header-img" src="photos/HumanPractices.png" />
                  <h1 id = "headerImageh1">Human Practices - Silver</h1>
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            <div>
               <br>
               <br>
               <br>
               <br>
               <br>
               <br>
               <p>
               <h1 class="grey-text heading-weight" align = "center">Protocol Model Development</h1>
               <p>
                  <br>
               <div class="row" style="border-bottom:thin solid;"></div>
               <br>
               <br>
               <p id = "doubleSpace" class="p-font grey-text">Prior to beginning the development of ProtoCat 3.0, we did research
                  on currently used protocol models. We began by brainstorming with members of our team who had
                  lab experience to get a foundation upon which we could improve. We tested the robustness of
                  this initial model by trying to represent the protocols uploaded to ProtoCat 2.0 with our new
                  model, tweaking and updating it along the way. Once we felt our model could adequately handle
                  the protocols we anticipated in ProtoCat 3.0, we met with our adviser, Dr. Santiago Schnell,
                  and ran our protocol model by him. Taking his feedback, we went back and further refined our
                  model to the one that we use in our current implementation of ProtoCat 3.0.
               </p>
               <br>
               <br>
               <br>
               <br>
               <p>
               <h1 class="grey-text heading-weight" align = "center">Standard Protocol Format</h1>
               </p>
               <br>
               <div class="row" style="border-bottom:thin solid;"></div>
               <br>
               <br>
               <p id = "doubleSpace" class="p-font grey-text">Standardization in synthetic biology has gained a lot of traction,
                  such as the BioBrick and Registry of Standardized Biological Parts. However, the procedures
                  used to generate them tend to be diverse in nature, with a bacterial transformation
                  protocol likely requiring different information than a ligation protocol. Online protocol
                  repositories must account for such differences when creating their data models, which will
                  usually require either a simplified model (such as solely text-based) or a more arduous
                  upload process. These different models become a problem when trying to share protocols between
                  the repositories, because the formats that the protocols are stored in are not compatible and
                  require an external conversion tool to get from one format to the other. In order to begin
                  working towards a standardized protocol format format, we reached out to OpenWetWare and
                  Protocols.io, two well known protocol repositories. We have began discussing how we will
                  reconcile our respective protocol models in order to get the best protocol model. The first
                  steps have been taken to build a cooperative relationship and create a standard protocol that
                  will help make protocols even easier to use, test, review, and design.
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                        <td>
                           <p><a href="Project_Overview.html">Overview</a></p>
                        </td>
                        <td>
                           <p><a href="Project_Results.html">Results</a></p>
                        </td>
                     </tr>
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                           <p><a href="Installation.html">Installation</a></p>
                        </td>
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                           <p><a href="Outreach_Collaboration.html">Collaboration</a></p>
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                           <p><a href="Project_Demonstration.html">Demonstration</a></p>
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                           <p><a href="Attributions.html">Attributions</a></p>
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                        <p><a href="Outreach_HP_Gold.html">HP Gold</a></p>
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                        <p><a href="Outreach_HP_Silver.html">HP Silver</a></p>
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