Difference between revisions of "Team:Michigan Software/HP/Silver"

 
(33 intermediate revisions by 2 users not shown)
Line 1: Line 1:
 
{{Michigan_Software}}
 
{{Michigan_Software}}
 
<html>
 
<html>
 +
<head>
 +
<style>
 +
td img {
 +
width: 300px;
 +
border: 1px solid #000;
 +
margin-left: 15px;
 +
margin-right: 15px;
 +
}
 +
td {
 +
text-align: center;
 +
}
 +
</style>
 +
</head>
 
<body>
 
<body>
 
<header>
 
<header>
Line 7: Line 20:
 
               <div class="col-12" id = "headerImage">
 
               <div class="col-12" id = "headerImage">
 
                   <img class = "Header-img" src="https://static.igem.org/mediawiki/2017/8/8d/MichiganSoftware_2017_HP.png" />
 
                   <img class = "Header-img" src="https://static.igem.org/mediawiki/2017/8/8d/MichiganSoftware_2017_HP.png" />
−
                   <h1 id = "headerImageh1">Human Practices - Silver</h1>
+
                   <h1 style = "color: #01407c;"id = "headerImageh1">Human Practices - Silver</h1>
 
               </div>
 
               </div>
 
             </div>
 
             </div>
Line 19: Line 32:
 
               <br>
 
               <br>
 
               <br>
 
               <br>
 +
             
 +
              <p id = "doubleSpace" class="p-font grey-text"> Our Human Practices efforts this year have been quite fruitful. We have made more outreach connections this year, and gained valuable insight into how scientists use our software. Our goal was to expand our user base, and through our beta testing efforts we have more users and protocol than ever before.
 
               <br>
 
               <br>
 +
              <h1 class="grey-text heading-weight" align = "center">ProtoCat Beta Testing</h1>
 +
              <div class="row" style="border-bottom:thin solid;"></div>
 
               <br>
 
               <br>
 +
              <p id = "doubleSpace" class="p-font grey-text">Several teams have given us quite valuable feedback on ProtoCat through our beta testing initiative. We reached out to fellow iGEM teams and requested their assistance with testing ProtoCat, as students of biology and other sciences would better be able to evaluate whether or not ProtoCat is truly a useful service than the computer science students who designed it. The teams evaluated the software on several fronts: our Search Function, the Upload Process, the Category System, the User Page, and the Protocol itself. After they provided us with feedback, we gave them assistance with their wikis. Thank you to the following teams: MSU iGEM team, Carroll High School iGEM team, iGEM Peshawar, University of Westminster iGEM team, University of Florida iGEM team, and Michigan Synthetic Biology.
 +
              </p>
 +
              <table>
 +
<tr>
 +
<td><img style = "width: 200px; height: 150px; " src = "https://static.igem.org/mediawiki/2017/f/f1/Michigan_software_msulogo.jpeg"/>
 +
              <img style = "width: 400px; height: 150px;" src = "https://static.igem.org/mediawiki/2017/0/00/Michigan_software_carrolhslogo.jpg"/>
 +
              <img style = "width: 200px; height: 150px; " src = "https://static.igem.org/mediawiki/2017/0/01/Michigan_software_peshawarlogo.png"/>
 +
              <img style = "width: 175x; height: 150px;" src = "https://static.igem.org/mediawiki/2017/0/08/Michigan_software_westminsterlogo.png"/>
 +
              <img style = "width: 175x; height: 150px;" src = "https://static.igem.org/mediawiki/2017/1/10/Michigan_software_ufloridalogo.png"/></td>
 +
</tr>
 +
<tr>
 +
</tr>
 +
</table>               
 
               <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>
 
               <br>
 
               <br>
−
               <p id = "doubleSpace" class="p-font grey-text">Prior to beginning the development of ProtoCat 3.0, we did research
+
              <h1 class="grey-text heading-weight" align = "center">Menlo Innovations Meeting</h1>
−
                  on currently used protocol models. We began by brainstorming with members of our team who had
+
              <div class="row" style="border-bottom:thin solid;"></div>
−
                  lab experience to get a foundation upon which we could improve. We tested the robustness of
+
              <br>
−
                  this initial model by trying to represent the protocols uploaded to ProtoCat 2.0 with our new
+
               <p id = "doubleSpace" class="p-font grey-text">Additionally, we met with the founders of Menlo Innovations, a local Ann Arbor technology business to discuss the future of ProtoCat, namely, ways to make our product more sustainable and get it adopted by more users. They were able to offer us quite useful advice that we will keep in mind as we continue to grow and develop not only our software, but our team.
−
                  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>
 
               </p>
 +
<table>
 +
<tr>
 +
<td>
 +
<img style = "width: 300px; height: 220px;" src = "https://static.igem.org/mediawiki/2017/9/94/Michigan_software_menlomeeting.jpg"/>
 +
</tr>
 +
<tr>
 +
</tr>
 +
</table> 
 +
             
 
               <br>
 
               <br>
 
               <br>
 
               <br>
 
               <br>
 
               <br>
 +
              <h1 class="grey-text heading-weight" align = "center">iGEM North American Upper Midwest Meetup</h1>
 +
              <div class="row" style="border-bottom:thin solid;"></div>
 
               <br>
 
               <br>
−
               <p>
+
               <p id = "doubleSpace" class="p-font grey-text">This year we also attended the first iGEM North American Upper Midwest Meetup with Michigan Synthetic Biology, Michigan State University iGEM and the Carroll High School iGEM team. At this meetup, teams got to know each other while touring the scenic Michigan State University campus, and had the chance to practice presenting their projects to each other, receiving valuable feedback and having a great time!
−
              <h1 class="grey-text heading-weight" align = "center">Standard Protocol Format</h1>
+
 
               </p>
 
               </p>
 +
              <h4>All the groups:</h4>
 +
<table>
 +
<tr>
 +
<td>
 +
<img style = "width: 220px; height: 150px;" src = "https://static.igem.org/mediawiki/2017/c/c8/Michigan_software_meetupallgroup.png"/>
 +
              <img style = "width: 220px; height: 150px;" src = "https://static.igem.org/mediawiki/2017/9/92/Michigan_software_meetupcarrollhsgroup.png"/>
 +
              <img style = "width: 220px; height: 150px;" src = "https://static.igem.org/mediawiki/2017/0/00/Michigan_software_meetupmsugroup.png"/>
 +
              <img style = "width: 220px; height: 150px;" src = "https://static.igem.org/mediawiki/2017/3/3e/Michigan_software_meetupmsynbiogroup.png"/>
 +
</tr>
 +
<tr>
 +
</tr>
 +
</table>
 +
             
 +
              <h4>The presentations:</h4>
 +
<table>
 +
<tr>
 +
<td>
 +
<img style = "width: 220px; height: 150px;" src = "https://static.igem.org/mediawiki/2017/5/5d/Michigan_software_meetuppresentation1.png"/>
 +
              <img style = "width: 220px; height: 150px;" src = "https://static.igem.org/mediawiki/2017/9/93/Michigan_software_meetuppresentation2.png"/>
 +
              <img style = "width: 220px; height: 150px;" src = "https://static.igem.org/mediawiki/2017/f/f0/Michigan_software_meetuppresentation3.png"/> 
 +
</tr>
 +
<tr>
 +
</tr>
 +
</table>
 +
                           
 
               <br>
 
               <br>
−
              <div class="row" style="border-bottom:thin solid;"></div>
 
 
               <br>
 
               <br>
 
               <br>
 
               <br>
−
               <p id = "doubleSpace" class="p-font grey-text">Standardization in synthetic biology has gained a lot of traction,
+
              <h1 class="grey-text heading-weight" align = "center">IIT Madras Collaboration</h1>
−
                  such as the BioBrick and Registry of Standardized Biological Parts. However, the procedures
+
              <div class="row" style="border-bottom:thin solid;"></div>
−
                  used to generate them tend to be diverse in nature, with a bacterial transformation
+
              <br>
−
                  protocol likely requiring different information than a ligation protocol. Online protocol
+
               <p id = "doubleSpace" class="p-font grey-text">Lastly, we have established a relationship with the iGEM team from IIT Madras this year.. During their work on their host organism database ChassiDex, they directed their data donors to upload their protocols to ProtoCat, further populating our database with protocol and increasing the usage of our software. They include the links to our database on the pages of their database as well.
−
                  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.
+
 
               </p>
 
               </p>
 +
<table>
 +
<tr>
 +
<td>
 +
<img style = "width: 175px; height: 175px;" src = "https://static.igem.org/mediawiki/2017/f/f6/Michigan_software_iitmadraslogo.png"/>
 +
</tr>
 +
<tr>
 +
</tr>
 +
</table>
 +
             
 
               <br>
 
               <br>
 
               <br>
 
               <br>
 
               <br>
 
               <br>
 +
<br>
 +
<br>
 
             </div>
 
             </div>
 
         </div>
 
         </div>
 
       </div>
 
       </div>
 
       <footer id = "footer">
 
       <footer id = "footer">
−
         <div class="container-footer bg-3">
+
         <div class="container-footer">
 
             <div class = "row">
 
             <div class = "row">
 
               <div class = "col-sm-12 text-center">
 
               <div class = "col-sm-12 text-center">
 
                   <h3 id = "h3Header">Important Links:</h3>
 
                   <h3 id = "h3Header">Important Links:</h3>
−
                   <table class = "Footer-Table" align = "center">
+
                   <table class = "Footer-Table align = "center">
−
                      <tr>
+
                    <tr>
 
                         <td>
 
                         <td>
−
                           <p><a href="https://2017.igem.org/Team:Michigan_Software/Overview">Overview</a></p>
+
                           <a href="https://2017.igem.org/Team:Michigan_Software/Overview">Overview</a>
 
                         </td>
 
                         </td>
 
                         <td>
 
                         <td>
−
                           <p><a href="https://2017.igem.org/Team:Michigan_Software/Results">Results</a></p>
+
                           <a href="https://2017.igem.org/Team:Michigan_Software/Results">Results</a>
 
                         </td>
 
                         </td>
 
                     </tr>
 
                     </tr>
 
                     <tr>
 
                     <tr>
 
                         <td>
 
                         <td>
−
                           <p><a href="https://2017.igem.org/Team:Michigan_Software/Installation">Installation</a></p>
+
                           <a href="https://2017.igem.org/Team:Michigan_Software/Installation">Installation</a>
 
                         </td>
 
                         </td>
 
                         <td>
 
                         <td>
−
                           <p><a href="https://2017.igem.org/Team:Michigan_Software/Collaboration">Collaboration</a></p>
+
                           <a href="https://2017.igem.org/Team:Michigan_Software/Collaboration">Collaboration</a>
 
                         </td>
 
                         </td>
 
                     </tr>
 
                     </tr>
 
                     <tr>
 
                     <tr>
 
                         <td>
 
                         <td>
−
                         <p><a href="https://2017.igem.org/Team:Michigan_Software/HP">HP Silver</a></p>
+
                         <a href="https://2017.igem.org/Team:Michigan_Software/HP/Silver">HP Silver</a>
 
                         </td>
 
                         </td>
 
                         <td>
 
                         <td>
−
                           <p><a href="https://2017.igem.org/Team:Michigan_Software/Attributions">Attributions</a></p>
+
                           <a href="https://2017.igem.org/Team:Michigan_Software/Attributions">Attributions</a>
 
                         </td>
 
                         </td>
 
                     </tr>
 
                     </tr>
−
                      
+
                     <tr>
 +
                    <td>
 +
                        <a href="https://2017.igem.org/Team:Michigan_Software/HP/Gold_Integrated">HP Gold</a>
 +
                      </td>
 +
                    <td>
 +
                        <a href="https://2017.igem.org/Team:Michigan_Software/Demonstration">Demonstration</a>
 +
                    </td>
 +
                    </tr>
 +
                    <tr>
 +
                      <td>
 +
                        <a href="https://2017.igem.org/Team:Michigan_Software">Home</a>
 +
                      </td>
 
                     <td>
 
                     <td>
−
                         <p><a href="https://2017.igem.org/Team:Michigan_Software/Demonstration">Demonstration</a></p>
+
                         <a href="https://2017.igem.org/Team:Michigan_Software/Measurement">Measurments</a>
 
                     </td>
 
                     </td>
 
                     </tr>
 
                     </tr>

Latest revision as of 19:51, 1 November 2017

Human Practices - Silver




Our Human Practices efforts this year have been quite fruitful. We have made more outreach connections this year, and gained valuable insight into how scientists use our software. Our goal was to expand our user base, and through our beta testing efforts we have more users and protocol than ever before.

ProtoCat Beta Testing


Several teams have given us quite valuable feedback on ProtoCat through our beta testing initiative. We reached out to fellow iGEM teams and requested their assistance with testing ProtoCat, as students of biology and other sciences would better be able to evaluate whether or not ProtoCat is truly a useful service than the computer science students who designed it. The teams evaluated the software on several fronts: our Search Function, the Upload Process, the Category System, the User Page, and the Protocol itself. After they provided us with feedback, we gave them assistance with their wikis. Thank you to the following teams: MSU iGEM team, Carroll High School iGEM team, iGEM Peshawar, University of Westminster iGEM team, University of Florida iGEM team, and Michigan Synthetic Biology.




Menlo Innovations Meeting


Additionally, we met with the founders of Menlo Innovations, a local Ann Arbor technology business to discuss the future of ProtoCat, namely, ways to make our product more sustainable and get it adopted by more users. They were able to offer us quite useful advice that we will keep in mind as we continue to grow and develop not only our software, but our team.




iGEM North American Upper Midwest Meetup


This year we also attended the first iGEM North American Upper Midwest Meetup with Michigan Synthetic Biology, Michigan State University iGEM and the Carroll High School iGEM team. At this meetup, teams got to know each other while touring the scenic Michigan State University campus, and had the chance to practice presenting their projects to each other, receiving valuable feedback and having a great time!

All the groups:

The presentations:




IIT Madras Collaboration


Lastly, we have established a relationship with the iGEM team from IIT Madras this year.. During their work on their host organism database ChassiDex, they directed their data donors to upload their protocols to ProtoCat, further populating our database with protocol and increasing the usage of our software. They include the links to our database on the pages of their database as well.