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| − | <html lang="en"><head><meta charset="utf-8"/><meta content="width=device-width,initial-scale=1" name="viewport"/><title>Engineering Success | UIUCiGEM</title><script src="https://2020.igem.org/common/MathJax-2.5-latest/MathJax.js?config=TeX-AMS-MML_HTMLorMML"></script><link href="https://2021.igem.org/Template:UIUC_Illinois/css/contentCSS?action=raw&ctype=text/css" rel="stylesheet"/></head><body><nav class="navbar navbar-expand-xl fixed-top"><div class="container d-flex justify-content-between"><a class="navbar-brand d-lg-inline-block" href="https://2021.igem.org/Team:UIUC_Illinois"><span>iGEM </span>UIUC</a><button aria-controls="navbarNav" aria-expanded="false" aria-label="Toggle navigation" class="navbar-toggler" data-target="#navbarNav" data-toggle="collapse" type="button"><span class="navbar-toggler-icon"></span></button><div class="collapse navbar-collapse" id="navbarNav"><ul class="navbar-nav ml-auto"><li class="nav-item dropdown"><a aria-expanded="false" aria-haspopup="true" class="nav-link dropdown-toggle" data-toggle="dropdown" href="#" id="navbarTeamDropdown" role="button">Team</a><div aria-labelledby="navbarTeamDropdown" class="dropdown-menu"><a class="dropdown-item" href="https://2021.igem.org/Team:UIUC_Illinois/Team">Team</a><a class="dropdown-item" href="https://2021.igem.org/Team:UIUC_Illinois/Attributions">Attributions</a><a class="dropdown-item" href="https://2021.igem.org/Team:UIUC_Illinois/Collaborations">Collaborations</a></div></li><li class="nav-item dropdown"><a aria-expanded="false" aria-haspopup="true" class="nav-link dropdown-toggle" data-toggle="dropdown" href="#" id="navbarProjectDropdown" role="button">Project</a><div aria-labelledby="navbarProjectDropdown" class="dropdown-menu"><a class="dropdown-item" href="https://2021.igem.org/Team:UIUC_Illinois/Contribution">Contribution</a><a class="dropdown-item" href="https://2021.igem.org/Team:UIUC_Illinois/Description">Description </a><a class="dropdown-item" href="https://2021.igem.org/Team:UIUC_Illinois/Design">Design</a><a class="dropdown-item" href="https://2021.igem.org/Team:UIUC_Illinois/Engineering">Engineering Success</a><a class="dropdown-item" href="https://2021.igem.org/Team:UIUC_Illinois/Experiments">Experiments</a><a class="dropdown-item" href="https://2021.igem.org/Team:UIUC_Illinois/Implementation">Proposed Implementation</a><a class="dropdown-item" href="https://2021.igem.org/Team:UIUC_Illinois/Notebook">Notebook</a><a class="dropdown-item" href="https://2021.igem.org/Team:UIUC_Illinois/Partnership">Partnership</a><a class="dropdown-item" href="https://2021.igem.org/Team:UIUC_Illinois/Results">Results</a></div></li><li class="nav-item dropdown"><a aria-expanded="false" aria-haspopup="true" class="nav-link dropdown-toggle" data-toggle="dropdown" href="#" id="navbarPartsDropdown" role="button">Parts</a><div aria-labelledby="navbarPartsDropdown" class="dropdown-menu"><a class="dropdown-item" href="https://2021.igem.org/Team:UIUC_Illinois/Part_Collection">Part Collection</a><a class="dropdown-item" href="https://2021.igem.org/Team:UIUC_Illinois/Parts">Parts</a><a class="dropdown-item" href="https://2021.igem.org/Team:UIUC_Illinois/Improve">Improve</a></div></li><li class="nav-item"><a class="nav-link" href="https://2021.igem.org/Team:UIUC_Illinois/Safety">Safety</a></li><li class="nav-item"><a class="nav-link" href="https://2021.igem.org/Team:UIUC_Illinois/Human_Practices">Human Practices</a></li></ul></div><div class="d-flex" id="themeSwitchWrapper"><i class="far fa-sun"></i><div id="themeSwitch"><label class="switch" for="themeSwitchInput"><input id="themeSwitchInput" type="checkbox"/><span class="slider round"></span></label></div><i class="far fa-moon"></i></div></div></nav><header class="d-flex justify-content-center align-items-center"><div class="container"><h1>Engineering Success</h1><p class="lead pl-1"></p><hr class="my-4"/></div></header><main><div class="container"><div class="row"><div class="sidebar col-lg-3"><div class="nav" id="contents"><h5>Contents</h5><ul></ul></div></div><div class="content col-lg-9"><article><div class="image"><img alt="Wet Lab and Dry Lab Design" src="https://static.igem.org/mediawiki/2021/d/dc/T--UIUC_Illinois--img--Engineering--diagram.png" style="width: 100%"/><p>Figure 1: Wet Lab and Dry Lab Design</p></div><h1>Drylab</h1><p>Our focus with drylab this year was to discover a solution to design and optimize new PETase sequences such that they have an increased rate of PET degradation. To do this, we aimed to design a machine learning algorithm that utilized a recurrent neural network (RNN) with specific filters, such that the output will display a selected number of PETase sequences, each of which are potential candidates for increased enzymatic activity.</p><p>We began the process with a literature review and research with PETase completed in the past. We saw that the iGEM Toronto team attempted this two years ago in 2019, however we did find some potential for improvement upon their pipeline. Following our research, we gathered several sequences found in literature and in other teams’ tests to include in our training dataset. We tested and reworked our pipeline with various training datasets to improve and clean up its output based on the filters created within the pipeline. Once we were able to achieve this, we generated our sequences and sent three of our candidates over to the wetlab team for validation, where they will test the mutants for enzymatic activity.</p></article></div></div></div></main><footer><div class="container"><p>Sample template built using the iGEM Wiki Starter Pack by BITS Goa.</p><p>Code released under the MIT license.</p><p>Based on <a href="https://getbootstrap.com">Bootstrap</a> and themes <a href="https://bootswatch.com/flatly/">Flatly</a> and <a href="https://bootswatch.com/darkly/">Darkly</a> from <a href="https://bootswatch.com/">Bootswatch</a>.</p><p>Some content from the <a href="https://2020.igem.org/Team:Example">iGEM Example Wiki</a>. Images from <a href="https://unsplash.com">Unsplash</a>. Web fonts from <a href="https://fonts.google.com">Google</a>.</p></div></footer><script src="https://2021.igem.org/Template:UIUC_Illinois/content-bundleJS?action=raw&ctype=text/javascript"></script></body></html> | + | <html lang="en"><head><meta charset="utf-8"/><meta content="width=device-width,initial-scale=1" name="viewport"/><title>Engineering Success | UIUCiGEM</title><script src="https://2020.igem.org/common/MathJax-2.5-latest/MathJax.js?config=TeX-AMS-MML_HTMLorMML"></script><link href="https://2021.igem.org/Template:UIUC_Illinois/css/contentCSS?action=raw&ctype=text/css" rel="stylesheet"/></head><body><nav class="navbar navbar-expand-xl fixed-top"><div class="container d-flex justify-content-between"><a class="navbar-brand d-lg-inline-block" href="https://2021.igem.org/Team:UIUC_Illinois"><span>iGEM </span>UIUC</a><button aria-controls="navbarNav" aria-expanded="false" aria-label="Toggle navigation" class="navbar-toggler" data-target="#navbarNav" data-toggle="collapse" type="button"><span class="navbar-toggler-icon"></span></button><div class="collapse navbar-collapse" id="navbarNav"><ul class="navbar-nav ml-auto"><li class="nav-item dropdown"><a aria-expanded="false" aria-haspopup="true" class="nav-link dropdown-toggle" data-toggle="dropdown" href="#" id="navbarTeamDropdown" role="button">Team</a><div aria-labelledby="navbarTeamDropdown" class="dropdown-menu"><a class="dropdown-item" href="https://2021.igem.org/Team:UIUC_Illinois/Team">Team</a><a class="dropdown-item" href="https://2021.igem.org/Team:UIUC_Illinois/Attributions">Attributions</a><a class="dropdown-item" href="https://2021.igem.org/Team:UIUC_Illinois/Collaborations">Collaborations</a></div></li><li class="nav-item dropdown"><a aria-expanded="false" aria-haspopup="true" class="nav-link dropdown-toggle" data-toggle="dropdown" href="#" id="navbarProjectDropdown" role="button">Project</a><div aria-labelledby="navbarProjectDropdown" class="dropdown-menu"><a class="dropdown-item" href="https://2021.igem.org/Team:UIUC_Illinois/Contribution">Contribution</a><a class="dropdown-item" href="https://2021.igem.org/Team:UIUC_Illinois/Description">Description</a><a class="dropdown-item" href="https://2021.igem.org/Team:UIUC_Illinois/Engineering">Engineering Success</a><a class="dropdown-item" href="https://2021.igem.org/Team:UIUC_Illinois/Experiments">Experiments</a><a class="dropdown-item" href="https://2021.igem.org/Team:UIUC_Illinois/Implementation">Proposed Implementation</a><a class="dropdown-item" href="https://2021.igem.org/Team:UIUC_Illinois/Notebook">Notebook</a><a class="dropdown-item" href="https://2021.igem.org/Team:UIUC_Illinois/Partnership">Partnership</a><a class="dropdown-item" href="https://2021.igem.org/Team:UIUC_Illinois/Results">Results</a></div></li><li class="nav-item dropdown"><a aria-expanded="false" aria-haspopup="true" class="nav-link dropdown-toggle" data-toggle="dropdown" href="#" id="navbarPartsDropdown" role="button">Parts</a><div aria-labelledby="navbarPartsDropdown" class="dropdown-menu"><a class="dropdown-item" href="https://2021.igem.org/Team:UIUC_Illinois/Part_Collection">Part Collection</a><a class="dropdown-item" href="https://2021.igem.org/Team:UIUC_Illinois/Parts">Parts</a><a class="dropdown-item" href="https://2021.igem.org/Team:UIUC_Illinois/Improve">Improve</a></div></li><li class="nav-item"><a class="nav-link" href="https://2021.igem.org/Team:UIUC_Illinois/Safety">Safety</a></li><li class="nav-item"><a class="nav-link" href="https://2021.igem.org/Team:UIUC_Illinois/Human_Practices">Human Practices</a></li></ul></div><div class="d-flex" id="themeSwitchWrapper"><i class="far fa-sun"></i><div id="themeSwitch"><label class="switch" for="themeSwitchInput"><input id="themeSwitchInput" type="checkbox"/><span class="slider round"></span></label></div><i class="far fa-moon"></i></div></div></nav><header class="d-flex justify-content-center align-items-center"><div class="container"><h1>Engineering Success</h1><p class="lead pl-1"></p><hr class="my-4"/></div></header><main><div class="container"><div class="row"><div class="sidebar col-lg-3"><div class="nav" id="contents"><h5>Contents</h5><ul></ul></div></div><div class="content col-lg-9"><article><div class="image"><img alt="Wet Lab and Dry Lab Design" src="https://static.igem.org/mediawiki/2021/d/dc/T--UIUC_Illinois--img--Engineering--diagram.png" style="width: 100%"/><p>Figure 1: Wet Lab and Dry Lab Design</p></div><h1>Drylab</h1><p>Our focus with drylab this year was to discover a solution to design and optimize new PETase sequences such that they have an increased rate of PET degradation. To do this, we aimed to design a machine learning algorithm that utilized a recurrent neural network (RNN) with specific filters, such that the output will display a selected number of PETase sequences, each of which are potential candidates for increased enzymatic activity.</p><p>We began the process with a literature review and research with PETase completed in the past. We saw that the iGEM Toronto team attempted this two years ago in 2019, however we did find some potential for improvement upon their pipeline. Following our research, we gathered several sequences found in literature and in other teams’ tests to include in our training dataset. We tested and reworked our pipeline with various training datasets to improve and clean up its output based on the filters created within the pipeline. Once we were able to achieve this, we generated our sequences and sent three of our candidates over to the wetlab team for validation, where they will test the mutants for enzymatic activity.</p></article></div></div></div></main><footer><div class="container"><p>Sample template built using the iGEM Wiki Starter Pack by BITS Goa.</p><p>Code released under the MIT license.</p><p>Based on <a href="https://getbootstrap.com">Bootstrap</a> and themes <a href="https://bootswatch.com/flatly/">Flatly</a> and <a href="https://bootswatch.com/darkly/">Darkly</a> from <a href="https://bootswatch.com/">Bootswatch</a>.</p><p>Some content from the <a href="https://2020.igem.org/Team:Example">iGEM Example Wiki</a>. Images from <a href="https://unsplash.com">Unsplash</a>. Web fonts from <a href="https://fonts.google.com">Google</a>.</p></div></footer><script src="https://2021.igem.org/Template:UIUC_Illinois/content-bundleJS?action=raw&ctype=text/javascript"></script></body></html> |
