Difference between revisions of "Team:BostonU HW/Improve"

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<title>Improve</title>
  
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<meta content='width=device-width, initial-scale=1.0, maximum-scale=1.0, user-scalable=0' name='viewport' />
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<h3>★  ALERT! </h3>
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<p>This page is used by the judges to evaluate your team for the <a href="https://2017.igem.org/Judging/Medals">medal criterion</a> or <a href="https://2017.igem.org/Judging/Awards"> award listed above</a>. </p>
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<p> Delete this box in order to be evaluated for this medal criterion and/or award. See more information at <a href="https://2017.igem.org/Judging/Pages_for_Awards"> Instructions for Pages for awards</a>.</p>
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<h1>Improve</h1>
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<p>For teams seeking to improve upon a previous part or project, you should document all of your work on this page. Please remember to include all part measurement and characterization data on the part page on the Regisrty. Please include a link to your improved part on this page.</p>
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#Title{
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#page_background{
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background-image: url("https://static.igem.org/mediawiki/2017/0/04/MARS_General_Background.png");
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<h3>Gold Medal Criterion #2</h3>
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<p><b>Standard Tracks:</b> Improve the function of an existing BioBrick Part. The original part must NOT be from your 2017 part number range. If you change the original part sequence, you must submit a new part. In addition, both the new and original part pages must reference each other. This working part must be different from the part documented in bronze #4 and silver #1.
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<b>Special Tracks:</b> Improve the function of an existing iGEM project (that your current team did not originally create) and display your achievement on your wiki.</p>
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<div class="header" id="Header_Pic">
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<img src="https://static.igem.org/mediawiki/2017/0/02/MARSbackground.png" id="BACKGROUND">
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<img src="https://static.igem.org/mediawiki/2017/2/22/MARSLogo2.png" id="MARS">
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<div class="main main-raised" style="margin-top:5%" id="uF_101">
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<h2>Microfluidics 101</h2>
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<h3>Introduction to Microfluidics | Dinithi</h3>
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<div class="text">
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In order to effectively use the MARS system, users need to have a fundamental understanding of microfluidics. With this in mind, we created an introduction to microfluidics that teaches users the basics of microfluidics. This educational component of project MARS consists of an introduction to microfluidic chips as well as a guide to the various primitives used in our microfluidic designs.
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<h3>Video Tutorials | Sarah and Dinithi</h3>
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<div class="text" style="margin-bottom:3%;">
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In order to make the microfluidic chips we designed accessible to synthetic biologists we developed four fully-narrated tutorial videos. These videos go step by step through the process of manufacturing, assembling, and testing a microfluidic device. The four videos created teach uses how to mill a microfluidic chip, how to make PDMS, how to assemble a microfluidic chip, and how to clean a microfluidic chip. Each of these videos is accompanied by a detailed written protocol as well.
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<div class="main main-raised" style="margin-top:5%" id ="Chip_Repo">
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<h2>Mars Repository</h2>
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<div class="text">
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In order to make microfluidics a practical field for synthetic biologists, we created the MARS microfluidic chip repository. This repository hosts nine microfluidic chips that each perform a fundamental synthetic biological protocol. These nine protocols were determined after reaching out to synthetic biologists in the Boston University and iGEM communities. Each chip comes with all the required design files and documentation so that a synthetic biologist could download, manufacture, and test any chip in the repository. The nine chips in the MARS repository are as follows:
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<div class="container">
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<h3>Cellular Lysis | Dylan</h3>
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<div class="container">
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<h3>DNA Digestion | Dinithi</h3>
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<div class="container">
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<h3>Cell Sorting | Dinithi</h3>
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<div class="container">
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<h3>Ligation | Sarah</h3>
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<div class="container">
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<h3>Transformation | Sarah</h3>
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<div class="container">
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<h3>PCR | Sarah</h3>
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<div class="container">
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<h3>Antibiotic Resistance | Dylan</h3>
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<div class="container">
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<h3>Fluorescence Testing | Dinithi</h3>
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</div>
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<div class="container">
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<h3>Cell Culturing | Dylan</h3>
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<div class="container" >
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<div class="text" style="margin-bottom:3%; margin-top:3%;">
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For more information regarding each chip, please see our <a href="https://2017.igem.org/Team:BostonU_HW/Archive">MARS repository page</a>
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<div class="main main-raised" style="margin-top:5%; margin-bottom:3%;" id="FF">
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<h2>Fluid Functionality</h2>
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<div class="text">
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In order to verify whether or not a microfluidic device is functional, a grading system was developed: the Fluid Functionality Checklist. This fluid functionality system was broken up into two portions: a qualitative checklist and a quantitative analysis.
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<div class="container">
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<h3>Qualitative Checklist | Dylan, Sarah, and Dinithi</h3>
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<div class="text">
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The qualitative portion of the fluid functionality checklist consists of various failure modes. These are visual cues that something has gone wrong while running a chip, such as liquid leaking out of a channel or primitive. If a chip passes each of these qualitative checks, it is deemed “fluid functional.” If a chip does not pass each of these qualitative checks, the user moves to the quantitative analysis to determine why the chip failed.
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<div class="container">
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<h3>Quantitative Analysis | Dylan and Sarah</h3>
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<div class="text" style="margin-bottom:3%;">
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The quantitative portion of the fluid functionality checklist consists of various quantitative analyses. Two forms of analysis are included in this portion of our evaluation system: physics-based primitive analysis and image processing-based analysis. Physics based analysis helps to determine if a qualitative failure occurred because the incorrect primitive dimensions and/or flow rate were used. Image processing analysis is used to evaluate the functionality of primitives such as mixers. Using these analyses, a user can both determine why their chip failed and evaluate the functionality of key primitives.
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Revision as of 20:33, 29 October 2017

BostonU_HW

Improve

Microfluidics 101

Introduction to Microfluidics | Dinithi

In order to effectively use the MARS system, users need to have a fundamental understanding of microfluidics. With this in mind, we created an introduction to microfluidics that teaches users the basics of microfluidics. This educational component of project MARS consists of an introduction to microfluidic chips as well as a guide to the various primitives used in our microfluidic designs.

Video Tutorials | Sarah and Dinithi

In order to make the microfluidic chips we designed accessible to synthetic biologists we developed four fully-narrated tutorial videos. These videos go step by step through the process of manufacturing, assembling, and testing a microfluidic device. The four videos created teach uses how to mill a microfluidic chip, how to make PDMS, how to assemble a microfluidic chip, and how to clean a microfluidic chip. Each of these videos is accompanied by a detailed written protocol as well.

Mars Repository

In order to make microfluidics a practical field for synthetic biologists, we created the MARS microfluidic chip repository. This repository hosts nine microfluidic chips that each perform a fundamental synthetic biological protocol. These nine protocols were determined after reaching out to synthetic biologists in the Boston University and iGEM communities. Each chip comes with all the required design files and documentation so that a synthetic biologist could download, manufacture, and test any chip in the repository. The nine chips in the MARS repository are as follows:

Cellular Lysis | Dylan

DNA Digestion | Dinithi

Cell Sorting | Dinithi

Ligation | Sarah

Transformation | Sarah

PCR | Sarah

Antibiotic Resistance | Dylan

Fluorescence Testing | Dinithi

Cell Culturing | Dylan

For more information regarding each chip, please see our MARS repository page

Fluid Functionality

In order to verify whether or not a microfluidic device is functional, a grading system was developed: the Fluid Functionality Checklist. This fluid functionality system was broken up into two portions: a qualitative checklist and a quantitative analysis.

Qualitative Checklist | Dylan, Sarah, and Dinithi

The qualitative portion of the fluid functionality checklist consists of various failure modes. These are visual cues that something has gone wrong while running a chip, such as liquid leaking out of a channel or primitive. If a chip passes each of these qualitative checks, it is deemed “fluid functional.” If a chip does not pass each of these qualitative checks, the user moves to the quantitative analysis to determine why the chip failed.

Quantitative Analysis | Dylan and Sarah

The quantitative portion of the fluid functionality checklist consists of various quantitative analyses. Two forms of analysis are included in this portion of our evaluation system: physics-based primitive analysis and image processing-based analysis. Physics based analysis helps to determine if a qualitative failure occurred because the incorrect primitive dimensions and/or flow rate were used. Image processing analysis is used to evaluate the functionality of primitives such as mixers. Using these analyses, a user can both determine why their chip failed and evaluate the functionality of key primitives.