Biomod/2014/OhioMOD: Difference between revisions

Revision as of 12:41, 21 August 2014

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   <a class="navbar-brand" href="http://openwetware.org/wiki/Biomod/2014/OhioMOD">OhioMOD</a>
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     <li ><a href="http://openwetware.org/wiki/Biomod/2014/OhioMOD">Home</a></li>
     <li><a href="http://openwetware.org/wiki/Biomod/2014/OhioMOD/project">Background</a></li>

<li><a href="http://openwetware.org/wiki/Biomod/2014/OhioMOD/results">Project and Results</a></li>

       <a href="#" class="dropdown-toggle" data-toggle="dropdown">Materials and Methods <b class="caret"></b></a>
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         <li><a href="http://openwetware.org/wiki/Biomod/2014/OhioMOD/protocols">Protocols</a></li>
         <li><a href="http://openwetware.org/wiki/Biomod/2014/OhioMOD/equipment">Equipment</a></li>
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         <li class="dropdown-header">Lab Notebook</li>
         <li><a href="http://openwetware.org/wiki/Biomod/2014/OhioMOD/LabNotebook">Experiment Schedule</a></li>
         <li><a href="http://openwetware.org/wiki/Biomod/2014/OhioMOD/experimentnotes">Experiment Notes</a></li>
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<li><a href="http://openwetware.org/wiki/Biomod/2014/OhioMOD/team">Team</a></li> <li><a href="http://openwetware.org/wiki/Biomod/2014/OhioMOD/sponsors">Acknowledgement</a></li> <li><a href="http://www.giveto.osu.edu/igive/OnlineGiving/fund_results.aspx?fund=314139" target="_blank">Give To OhioMOD</a></li>

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</style>  </head> <body> <div id="logo"> <img src="http://openwetware.org/images/e/ed/OHIOMODLOGO2.png" alt="OhioMOD"> <iframe src="//www.facebook.com/plugins/like.php?href=https%3A%2F%2Fwww.facebook.com%2FOhioMod&width&layout=standard&action=like&show_faces=true&share=true&height=80" scrolling="no" frameborder="0" style="border:none; overflow:hidden; height:80px;" allowTransparency="true"></iframe> </div> <div id="abstract"> <h1>Welcome to OhioMOD</h1> <p1>OhioMOD is Ohio State's undergraduate biomolecular design team. The team participates in the BIOMOD international competition each year at Harvard University. The 2014 project will use a folded DNA structure to control miRNA gene regulation in cancer.</p1> <h1>Abstract (not final)</h1> <p2>MicroRNAs (miRs) are short, non-coding RNAs that regulate gene expression and control essential cellular processes such as cell cycle progression and apoptosis. Dysregulation of miRs expression levels promote tumorigenesous either by elevating oncogene or silencing tumor suppressor gene levels implicating miRs as an attractive therapeutic target. One therapeutic approach is to decrease levels of miRs that target tumor suppressor genes such as PTEN to ultimately promote apoptosis by complementary base pair antagonism via antago-miRs. However, limitations exist in regard to cellular uptake. A previous study, however, demonstrated that DNA nanostructures functionalized with small interfering RNA (siRNA) underwent cellular entry and executed targeted gene suppression suggesting strong therapeutic potential. Here, we report the fabrication of a rod-like and a block-like DNA nanostructure incorporated with complementary DNA overhangs capable of binding and sequestering miR-21, a PTEN targeting miR that is overexpressed in a variety of malignancies including chronic lymphocytic leukemia (CLL) through the molecular self-assembly process DNA origami. Proper assembly was confirmed via gel electrophoresis and transmission electron microscopy. Functionalization of miR-21 complementary DNA overhangs was confirmed via fluorescent typhoon gel imaging. In addition, DNA nanostructures were shown to enter the endolysosomal pathway as revealed via fluorescent microscopy. Furthermore, miR-21 complementary DNA overhang functionalized structures induced significant decreases in OSU-CLL cell viability relative to scrambled control overhang nanostructures as shown via fluorescent microscopy and flow cytometry. Moreover, the miR-21 complementary DNA overhang functionalized DNA nanostructures significantly increased PTEN mRNA and protein levels relative to scrambled control overhangs as shown via quantitative real time PCR and immunoblot analysis, respectively. Together, these findings suggest that the complementary miR-21 DNA overhang functionalized DNA nanostructures effectively sequester miR-21 and increase levels of PTEN to induce cytoxicity in OSU-CLL cells. Our results represent a promising antago-miR delivery approach in a CLL leukemia model with implications to a variety of human malignancies. </p2> <h1>Video</h1> <p3>The 2014 video is coming soon. Until then, enjoy OhioMOD's videos from the past two years!</p3><br> </div> <div id="video"> <iframe width="560" height="315" src="//www.youtube.com/embed/d1NVwkxnS-s" frameborder="0" allowfullscreen></iframe> <iframe width="560" height="315" src="//www.youtube.com/embed/_RK5GbcpEqQ" frameborder="0" allowfullscreen></iframe>

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<td id="email">Contact us at <a href="mailto:theohiomod@gmail.com"><font color="white">theohiomod@gmail.com</a></td>

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+<iframe src="//www.facebook.com/plugins/like.php?href=https%3A%2F%2Fwww.facebook.com%2FOhioMod&amp;width&amp;layout=standard&amp;action=like&amp;show_faces=true&amp;share=true&amp;height=80" scrolling="no" frameborder="0" style="border:none; overflow:hidden; height:80px;" allowTransparency="true"></iframe>
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 </div>
+<div id="abstract">
-<h2>Members</h2>
+<h1>Welcome to OhioMOD</h1>
+<p1>OhioMOD is Ohio State's undergraduate biomolecular design team.  The team participates in the BIOMOD international competition each year at Harvard University.  The 2014 project will use a folded DNA structure to control miRNA gene regulation in cancer.</p1>
-<div id="member1"><img src="http://i.imgur.com/POsouhG.jpg"height="250" width="333" align="left" hspace="20"
+<h1>Abstract (not final)</h1>
-  title="Amjad: By enabling us to design and conduct our own original inquiry, BioMOD has introduced me to the world of research in a comprehensive way that most other undergraduate opportunities cannot."/>
+<p2>MicroRNAs (miRs) are short, non-coding RNAs that regulate gene expression and control essential cellular processes such as cell cycle progression and apoptosis. Dysregulation of miRs expression levels promote tumorigenesous either by elevating oncogene or silencing tumor suppressor gene levels implicating miRs as an attractive therapeutic target. One therapeutic approach is to decrease levels of miRs that target tumor suppressor genes such as PTEN to ultimately promote apoptosis by complementary base pair antagonism via antago-miRs. However, limitations exist in regard to cellular uptake. A previous study, however, demonstrated that DNA nanostructures functionalized with small interfering RNA (siRNA) underwent cellular entry and executed targeted gene suppression suggesting strong therapeutic potential. Here, we report the fabrication of a rod-like and a block-like DNA nanostructure incorporated with complementary DNA overhangs capable of binding and sequestering miR-21, a PTEN targeting miR that is overexpressed in a variety of malignancies including chronic lymphocytic leukemia (CLL) through the molecular self-assembly process DNA origami. Proper assembly was confirmed via gel electrophoresis and transmission electron microscopy. Functionalization of miR-21 complementary DNA overhangs was confirmed via fluorescent typhoon gel imaging. In addition, DNA nanostructures were shown to enter the endolysosomal pathway as revealed via fluorescent microscopy. Furthermore, miR-21 complementary DNA overhang functionalized structures induced significant decreases in OSU-CLL cell viability relative to scrambled control overhang nanostructures as shown via fluorescent microscopy and flow cytometry. Moreover, the miR-21 complementary DNA overhang functionalized DNA nanostructures significantly increased PTEN mRNA and protein levels relative to scrambled control overhangs as shown via quantitative real time PCR and immunoblot analysis, respectively. Together, these findings suggest that the complementary miR-21 DNA overhang functionalized DNA nanostructures effectively sequester miR-21 and increase levels of PTEN to induce cytoxicity in OSU-CLL cells. Our results represent a promising antago-miR delivery approach in a CLL leukemia model with implications to a variety of human malignancies. </p2>
-<br/><h3><strong>Amjad Akif</strong></h3><br /><u>Major:</u> <i> Chemical Engineering</i><br /><u>Graduation Year:</u> <i> 2017</i><br /><u>Fun Fact:</u><i> In addition to an average ball, I have played soccer using coconuts, grapefruits, pumpkins, and  watermelons.</i><br />
+<h1>Video</h1>
-<u>What does BioMOD mean to you?</u><i> "By enabling us to design and conduct our own original inquiry, BioMOD has introduced me to the world of research in a comprehensive way that most other undergraduate opportunities cannot."</i><br />
+<p3>The 2014 video is coming soon. Until then, enjoy OhioMOD's videos from the past two years!</p3><br>
 </div>
+<div id="video">
+<iframe width="560" height="315" src="//www.youtube.com/embed/d1NVwkxnS-s" frameborder="0" allowfullscreen></iframe>
+<iframe width="560" height="315" src="//www.youtube.com/embed/_RK5GbcpEqQ" frameborder="0" allowfullscreen></iframe>
-<div id="member2"><img src="http://i.imgur.com/lkRvlyZ.jpg"height="250" width="333" align="right" hspace="20"
- title="Max: I love BioMOD because it affords me the opportunity to work closely with and to learn from the team.  BioMOD has fostered my growth as a scientist, a leader, and an individual."/>
-<br/><h3><strong>Max Armstrong</strong></h3><br /><u>Major:</u> <i> Mechanical Engineering</i><br /><u>Graduation Year:</u> <i> 2015</i><br /><u>Fun Fact:</u><i> I was born with a genetic mutation which makes me invisible in mirrors.</i><br />
-<u>What does BioMOD mean to you?</u><i> "I love BioMOD because it affords me the opportunity to work closely with and to learn from the team.  BioMOD has fostered my growth as a scientist, a leader, and an individual."</i><br />
-</div>
-<div id="member3"><img src="http://4.bp.blogspot.com/-8buf5lHyCjo/Uxbs5e3ZUVI/AAAAAAAABg8/vPRlhTcAQGo/s1600/cartoon+characters.png"height="250" width="210" align="left" hspace="20"
+<A HREF="#top"><img src="http://openwetware.org/images/4/46/Arrow_up.png" id="fixedbutton"height="40" width="40"></A>
- title="Patrick: BioMOD has been a trial by fire. It's been a lot of work, and occassionally very overwhelming, but I feel that I've learned a great deal for my troubles. I haven't just been assisting in experiments and mixing chemicals. I've had to come up with experiments and procedures - a much more valuable experience."/>
+</br><a href="http://openwetware.org/index.php?title=Biomod/2014/OhioMOD&action=edit">Edit Main Page</a>
-<br/><h3><strong>Patrick Kinnunen</strong></h3><br /><u>Major:</u> <i> Chemical Engineering</i><br /><u>Graduation Year:</u> <i> 2016</i><br /><u>Fun Fact:</u><i> Travelled back in time to introduce the cure to cancer to a group of undergraduates called OhioMOD.</i><br />
-<u>What does BioMOD mean to you?</u><i> "BioMOD has been a trial by fire. It's been a lot of work, and occassionally very overwhelming, but I feel that I've learned a great deal for my troubles. I haven't just been assisting in experiments and mixing chemicals. I've had to come up with experiments and procedures - a much more valuable experience."</i><br />
-</div>
-<div id="member4"><img src="http://cdn.acidcow.com/pics/20110704/cartoons_real_names_revealed_05.jpg"height="250" width="210" align="right" hspace="20"
+<a href="http://info.flagcounter.com/4FJ3"><img src="http://s06.flagcounter.com/count/4FJ3/bg_FFFFFF/txt_000000/border_CCCCCC/columns_8/maxflags_12/viewers_3/labels_1/pageviews_1/flags_0/" alt="Flag Counter" border="0"></a>
-title="Chuck: BioMOD is a terrific organization that offers great insight and firsthand experience in what the research world is like and where it is currently heading. One of the many reasons why BioMOD is a unique research opportunity is that it allows undergraduate students create and run their own experiment that has never been tackled before."/>
-<br/><h3><strong>Chuck Loney</strong></h3><br /><u>Major:</u> <i> Chemical Engineering</i><br /><u>Graduation Year:</u> <i> 2016</i><br /><u>Fun Fact:</u><i> My elbows are double-jointed.</i><br />
-<u>What does BioMOD mean to you?</u><i> "BioMOD is a terrific organization that offers great insight and firsthand experience in what the research world is like and where it is currently heading. One of the many reasons why BioMOD is a unique research opportunity is that it allows undergraduate students create and run their own experiment that has never been tackled before."</i><br />
 </div>
-<div id="member5"><img src="http://i.imgur.com/riWz8Ji.jpg"height="250" width="333" align="left" hspace="20"
+</body>
-title="Anu: BioMOD has introduced to me an incredible amount of new stuff that I otherwise would've never known anything about. I made some really cool friends who make everything look so enjoyable and awesome. I love everything about this organization."/>
+</html>
-<br/><h3><strong>Anudeep Lotey</strong></h3><br /><u>Major:</u> <i> Mechanical Engineering</i><br /><u>Graduation Year:</u> <i> 2016</i><br /><u>Fun Fact:</u><i> I had a spider stuck in my eye for over 7 hours!</i><br />
-<u>What does BioMOD mean to you?</u><i> "BioMOD has introduced to me an incredible amount of new stuff that I otherwise would've never known anything about. I made some really cool friends who make everything look so enjoyable and awesome. I love everything about this organization."</i><br />
-</div>
-<div id="member6"><img src="http://i.imgur.com/W6pa1qW.jpg"height="250" width="333" align="right" hspace="20"
-title="Graham: Working with BioMOD has given me valuable experience in teamwork and lab procedure. The level of student involvement is incredible, and I feel as if I am a contributor and a major player, as opposed to a simple assistant to a greater project. Developing cell cultures and running gels with my peers - and friends - has been an incredibly enriching experience." />
-<br/><h3><strong>Graham Lyon</strong></h3><br /><u>Major:</u><i> Mechanical Engineering</i><br /><u>Graduation Year:</u><i> 2015</i><br /><u>Fun Fact:</u><i> I have been to Australia twice, but have never been to Europe.</i><br />
-<u>What does BioMOD mean to you?</u><i> "Working with BioMOD has given me valuable experience in teamwork and lab procedure. The level of student involvement is incredible, and I feel as if I am a contributor and a major player, as opposed to a simple assistant to a greater project. Developing cell cultures and running gels with my peers - and friends - has been an incredibly enriching experience."</i><br />
-</div>
-<div id="member7"><img src="http://i.imgur.com/3MBSZap.jpg"height="250" width="333" align="left" hspace="20"
- title="Michelle: BioMOD has given me a great opportunity to explore the different aspects of research in a field that I have grown to love. It is a very unique experience because students are given a larger amount of independence and responsibility than many other undergraduate opportunities might give."/>
-<br/><h3><strong>Michelle Snow</strong></h3><br /><u>Major:</u> <i> Chemical Engineering</i><br /><u>Graduation Year:</u><i> 2016</i><br /><u>Fun Fact:</u><i> I was the first women's long jump champion at the Arnold Classic.</i><br />
-<u>What does BioMOD mean to you?</u><i> "BioMOD has given me a great opportunity to explore the different aspects of research in a field that I have grown to love. It is a very unique experience because students are given a larger amount of independence and responsibility than many other undergraduate opportunities might give."</i><br />
-</div>
-<h2>Graduate Mentors</h2>
-<div id="mentor1"><img src="http://4.bp.blogspot.com/-8buf5lHyCjo/Uxbs5e3ZUVI/AAAAAAAABg8/vPRlhTcAQGo/s1600/cartoon+characters.png"height="250" width="210" align="left" hspace="20"
-title="Alex: Being a mentor for Ohiomod has been a very rewarding experience. I really enjoy seeing the enthusiastic undergrads dream up their own project and execute it over the course of a few months. Its fascinating to watch them learn these skills and grow as researchers. The Biomod competition is a great place to learn about work being done all around the world and is an outstanding opportunity for our students."/>
-<br/><h3><strong>Alex Marras</strong></h3><br /><u>Major:</u><i> Mechanical Engineering</i><br /><u>Fun Fact:</u><i> I rode my bike 7,600 miles last year!</i><br />
-<u>What does BioMOD mean to you?</u><i> "Being a mentor for Ohiomod has been a very rewarding experience. I really enjoy seeing the enthusiastic undergrads dream up their own project and execute it over the course of a few months. Its fascinating to watch them learn these skills and grow as researchers. The Biomod competition is a great place to learn about work being done all around the world and is an outstanding opportunity for our students."</i><br />
-</div>
-<div id="mentor2"><img src="http://i.imgur.com/nKa9hIb.jpg"height="250" width="333" align="right" hspace="20"
-title="Randy: BioMOD is a chance to shape future scientists, to encourage and to mentor them as they grow into aspirational student researchers. It is also an opportunity to explore unique and interesting topics in Biomolecular Design."/>
-<br/><h3><strong>Randy Patton</strong></h3><br /><u>Major:</u><i> Mechanical Engineering</i><br /><u>Fun Fact:</u><i> I rode my bike 7,500 miles last year!</i><br />
-<u>What does BioMOD mean to you?</u><i> "BioMOD is a chance to shape future scientists, to encourage and to mentor them as they grow into aspirational student researchers. It is also an opportunity to explore unique and interesting topics in Biomolecular Design."</i><br />
-</div>
-<h2>Post-Doctoral Mentor</h2>
-<div id="mentor3"><img src="http://4.bp.blogspot.com/-8buf5lHyCjo/Uxbs5e3ZUVI/AAAAAAAABg8/vPRlhTcAQGo/s1600/cartoon+characters.png"height="250" width="210" align="left" hspace="20"/><br/><h3><strong>Dr. Chris Lucas</strong></h3><br /><u>Major:</u><i> Biomedical Sciences, Biochemistry</i><br /><u>Fun Fact:</u><i> My favorite kind of sandwich is squirrel.</i><br />
-<u>What does BioMOD mean to you?</u><i> "BioMOD has been an outstanding learning opportunity for undergraduate students to get involved and excited about DNA Nanotechnology! It also provides graduate students and postdoctoral researchers an invaluable opportunity to mentor an entire group of young scientists that will likely prove to be critical for a successful career in science."</i><br />
-</div>
-<h2>Faculty Mentor</h2>
-<div id="fmentor"><img src="http://4.bp.blogspot.com/-8buf5lHyCjo/Uxbs5e3ZUVI/AAAAAAAABg8/vPRlhTcAQGo/s1600/cartoon+characters.png"height="250" width="210" align="left" hspace="20"/><br/><h3><strong>Dr. Carlos Castro </strong></h3><br /><u>Position:</u><i> Professor of Mechanical Engineering</i><br /><u>Fun Fact:</u><i> My 15 month old son has been to 6 different countries on 3 different continents. I am teaching him my favorite hobby, cross-stitching!</i><br />
-<u>What does BioMOD mean to you?</u><i> "BioMOD has been a fun way to get young students excited about bioengineering and biomolecular nanotechnology. And they get to interact with students from different majors, which broadens their learning. It's also been a nice way to recruit high quality undergradaute researchers to my lab!"</i><br />
-</div>
-<A HREF="#top"><img src="http://openwetware.org/images/4/46/Arrow_up.png" id="fixedbutton"height="40" width="40"></A>
-<br><a href="http://openwetware.org/index.php?title=Biomod/2014/OhioMOD/project&action=edit">Edit team</a></br>
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Biomod/2014/OhioMOD: Difference between revisions

Revision as of 12:41, 21 August 2014

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