Team:NYC Software

From 2011.igem.org

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                <h3>NYC Software Development and Genome Analysis Team</h3>
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                  <h4>Registry/ Biobrick Tools</h4>
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                Our primary aim is to develop tools to make iGEM easier. We realize that three months is an incredibly short time to attempt ambitious synthetic biology projects, so we are working to code tools that will allow future iGEMers to develop their experimental plans more quickly. Our <a href="http://www.nysynbio.org/cgi/Biobrick_primers.cgi">Primer Designer </a>will take a given sequence and output the primers necessary to biobrick that part. When searching the Registry to see if your parts has been biobricked already, text searches turn out to be an inefficient way to find this information. Instead, perhaps you could use <a href="http://www.nysynbio.org/cgi/BLAST.html">our BLAST Tool</a> to search based on your parts' sequence instead of the arbitrary name humanity has given it.
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            <h4>Deinococcus Genome Sequencing</h4>
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                Our wetlab partner team's goal is to discover novel responses to radiation resistance in bacteria by cloning a lot of genes and testing them. We aim to aid that effort by sequencing the genomes of species of the radiation-resistant Deinococcus genus and to identify genes that may be responsible for increased protection against superoxide radicals and ionizing radiation. This is a pretty ambitious goal, but thanks to a large donation from Illumina and our location here in the Mason Lab at Weill Cornell we can make it happen.  
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<h3>Meet our Team</h3>
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Our iGEM squadron consists of students from the Dalton School, Hunter College, Columbia University, Yeshiva University, NYU-Poly, and Cornell University. Our advisers (and donated workspace) reside at Weill Cornell Medical College on the Upper East Side of Manhattan.
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<h3>What we're doing</h3>
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<h4>Deinococcus Genome / Transcriptome Sequencing</h4>
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How can previously unresearched species inform us about radiation resistance? We are using whole genome and RNA-seq to analyze a genus' response to ionizing radiation.  
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<h4>Registry / Biobrick Tools</h4>
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We also realize that there are unsolved problems on the software side of synthetic biology, so we are working with others to code tools to integrate into the Registry and are working on libraries to manipulate biobricks in general.
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<h3>Team Members + Affiliations</h3>
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Daniel Packer - Hunter University<p>
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Jakub Cichon - NYU-Poly<p>
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Hannah Landes - The Dalton School<p>
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Bavir Kunar - Columbia University<p>
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Sung Won Lim - Genspace NYC<p>
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<h3>Weill Cornell Medical College Advisors + Grad Students</h3>
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Russell Durrett, Christopher Mason - Institute for Computational Biology <p>
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Alex Hansler, Steve Gross - Department of Pharmacology
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<h3>Sponsors</h3>
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<li>Illumina
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<li>Agilent
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<li>Science House
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<li>Quartzy
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<li>NY SynBio
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<li>IDT
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<li>Monster Energy | Unleash the Beast
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<!--- The Mission, Experiments --->
 
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{| style="color:#1b2c8a;background-color:#0c6;" cellpadding="3" cellspacing="1" border="1" bordercolor="#fff" width="62%" align="center"
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{{:Team:NYC_Software/Templates/boxes}}
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!align="center"|[[Team:NYC_Wetware|Home]]
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!align="center"|[[Team:NYC_Wetware/Team|Team]]
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!align="center"|[https://igem.org/Team.cgi?year=2011&team_name=NYC_Wetware Official Team Profile]
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!align="center"|[[Team:NYC_Wetware/Project|Project]]
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!align="center"|[[Team:NYC_Wetware/Parts|Parts Submitted to the Registry]]
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!align="center"|[[Team:NYC_Wetware/Modeling|Modeling]]
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!align="center"|[[Team:NYC_Wetware/Notebook|Notebook]]
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!align="center"|[[Team:NYC_Wetware/Safety|Safety]]
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!align="center"|[[Team:NYC_Wetware/Attributions|Attributions]]
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Latest revision as of 19:38, 28 September 2011