Difference between revisions of "Team:TUDelft/Parts"

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<h1>Parts</h1>
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<p>Each team will make new parts during iGEM and will submit them to the Registry of Standard Biological Parts. The iGEM software provides an easy way to present the parts your team has created. The <code>&lt;groupparts&gt;</code> tag (see below) will generate a table with all of the parts that your team adds to your team sandbox.</p>
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<p>Remember that the goal of proper part documentation is to describe and define a part, so that it can be used without needing to refer to the primary literature. Registry users in future years should be able to read your documentation and be able to use the part successfully. Also, you should provide proper references to acknowledge previous authors and to provide for users who wish to know more.</p>
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<h3>Note</h3>
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<p>Note that parts must be documented on the <a href="http://parts.igem.org/Main_Page"> Registry</a>. This page serves to <i>showcase</i> the parts you have made. Future teams and other users and are much more likely to find parts by looking in the Registry than by looking at your team wiki.</p>
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<h3>Adding parts to the registry</h3>
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<p>You can add parts to the Registry at our <a href="http://parts.igem.org/Add_a_Part_to_the_Registry">Add a Part to the Registry</a> link.</p>
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<p>We encourage teams to start completing documentation for their parts on the Registry as soon as you have it available. The sooner you put up your parts, the better you will remember all the details about your parts. Remember, you don't need to send us the DNA sample before you create an entry for a part on the Registry. (However, you <b>do</b> need to send us the DNA sample before the Jamboree. If you don't send us a DNA sample of a part, that part will not be eligible for awards and medal criteria.)</p>
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<a href="http://parts.igem.org/Add_a_Part_to_the_Registry">
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ADD PARTS
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<h3>Inspiration</h3>
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<p>We have a created  a <a href="http://parts.igem.org/Well_Documented_Parts">collection of well documented parts</a> that can help you get started.</p>
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<p> You can also take a look at how other teams have documented their parts in their wiki:</p>
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<li><a href="https://2014.igem.org/Team:MIT/Parts"> 2014 MIT </a></li>
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<li><a href="https://2014.igem.org/Team:Heidelberg/Parts"> 2014 Heidelberg</a></li>
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<li><a href="https://2014.igem.org/Team:Tokyo_Tech/Parts">2014 Tokyo Tech</a></li>
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<h3>What information do I need to start putting my parts on the Registry?</h3>
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<p>The information needed to initially create a part on the Registry is:</p>
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<li>Part Name</li>
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<li>Part type</li>
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<li>Creator</li>
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<li>Sequence</li>
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<li>Short Description (60 characters on what the DNA does)</li>
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<li>Long Description (Longer description of what the DNA does)</li>
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<li>Design considerations</li>
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We encourage you to put up <em>much more</em> information as you gather it over the summer. If you have images, plots, characterization data and other information, please also put it up on the part page. </p>
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<h3>Part Table </h3>
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<p>Please include a table of all the parts your team has made during your project on this page. Remember part characterization and measurement data must go on your team part pages on the Registry. </p>
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<groupparts>iGEM18 TUDelft</groupparts>
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Latest revision as of 14:01, 12 September 2018

ADOPE

partsoverview

Parts Overview

When constructing our BioBricks, we made use of the IDT synthesis offer. This way we were able to generate our required parts in a fast and efficient way. Additionally, we made use of PCR amplification with our constructed expression plasmids as template to construct several BioBricks. All of the parts contain a coding sequence, some of which extended with promoters or introns. Since our fusion protein BBa_K2643000 consists of the dxCas9, linker and Tn5 coding sequences this part is registered as composite part. The basic parts comprising the fusion protein composite part are documented separately and also exist as separate BioBricks. This is advantageous for those wishing to combine one of our basic parts with a different expression level or compose a different composite part altogether. We created a part collection comprised of 6 basic parts encoding for different EPO coding sequences, 2 basic parts encoding for the required components for targeted sequencing and 1 composite part: our fusion protein. All BioBricks are submitted with elaborate characterisation so the user may choose the best part for their project accordingly. Our favourite basic part is dxCas9 BBa_K2643001 and our favourite composite part is dxCas9-Lin-Tn5 BBa_K2643000.

Table 1. BioBrick Parts submitted by TU Delft iGEM 2018 team. All BioBricks were constructed by the team members involved in wetlab: Susan Bouwmeester, Kavish Kohabir, Venda Mangkusaputra, Timmy Paez, Lisbeth Schmidtchen and Nicole Bennis
♥ Name Type Description Designer
♥ BBa_K2643000 Composite dxCas9-linker-Tn5 fusion protein (HIS Tag) TU Delft 2018
♥ BBa_K2643001 Basic dxCas9 (HIS Tag) TU Delft 2018
♥ BBa_K2643002 Basic Tn5 Transposase (HIS Tag) TU Delft 2018
BBa_K2643003 Basic Glycine Helical peptide Linker (GHL) TU Delft 2018
♥ BBa_K2643004 Basic Coding region (CDS) of human erythropoietin (EPO) hormone TU Delft 2018
BBa_K2643005 Basic Human EPO gene with artificial intron (615 bp) TU Delft 2018
BBa_K2643006 Basic Human EPO gene with artificial intron (135 bp) TU Delft 2018
BBa_K2643007 Basic Human EPO gene with 2 artificial introns (615 + 135 bp) TU Delft 2018
BBa_K2643008 Basic Human EPO gene with mutation 1 (5 bp) TU Delft 2018
BBa_K2643009 Basic Human EPO gene with mutation 2 (12 bp) TU Delft 2018
BBa_K2643010 Basic gRNA expression cassette for CRISPR-targeting lacZ TU Delft 2018
BBa_K2643011 Basic Mosaic Ends-flanked Kanamycin cassette and RFP TU Delft 2018
BBa_K2643012 Basic T7p expressing sgRNA targeting the EPO coding sequence TU Delft 2018