Team:Heidelberg

From 2009.igem.org

(Difference between revisions)
(→Our Team)
 
(155 intermediate revisions not shown)
Line 1: Line 1:
__NOTOC__
__NOTOC__
-
<html>
+
{{Template_HD_3}}
 +
<html><body id="home" onload="setPageSize()">
 +
<div id="super_main_wrapper">
 +
<div id="orangeBox"><h3>Design your own promoter</h3>
 +
<p>Here we present a new approach to synthesize synthetic promoters using a database that predicts the position of conserved promoter binding sequences. We coded an easy to use interface that is available for public use. </p>
 +
<a href="http://igem.bioquant.uni-heidelberg.de/embperl/GUI04/index.epl">HEARTBEAT: Start Design</a>
 +
</div>
 +
<div id="greenBox"><h3>Mammalian biobricks</h3>
 +
<p>Mammalian synthetic biology has huge potential, but it is in need of new standards and of systematic construction of comprehensive part libraries. Learn more about our new mission on the project page. </p>
 +
<a href="https://2009.igem.org/Team:Heidelberg/Project">Go To Project Page</a>
 +
</div>
 +
<div id="blueBox"><h3>Mission accomplished</h3>
 +
<p>We developed two novel, <i>in silico</i> guided methods for the rational construction of synthetic promoters and experimentally validated the predicted results. View our graphical abstract and get an overview of the achievements of our team.</p>
 +
<a href="https://static.igem.org/mediawiki/2009/a/a6/HD_GraphicalAbstract_high.jpg">Download Graphical Abstract</a>
 +
</div>
 +
<div class="clear"></div>
 +
<div id="SubWrapper"> 
-
<style>
+
<div id="mission_box">  
-
h1.firstHeading { display: none; }
+
<h2> iGEM Team Heidelberg 2009: First Runner-Up, Winner of the PoPS Prize, Finalist, Best Wiki, Best New Standard </h2>
 +
<h3> Mission: Spybricks </h3>
 +
<p> The Heidelberg 2009 team attempts to take Synthetic Biology a step further by introducing novel concepts for the work with mammalian cells, defining Synthetic Mammalian Biology (SMB). We are the first-ever team at iGEM trying to systematically develop a BioBrick library for use in mammalian cells. Being the first team of Heidelberg's "SMB initiative", we emphasize the central position of gene regulation. Our team's work therefore focused on synthetic mammalian promoters. We provide the foundations of a methodical library of such promoters, together with novel standards for their characterization.  We have developed an avant-garde method for the synthesis of mammalian promoters, and a bioinformatical model predicting such promoters which we test in vivo. <a href="https://2009.igem.org/Team:Heidelberg/Project">Go to Project Abstract</a></p></div>
-
p {text-align: justify;}
+
<div id="team_box"><center><a href="https://2009.igem.org/Team:Heidelberg/Team"><img src="https://static.igem.org/mediawiki/2009/0/06/HD09_Team_180px.png" alt=""/></a></center>
 +
<h3>Team</h3>
 +
<p>Thirteen students and nine advisors are working on this four month project. We split up into several subgroups whose focus and results you can follow on the Notebook and Project pages. If you want to know more about the subgroups and the people involved, meet us on our <a href="https://2009.igem.org/Team:Heidelberg/Team">Team page </a> and let's get to know each other better at the Jamboree in Boston. </p></div>
-
a:link { color: #324CE5; text-decoration: none}
+
<div id="heartbeat_box"> <center><a href="https://2009.igem.org/Team:Heidelberg/HEARTBEAT"><img src="https://static.igem.org/mediawiki/2009/3/37/Heartbeat_small.gif" alt=""/></a></center>
-
a:visited { color:#324CE5; text-decoration: none}
+
<h3>HEARTBEAT </h3>
-
a:hover { color:#f29400; text-decoration: none}
+
<p> Our team worked on a computational approach for the rational <a href="https://2009.igem.org/Team:Heidelberg/HEARTBEAT">design of promoter libraries</a>. Similar to existing methods which predict spatial preferences of transcription factor binding sites (TFBS) by detecting statistically overrepresented motives we used Promotersweep to analyze and process the information of over 4000 human promoter sequences.</p></div>
-
a:active { color:#f29400; text-decoration: none}
+
-
#bodyContent { padding: 10px auto; width: 910px; margin: auto; clear: none; }
+
<div id="notebook_box"> <center><a href="https://2009.igem.org/Team:Heidelberg/Eukaryopedia"><img src="https://static.igem.org/mediawiki/2009/d/dc/Brockhauscells.jpg" alt=""/></a></center>
 +
<h3>Eukaryopedia</h3>
 +
<p>You are working in bacteria and never heard of U2-OS, SREBP or CYP1A1? Don't worry! Browse our <a href="https://2009.igem.org/Team:Heidelberg/Eukaryopedia">Eukaryopedia</a> and enter the world of mammalian BioBricks.</p> </div>
-
table#team_members { text-align: justify; border: 0; }
+
<div class="clear"></div>
-
table#team_members h2, table#team_members h3 { clear: both; }
+
-
#header {height: 40px; padding: 10px ; font: arial, helvetica, sans-serif; font-size: 2em;font-style: bold; color:#FFFFFF; background: #324CE5;}
+
<div id="parts_box"> <center><a href="https://2009.igem.org/Team:Heidelberg/Parts"><img src="https://static.igem.org/mediawiki/2009/c/c0/Parts_HD.jpg" alt=""/></a></center>
-
/*-----------------------------------------------------------------------------------------------*/
+
<h3>Parts </h3>
-
div.MenuBar ul li ul.DropDownMenu {
+
<p>Our team <a href="https://2009.igem.org/Team:Heidelberg/Parts">submits a library </a> of thoroughly characterized and standardized parts. Therefore contributing towards the establishment of a new standard for eukaryotic cells in the iGEM context.</p> </div>
-
  display: none; /* Hides all drop-down menus. */
+
-
}
+
<div id="gallery_box"><center><a href="https://2009.igem.org/Team:Heidelberg/Gallery"><img src="https://static.igem.org/mediawiki/2009/d/d9/Leopardeye.png" alt=""/></a></center>
-
/*
+
<h3>Gallery </h3>
-
li:hover works in IE7 and FF2.
+
<p>Spy on our cells or join the Heidelberg Team in the lab with our <a href="https://2009.igem.org/Team:Heidelberg/Gallery">gallery tour</a>.</p></div>
-
a:hover works in IE6 and FF2.
+
-
a:hover breaks li:hover in FF2.
+
-
*/
+
-
div.MenuBar ul li:hover ul.DropDownMenu li ul.SideMenu,
+
-
div.MenuBar ul li a:hover ul.DropDownMenu li a ul.SideMenu {
+
-
  display: none; /* Hides all side menus. */
+
-
}
+
-
/*------------------------------------------------------------------------------------- Menu Bar */
+
-
div.MenuBar {
+
-
  font: arial, helvetica, sans-serif;
+
-
  height: 30px;
+
-
  width: 910px;
+
-
  /*width: 100%*/
+
-
  margin: 0;
+
-
  border-top: 0;
+
-
  border-right: 0;
+
-
  border-left: 0;
+
-
  padding: 0;
+
-
  background: black;
+
-
 
+
-
}
+
-
div.MenuBar ul {
+
-
  font: arial, helvetica, sans-serif;
+
-
  text-align: center;
+
-
  list-style-type: none;
+
-
  margin: 0.5em auto;
+
-
  border: 0;
+
-
  padding: 0;
+
-
  background: black;
+
-
}
+
-
div.MenuBar ul li {
+
-
  font: arial, helvetica, sans-serif;
+
-
  display: block;
+
-
  padding: 0;
+
-
  margin: 0;
+
-
  font-size: 1.3em;
+
-
  float: left;
+
-
  background: black;
+
-
  text-align: center;
+
-
  width: 107px;
+
-
  position: relative; /* Sets the positioning context for each drop-down menu. */
+
-
}
+
-
div.MenuBar ul li a {
+
<div id="sponsors_box"> <center><a href="https://2009.igem.org/Team:Heidelberg/Sponsors"><img src="https://static.igem.org/mediawiki/2009/9/91/Handschlag.png" alt=""/></a></center>
-
  font: arial, helvetica, sans-serif;
+
<h3>Sponsors</h3>
-
  display: block;
+
<p>We thank our great sponsors, who supported us financially and made this project a success. <a href="https://2009.igem.org/Team:Heidelberg/Sponsors">Go here </a> to find out more about them.</p> </div>
-
  background: black;
+
-
  height: 22px; /* Keep height + padding-top + padding-bottom sync with the menu bar height. */
+
-
  color: #ffffff;
+
-
  padding-top: 4px;
+
-
  padding-bottom: 4px;
+
-
  padding-left: 1em; /* Sets the left space between top-level items. */
+
-
  padding-right: 1em; /* Sets the right space between top-level items. */
+
-
  text-decoration: none;
+
-
}
+
-
/*------------------------------------------------------------------------------ Drop-Down Menus */
+
<div class="clear"></div>
-
div.MenuBar ul li:hover ul.DropDownMenu,
+
-
div.MenuBar ul li a:hover ul.DropDownMenu {
+
-
  display: block;
+
-
  width: 10em; /* Drop-down menu width.
+
-
                  Use MenuTailor.css to customize. */
+
-
  height: 1em;
+
-
  padding: 1px; /* Sets the drop-down menu "effective border" width. */
+
-
  position: absolute;
+
-
  top: 23px; /* Places the drop-down menu under the menu bar.
+
-
                Keep it sync with the menu bar height. */
+
-
  left: 0; /* Aligns the drop-down menu to its top-level item. */
+
-
  background-color: black; /* Selected item. */
+
-
  color: #FFFFFF;
+
-
}
+
<center>
-
div.MenuBar ul li:hover ul.DropDownMenu li a,
+
<img src="https://static.igem.org/mediawiki/2009/e/e9/Igem-logo.gif"/>
-
div.MenuBar ul li a:hover ul.DropDownMenu li a {
+
</center>
-
  width: 10em; /* Keep it sync with the drop-down menu width.
+
-
                            Use MenuTailor.css to customize. */
+
-
  height: 1em;
+
-
  padding-left: 0;
+
-
  padding-right: 0;
+
-
  background-color: black; /* Selected item. */
+
-
  color: #FFFFFF;
+
-
}
+
-
ul.DropDownMenu li a span {
+
-
  display: block;
+
-
  padding-left: 0.75em; /* Sets the left space of each drop-down menu item. */
+
-
  padding-right: 0.25em; /* Sets the right space of each drop-down menu item. */
+
-
  text-align: right; /* Aligns the >> symbol to the right. */
+
-
}
+
-
ul.DropDownMenu li a span span {
+
-
  float: left; /* Aligns the text (back) to the left. */
+
-
  font: 12px arial, helvetica, sans-serif; /* Required for IE55. */
+
-
  height: 20px;
+
-
  color: #FFFFFF;
+
-
}
+
-
/*----------------------------------------------------------------------------------- Side Menus */
+
-
div.MenuBar ul li:hover ul.DropDownMenu li:hover ul.SideMenu,
+
-
div.MenuBar ul li a:hover ul.DropDownMenu li a:hover ul.SideMenu {
+
-
  display: block;
+
-
  width: 11em; /* Side menu width.
+
-
                  Use MenuTailor.css to customize. */
+
-
  padding: 1px; /* Sets the side menu "effective border" width. */
+
-
  position: absolute;
+
-
  top: -1px; /* Aligns the side menu to its drop-down menu item.
+
-
                Keep it sync with the side menu "effective border" width. */
+
-
  left: 13em; /* Places the side menu to the right of the drop-down menu.
+
-
                            Keep it sync with the drop-down menu width.
+
-
                            Use MenuTailor.css to customize. */
+
-
}
+
-
div.MenuBar ul li:hover ul.DropDownMenu li:hover ul.SideMenu li a,
+
-
div.MenuBar ul li a:hover ul.DropDownMenu li a:hover ul.SideMenu li a {
+
-
  width: 11em; /* Keep it sync with the side menu width.
+
-
                            Use MenuTailor.css to customize. */
+
-
  font: 12px arial, helvetica, sans-serif; /* Required for IE55. */
+
-
  left: 13em; /* Places the side menu to the right of the drop-down menu.
+
-
                            Keep it sync with the drop-down menu width.
+
-
                            Use MenuTailor.css to customize. */
+
-
}
+
-
div.MenuBar ul li ul.DropDownMenu li ul.SideMenu li a span {
+
-
  padding-left: 1.5em; /* Sets the left space of each side menu item. */
+
-
  padding-right: 0.5em; /* Sets the right space of each side menu item. */
+
-
  text-align: left;
+
-
  font: 12px arial, helvetica, sans-serif; /* Required for IE55. */
+
-
  left: 13em; /* Places the side menu to the right of the drop-down menu.
+
-
                            Keep it sync with the drop-down menu width.
+
-
                            Use MenuTailor.css to customize. */
+
-
}
+
-
/*----------------------------------------------------------------------------- Browser Specific */
+
-
* html div.MenuBar ul li a {
+
-
  float: left; /* Required for IE55 and IE6.
+
-
                            Breaks O9.
+
-
                            Hidden (* html) from non-IE browsers. */
+
-
}
+
-
* html ul.DropDownMenu li a:hover {
+
-
  cursor: hand; /* Required for IE55.
+
-
                  Hidden (* html) from non-IE browsers. */
+
-
}
+
-
ul.DropDownMenu li a:hover {
+
-
  cursor: pointer; /* Required for IE6 and IE7.
+
-
                      Hidding it (* html) from non-IE browsers breaks IE7!
+
-
}
+
-
* html div.MenuBar a:hover {
+
-
  text-decoration: none; /* Required for IE55 and IE6.
+
-
                            Hidden (* html) from non-IE browsers. */
+
-
}
+
-
* html div.MenuBar ul li table,
+
-
* html div.MenuBar ul li table td {
+
-
  border: 0; /* Required for IE55 and IE6.
+
-
                Hidden (* html) from non-IE browsers. */
+
-
}
+
-
/*------------------------------------------------------------------------------- Default Colors */
+
-
div.MenuBar {
+
-
  background-color: Menu;
+
-
  border-bottom: 1px solid ButtonShadow;
+
-
}
+
-
div.MenuBar a {
+
-
  background-color: Menu; /* Top-level unselected items. */
+
-
  color: MenuText;
+
-
}
+
-
div.MenuBar ul li:hover a,
+
-
div.MenuBar ul li a:hover {
+
-
  color: #ea7f16;
+
-
  background-color: Highlight; /* Top-level selected item. */
+
-
  color: HighlightText;
+
-
}
+
-
/*...............................................................................................*/
+
-
div.MenuBar ul li:hover ul.DropDownMenu,
+
-
div.MenuBar ul li a:hover ul.DropDownMenu {
+
-
  background-color: ButtonShadow; /* Sets the drop-down menu "effective border" color. */
+
-
}
+
-
div.MenuBar ul li:hover ul.DropDownMenu li a,
+
-
div.MenuBar ul li a:hover ul.DropDownMenu li a {
+
-
  background-color: Menu;  Drop-down menu unselected items.
+
-
                            Sets the drop-down menu "effective background" color. */
+
-
  color: MenuText;
+
-
}
+
-
div.MenuBar ul li:hover ul.DropDownMenu li:hover a,
+
-
div.MenuBar ul li a:hover ul.DropDownMenu li a:hover {
+
-
  background-color: Highlight; /* Drop-down menu selected item. */
+
-
  color: HighlightText;
+
-
}
+
-
/*...............................................................................................*/
+
-
div.MenuBar ul li:hover ul.DropDownMenu li:hover ul.SideMenu,
+
-
div.MenuBar ul li a:hover ul.DropDownMenu li a:hover ul.SideMenu {
+
-
  background-color: ButtonShadow; /* Sets the side menu "effective border" color. */
+
-
}
+
-
div.MenuBar ul li:hover ul.DropDownMenu li:hover ul.SideMenu li a,
+
-
div.MenuBar ul li a:hover ul.DropDownMenu li a:hover ul.SideMenu li a {
+
-
  background-color: Menu; /* Side menu unselected items.
+
-
                            Sets the side menu "effective background" color. */
+
-
  color: MenuText;
+
-
}
+
-
div.MenuBar ul li:hover ul.DropDownMenu li:hover ul.SideMenu li a:hover,
+
-
div.MenuBar ul li a:hover ul.DropDownMenu li a:hover ul.SideMenu li a:hover {
+
-
  background-color: Highlight; /* Side menu selected item. */
+
-
  color: HighlightText;
+
-
}
+
-
/*-----------------------------------------------------------------------------------------------*/
+
-
/*Script-Free 3-Level Menu 1.2 Tailor
+
-
  www.CesarDaniel.info
+
-
/*-------------------------------------------------------------------------------------- General */
+
-
body {
+
-
  background: white;
+
-
  color: black;
+
-
  margin: 0;
+
-
  border: 0;
+
-
  padding: 0;
+
-
}
+
 +
</div> <!-- end SubWrapper -->
-
div.MenuBar {
+
<div id="news">
-
  font: 13px arial, helvetica, sans-serif;
+
<h3>The Team</h3>
-
}
+
<center><img src="https://static.igem.org/mediawiki/2009/8/89/Team_verySmall.jpg" alt=""/></center>
-
div.MenuBar ul {
+
<p>This year 13 students started the Heidelberg iGEM team.</p>
-
  font: 13px arial, helvetica, sans-serif; /* Required for IE55. */
+
-
}
+
-
/*--------------------------------------------------------------------------------------- Colors */
+
-
div.MenuBar {
+
-
  background-color: black; /* Selected item. */
+
-
  color: #FFFFFF;
+
-
  border-bottom: 1px solid ButtonShadow;
+
-
}
+
-
div.MenuBar a,
+
-
div.MenuBar ul li:hover ul.DropDownMenu li a,
+
-
div.MenuBar ul li a:hover ul.DropDownMenu li a,
+
-
div.MenuBar ul li:hover ul.DropDownMenu li:hover ul.SideMenu li a,
+
-
div.MenuBar ul li a:hover ul.DropDownMenu li a:hover ul.SideMenu li a {
+
-
  background-color: black; /* Selected item. */
+
-
  color: #FFFFFF;
+
-
}
+
-
div.MenuBar ul li:hover a,
+
-
div.MenuBar ul li a:hover,
+
-
div.MenuBar ul li:hover ul.DropDownMenu li:hover a,
+
-
div.MenuBar ul li a:hover ul.DropDownMenu li a:hover,
+
-
div.MenuBar ul li:hover ul.DropDownMenu li:hover ul.SideMenu li a:hover,
+
-
div.MenuBar ul li a:hover ul.DropDownMenu li a:hover ul.SideMenu li a:hover {
+
-
  background-color: #324CE5; /* Selected item. */
+
-
  color: #FFFFFF;
+
-
}
+
-
div.MenuBar ul li:hover ul.DropDownMenu,
+
-
div.MenuBar ul li a:hover ul.DropDownMenu,
+
-
div.MenuBar ul li:hover ul.DropDownMenu li:hover ul.SideMenu,
+
-
div.MenuBar ul li a:hover ul.DropDownMenu li a:hover ul.SideMenu {
+
-
  background-color: ButtonShadow; /* Sets the drop-down and side menus "effective border" color. */
+
-
}
+
-
/*--------------------------------------------------------------------------------------- Widths */
+
-
/*
+
-
/*
+
<center><embed src="http://www.oneplusyou.com/bb/files/countdown/countdown.swf?co=8fc332&bgcolor=FFFFFF&date_month=11&date_day=09&date_year=0&un=IGEM JAMBOREE 2009&size=normal&mo=10&da=31&yr=2009" type="application/x-shockwave-flash" pluginspage="http://www.macromedia.com/go/getflashplayer" width="240" height="80" wmode="transparent"></embed></center>
-
Menu Bar 1
+
-
Drop-Down Menu #2
+
-
*/
+
-
div.MenuBar#navi ul li:hover ul.DropDownMenu#MB1-DDM4,
+
-
div.MenuBar#navi ul li a:hover ul.DropDownMenu#MB1-DDM4,
+
-
div.MenuBar#navi ul li:hover ul.DropDownMenu#MB1-DDM4 li a,
+
-
div.MenuBar#navi ul li a:hover ul.DropDownMenu#MB1-DDM4 li a {
+
-
  width: 11em; /* Drop-down menu width. */
+
-
}
+
-
div.MenuBar#navi ul li:hover ul.DropDownMenu#MB1-DDM5,
+
-
div.MenuBar#navi ul li a:hover ul.DropDownMenu#MB1-DDM5,
+
-
div.MenuBar#navi ul li:hover ul.DropDownMenu#MB1-DDM5 li a,
+
-
div.MenuBar#navi ul li a:hover ul.DropDownMenu#MB1-DDM5 li a {
+
-
  width: 12em; /* Drop-down menu width. */
+
-
}
+
-
/*...............................................................................................*/
+
<h3> Heidelberg Jamboree Blog</h3>
-
/*
+
<p>
-
Menu Bar 1
+
We will report all important news during the jamboree right away from Cambridge <a href="http://www.bioquant.uni-heidelberg.de/igem/jamboree-blog"> here</a>.</p>
-
Drop-Down Menu #2
+
-
Side Menu #1
+
-
*/
+
-
div.MenuBar#navi ul li:hover ul.DropDownMenu li:hover ul.SideMenu#MB1-DDM2-SM1,
+
-
div.MenuBar#navi ul li a:hover ul.DropDownMenu li a:hover ul.SideMenu#MB1-DDM2-SM1 {
+
-
  left: 15.5em !important; /* Places the side menu to the right of the drop-down menu.
+
-
                            Keep it sync with the drop-down menu width. */
+
-
}
+
-
div.MenuBar#navi ul li:hover ul.DropDownMenu li:hover ul.SideMenu#MB1-DDM2-SM1,
+
-
div.MenuBar#navi ul li a:hover ul.DropDownMenu li a:hover ul.SideMenu#MB1-DDM2-SM1,
+
-
div.MenuBar#navi ul li:hover ul.DropDownMenu li:hover ul.SideMenu#MB1-DDM2-SM1 li a,
+
-
div.MenuBar#navi ul li a:hover ul.DropDownMenu li a:hover ul.SideMenu#MB1-DDM2-SM1 li a {
+
-
  width: 10em; /* Side menu width. */
+
-
}
+
-
/*...............................................................................................*/
+
-
/*
+
-
Menu Bar 1
+
-
Drop-Down Menu #2
+
-
Side Menu #2
+
-
*/
+
-
div.MenuBar#navi ul li:hover ul.DropDownMenu li:hover ul.SideMenu#MB1-DDM2-SM2,
+
-
div.MenuBar#navi ul li a:hover ul.DropDownMenu li a:hover ul.SideMenu#MB1-DDM2-SM2 {
+
-
  left: 15.5em  !important; /* Places the side menu to the right of the drop-down menu.
+
-
                            Keep it sync with the drop-down menu width. */
+
-
}
+
-
div.MenuBar#navi ul li:hover ul.DropDownMenu li:hover ul.SideMenu#MB1-DDM2-SM2,
+
-
div.MenuBar#navi ul li a:hover ul.DropDownMenu li a:hover ul.SideMenu#MB1-DDM2-SM2,
+
-
div.MenuBar#navi ul li:hover ul.DropDownMenu li:hover ul.SideMenu#MB1-DDM2-SM2 li a,
+
-
div.MenuBar#navi ul li a:hover ul.DropDownMenu li a:hover ul.SideMenu#MB1-DDM2-SM2 li a {
+
-
  width: 10em; /* Side menu width. */
+
-
}
+
-
/*...............................................................................................*/
+
-
/*
+
-
Menu Bar 1
+
-
Drop-Down Menu #2
+
-
Side Menu #3
+
-
*/
+
-
div.MenuBar#navi ul li:hover ul.DropDownMenu li:hover ul.SideMenu#MB1-DDM2-SM3,
+
-
div.MenuBar#navi ul li a:hover ul.DropDownMenu li a:hover ul.SideMenu#MB1-DDM2-SM3 {
+
-
  left: 15.5em  !important; /* Places the side menu to the right of the drop-down menu.
+
-
                            Keep it sync with the drop-down menu width. */
+
-
}
+
-
div.MenuBar#navi ul li:hover ul.DropDownMenu li:hover ul.SideMenu#MB1-DDM2-SM3,
+
-
div.MenuBar#navi ul li a:hover ul.DropDownMenu li a:hover ul.SideMenu#MB1-DDM2-SM3,
+
-
div.MenuBar#navi ul li:hover ul.DropDownMenu li:hover ul.SideMenu#MB1-DDM2-SM3 li a,
+
-
div.MenuBar#navi ul li a:hover ul.DropDownMenu li a:hover ul.SideMenu#MB1-DDM2-SM3 li a {
+
-
  width: 10em; /* Side menu width. */
+
-
}
+
-
/*...............................................................................................*/
+
-
</style>
+
<h3> The iGEM idea </h3>
 +
<p>iGEM (international genetically engineered machines competition) is an international competition in synthetic biology, hosted by the MIT in Boston. The aim of this competition is to answer a basic question that Randy Rettberg, the director of iGEM, once described as follows: "Can simple biological systems be built from standard, interchangeable parts and operated in living cells? Or is biology just too complicated to be engineered in this way?"
 +
The iGEM-approach to answer that question is to actually try to engineer biological systems with a proper function. To this end, more than 100 interdisciplinary student teams from all over the world, mainly consisting of undergraduate students in biology, biochemistry, engineering, informatics and mathematics, carry out different projects during the Summer. These projects reach from medical applications, i.e. genetically modified bacteria used in cancer-treatment to environmental and manufacturing projects, i.e. the construction of a watch-like counter consisting of living cells. In contrast to classical genetic engineering where only one gene is transferred from organism A to organism B, synthetic biology goes forward into the construction of whole new systems with a completely new function. Therefore, all iGEM-Teams get access to a gene- Database called registry, where hundreds of different genetic parts with characterized functions are available in a “plug-and-play” –like format. These parts can be simply stuck together to build functional systems.
 +
The rising number of iGEM-Teams over the last years as well as the upcoming public interest in iGEM, the iGEM-Teams’ projects and synthetic biology in general shows, that synthetic biology will for sure have a great impact in many different fields of both scientific research and every-day life.</p>
 +
<p>The contents and design of this wiki are published under the <a href="http://commons.wikimedia.org/wiki/Commons:GNU_Free_Documentation_License">GNU Free Documentation License</a> You are granted the right to copy and modify our work, but you must publish your work under the same type of license while recognizing us the authors.</p>
-
<body>
+
</div> <!-- end news -->
-
<div id="header">iGEM-Team Heidelberg 2009</div>
+
</div> <!-- end Super_main_wrapper -->
-
<div class='MenuBar' id="navi">
+
<script type="text/javascript">
-
<ul>
+
function setPageSize() {
-
<li>
+
len = document.getElementById('super_main_wrapper').offsetHeight;
-
<a href="https://2009.igem.org/Team:Heidelberg" style="color: white">Home
+
document.getElementById('bodyContent').style.height = len + 'px';
-
<!--[if gt IE 6]><!--></a><!--<![endif]-->
+
document.getElementById('SupWrapper').style.height = len + 'px';
-
<!--[if lt IE 7]><table border="0" cellpadding="0" cellspacing="0"><tr><td><![endif]-->
+
document.getElementById('news').style.height = len + 'px';
-
<!--[if lte IE 6]></td></tr></table></a><![endif]-->
+
}
-
</li>
+
</script>
-
<li>
+
-
<a href="https://2009.igem.org/Team:Heidelberg/Team" style="color: white">Team<!--[if gt IE 6]><!--></a><!--<![endif]-->
+
-
<!--[if lt IE 7]><table border="0" cellpadding="0" cellspacing="0"><tr><td><![endif]-->
+
-
<ul class="DropDownMenu" id="MB1-DDM6">
+
-
<li><a href="https://2009.igem.org/Team:Heidelberg/Team"><span><span>Overview</span></span></a></li>
+
-
<li><a href="https://2009.igem.org/Team:Heidelberg/Team_Members#Advisors"><span><span>Advisors</span></span></a></li>
+
-
<li><a href="https://2009.igem.org/Team:Heidelberg/Team_Members#Undergraduates"><span><span>Undergraduates</span></span></a></li>
+
-
<li><a href="https://2009.igem.org/Team:Heidelberg/Team#There_are_many_Universities_-_and_there_is_Heidelberg_..."><span><span>University</span></span></a></li>
+
-
<li><a href="https://2009.igem.org/Team:Heidelberg/Team#DKFZ"><span><span>DKFZ</span></span></a></li>
+
-
<li><a href="https://2009.igem.org/Team:Heidelberg/Team#Bioquant"><span><span>BioQuant</span></span></a></li>
+
-
<li><a href="https://2009.igem.org/Team:Heidelberg/BioRegioRN"><span><span>BioRegion Rhein-Neckar</span></span></a></li>
+
-
</ul>
+
-
<!--[if lte IE 6]></td></tr></table></a><![endif]-->
+
-
</li>
+
-
<li>
+
-
<a href="https://2009.igem.org/Team:Heidelberg/Project" style="color: white">Project<!--[if gt IE 6]><!--></a><!--<![endif]-->
+
-
<!--[if lt IE 7]><table border="0" cellpadding="0" cellspacing="0"><tr><td><![endif]-->
+
-
<ul class="DropDownMenu" id="MB1-DDM1">
+
-
<li><a href="https://2009.igem.org/Team:Heidelberg/Project"><span><span>Overall Project</span></span></a></li>
+
-
<li><a href="https://2009.igem.org/Team:Heidelberg/Notebook/material"><span><span>Material & Methods</span></span></a>
+
-
<li><a href="https://2009.igem.org/Team:Heidelberg/Project/Natural promotors"><span><span>Natural Promotors</span></span></a></li>
+
-
<li><a href="https://2009.igem.org/Team:Heidelberg/Project/Synthetic promotors"><span><span>Synthetic Promotors</span></span></a></li>
+
-
<li><a href="https://2009.igem.org/Team:Heidelberg/Project/Multi-color output"><span><span>Multi-Color Output</span></span></a></li>
+
-
<li><a href="https://2009.igem.org/Team:Heidelberg/Project/Stable cell line"><span><span>Stable Cell Line</span></span></a></li>
+
-
</ul>
+
-
<!--[if lte IE 6]></td></tr></table></a><![endif]-->
+
-
</li>
+
-
 
+
-
<li>
+
-
<a href="https://2009.igem.org/Team:Heidelberg/Parts" style="color: white">Parts<!--[if gt IE 6]><!--></a><!--<![endif]-->
+
-
<!--[if lt IE 7]><table border="0" cellpadding="0" cellspacing="0"><tr><td><![endif]-->
+
-
<ul class="DropDownMenu" id="MB1-DDM2">
+
-
<li><a href="https://2009.igem.org/Team:Heidelberg/Parts"><span><span>Submitted Parts</span></span></a></li>
+
-
<li><a href="https://2009.igem.org/Team:Heidelberg/Parts/Characterization"><span><span>Characterization</span></span></a></li>
+
-
</ul>
+
-
<!--[if lte IE 6]></td></tr></table></a><![endif]-->
+
-
</li>
+
-
<li>
+
-
<a href="https://2008.igem.org/Team:Heidelberg/Modeling" style="color: white">Modeling<!--[if gt IE 6]><!--></a><!--<![endif]-->
+
-
<!--[if lt IE 7]><table border="0" cellpadding="0" cellspacing="0"><tr><td><![endif]-->
+
-
<ul class="DropDownMenu" id="MB1-DDM3">
+
-
<li><a href="https://2009.igem.org/Team:Heidelberg/Modeling"><span><span>Overview</span></span></a></li>
+
-
<li><a href="https://2009.igem.org/Team:Heidelberg/Modeling/Part?"><span><span>Part?</span></span></a></li>
+
-
+
-
</ul>
+
-
<!--[if lte IE 6]></td></tr></table></a><![endif]-->
+
-
</li>
+
-
<li>
+
-
<a href="https://2009.igem.org/Team:Heidelberg/Notebook/Overview" style="color: white">Notebook<!--[if gt IE 6]><!--></a><!--<![endif]-->
+
-
<!--[if lt IE 7]><table border="0" cellpadding="0" cellspacing="0"><tr><td><![endif]-->
+
-
<ul class="DropDownMenu" id="MB1-DDM5">
+
-
<li><a href="https://2009.igem.org/Team:Heidelberg/Notebook/Natural promotors/Notebook"><span><span>Natural Promotors</span></span><!--[if gt IE 6]><!--></a><!--<![endif]-->
+
-
<!--[if lt IE 7]><table border="0" cellpadding="0" cellspacing="0"><tr><td><![endif]-->
+
-
<ul class="SideMenu" id="MB1-DDM2-SM1">
+
-
<li><a href="https://2009.igem.org/Team:Heidelberg/Notebook/Natural promotors/??"><span>??</span></a></li>
+
-
<li><a href="https://2009.igem.org/Team:Heidelberg/Notebook/Natural promotors/Notebook"><span>Notebook</span></a></li>
+
-
</ul>
+
-
<!--[if lte IE 6]></td></tr></table></a><![endif]-->
+
-
</li>
+
-
+
-
<li><a href="https://2009.igem.org/Team:Heidelberg/Notebook/synthetic promotors/Notebook"><span><span>Synthetic Promotors</span></span><!--[if gt IE 6]><!--></a><!--<![endif]-->
+
-
<!--[if lt IE 7]><table border="0" cellpadding="0" cellspacing="0"><tr><td><![endif]-->
+
-
<ul class="SideMenu" id="MB1-DDM2-SM2">
+
-
<li><a href="https://2009.igem.org/Team:Heidelberg/Notebook/synthetic promotors/???"><span>???</span></a></li>
+
-
<li><a href="https://2009.igem.org/Team:Heidelberg/Notebook/synthetic promotors/Notebook"><span>Notebook</span></a></li>
+
-
</ul>
+
-
<!--[if lte IE 6]></td></tr></table></a><![endif]-->
+
-
</li>
+
-
<li><a href="https://2009.igem.org/Team:Heidelberg/Notebook/stable cell line/Notebook"><span><span>Stable Cell Line</span></span><!--[if gt IE 6]><!--></a><!--<![endif]-->
+
-
<!--[if lt IE 7]><table border="0" cellpadding="0" cellspacing="0"><tr><td><![endif]-->
+
-
<ul class="SideMenu" id="MB1-DDM2-SM3">
+
-
<li><a href="https://2009.igem.org/Team:Heidelberg/Notebook/stable cell line"><span>Integration Strategy</span></a></li>
+
-
<li><a href="https://2009.igem.org/Team:Heidelberg/Notebook/stable cell line/Notebook"><span>Notebook</span></a></li>
+
-
</ul>
+
-
<!--[if lte IE 6]></td></tr></table></a><![endif]-->
+
-
</li>
+
-
<li><a href="https://2009.igem.org/Team:Heidelberg/Notebook/multi-color output"><span><span>Multi-Color Output</span></span></a>
+
-
<li><a href="https://2009.igem.org/Team:Heidelberg/Notebook/material"><span><span>Material & Methods</span></span></a>
+
-
<li><a href="https://2009.igem.org/Team:Heidelberg/Notebook/team_meetings"><span><span>Team Meetings</span></span></a>
+
-
<li><a href="https://2009.igem.org/Team:Heidelberg/Notebook/seminar"><span><span>Seminar on Synthetic Biology</span></span></a>
+
-
</ul>
+
-
<!--[if lte IE 6]></td></tr></table></a><![endif]-->
+
-
</li>
+
-
<li style="width: 160px">
+
-
<a href="https://2008.igem.org/Team:Heidelberg/Human_Practice/Project_Overview" style="color: white">Human Practice<!--[if gt IE 6]><!--></a><!--<![endif]-->
+
-
<!--[if lt IE 7]><table border="0" cellpadding="0" cellspacing="0"><tr><td><![endif]-->
+
-
<ul class="DropDownMenu" id="MB1-DDM4">
+
-
                              <li><a href="https://2009.igem.org/Team:Heidelberg/Human_Practice/Project_Overview"><span><span>Project Overview</span></span></a></li>
+
-
      <li><a href="https://2009.igem.org/Team:Heidelberg/Human_Practice/Essay"><span><span>Essay</span></span></a></li>
+
-
                              <li><a href="https://2009.igem.org/Team:Heidelberg/Human_Practice/Surveys"><span><span>Surveys</span></span></a></li>
+
-
+
-
</ul>
+
-
<!--[if lte IE 6]></td></tr></table></a><![endif]-->
+
-
</li>
+
-
 
+
-
<li>
+
-
<a href="https://2009.igem.org/Team:Heidelberg/Sponsors" style="color: white">Sponsors</a>
+
-
</li>
+
-
</ul>
+
-
 
+
-
</div>
+
-
</body>
+
-
</html>
+
-
 
+
-
{|
+
-
|-valign="top" border="0"
+
-
|width="650px" style="padding: 0 20px 0 0;"|
+
-
<!-- ***==Languages==
+
-
[[Image:british_flag.jpg|middle|15px]] [[Team:Heidelberg#Bacterial killers from a genetic construction kit|English]]        [[Image:German_flag_c.jpg|middle|15px]] [[Team:Heidelberg#Bakterienkiller aus dem Gen-Baukasten|Deutsch]]        [[Image:French_flag.jpg‎|middle|15px]] [[Team:Heidelberg#assasins bakterielles d'un kit construction|Français]]        [[Image:Italian_flag.jpg|middle|15px]] [[Team:Heidelberg#Un kit genetico per batteri killer|Italiano]]        [[Image:Spanish_flag.jpg|middle|15px]] [[Team:Heidelberg#Bacterias matadoras creadas a partir de un kit de construcción genética|Español]]        [[Image:Portugese_flag.jpg|middle|15px]] [[Team:Heidelberg#Bactérias predadoras a partir de um kit deconstrução genética|Português]]        [[Image:Catalonia_flag.jpg|middle|15px]] [[Team:Heidelberg#Bacteries assassines generades a partir d’ un kit de construcció genètica|Català]]        [[Image:Poland_flag.jpg|middle|15px]] [[Team:Heidelberg#Bakteryjni zabójcy z taśmy montażowej|Polski]]        [[Image:Lithuanin_flag.jpg|middle|15px]] [[Team:Heidelberg#Genetiškai sukonstruoti bakterijų žudikai|Lietuvių]]
+
-
 
+
-
[[Image:Russian_flag.jpg|middle|15px]] [[Team:Heidelberg#Ликвидатор бактерий созданный из генетических материалов|Pусский]]        [[Image:China_flag.jpg|middle|15px]] [[Team:Heidelberg#由基因元件拼装的细菌杀手|中文]]        [[Image:Japanese_flag.jpg|middle|15px]] [[Team:Heidelberg#殺し屋のバクテリアを遺伝子コンストラクトキットで作る|日本語]]*** -->
+
-
 
+
-
==Project Abstract==
+
-
 
+
-
<p>Early efforts in synthetic biology have focused on using prokaryotes as an engineering
+
-
chassis, whereas novel developments indicate a shift towards an eukaryotic synthetic biology.
+
-
The value of eukaryotic synthetic biology is manifold: in medical research, it will accomplish
+
-
new ways of gene therapy; in plant biotechnology, it can contribute to the struggle for a
+
-
sustainable food and energy solution. Finally, the ability to assemble and analyze complicated
+
-
biological systems step by step will allow a revolutionary approach to fundamental research.</p>
+
-
<p>Establishing new standards for iGEM, the Heidelberg 2009 team will be concerned with
+
-
developing ways for measuring promoters in mammalian cells, a default chassis and a first
+
-
evaluation of the recently postulated BioBrick beta proposal 2 (Tom Knight).</p>
+
-
<p>Considering the importance of controlling gene expression, our team's work will focus on
+
-
natural and synthetic mammalian promoters. Our vision is to provide the synthetic biology
+
-
community with a methodical library of such promoters (with different output strength and
+
-
sensitivity to different regulatory proteins) and a model which can provide guidance for the
+
-
development of further synthetic promoters. Our efforts will therefore, from the very
+
-
beginning, equally entail bioinformatics and wet lab work.</p>
+
-
<p>As an early application for such a promoter library, our team will attempt to develop an assay
+
-
which can monitor the activity of several pathways in one cell. Such an assay is of high value
+
-
for biological research as it can be applied for studying stem cell differentiation, tumor
+
-
formation, apoptosis and autophagy as well as drug response. Our team will apply the assay
+
-
towards testing several anti-cancer drugs. A computer-based model will lay the foundations
+
-
for future work. It will help us to build a logic that integrates the promoter activities and will allow us to predict the possibilities of a single functional output.</p>
+
-
 
+
-
|width="250px"|
+
-
==Our Team==
+
-
 
+
-
[[Image:Team_verySmall.jpg]]
+
-
 
+
-
This year 13 students are part of the [[Team: Heidelberg/Team | Heidelberg iGem Team]].
+
-
|}
+
</body></html>

Latest revision as of 10:13, 25 October 2010

Design your own promoter

Here we present a new approach to synthesize synthetic promoters using a database that predicts the position of conserved promoter binding sequences. We coded an easy to use interface that is available for public use.

HEARTBEAT: Start Design

Mammalian biobricks

Mammalian synthetic biology has huge potential, but it is in need of new standards and of systematic construction of comprehensive part libraries. Learn more about our new mission on the project page.

Go To Project Page

Mission accomplished

We developed two novel, in silico guided methods for the rational construction of synthetic promoters and experimentally validated the predicted results. View our graphical abstract and get an overview of the achievements of our team.

Download Graphical Abstract

iGEM Team Heidelberg 2009: First Runner-Up, Winner of the PoPS Prize, Finalist, Best Wiki, Best New Standard

Mission: Spybricks

The Heidelberg 2009 team attempts to take Synthetic Biology a step further by introducing novel concepts for the work with mammalian cells, defining Synthetic Mammalian Biology (SMB). We are the first-ever team at iGEM trying to systematically develop a BioBrick library for use in mammalian cells. Being the first team of Heidelberg's "SMB initiative", we emphasize the central position of gene regulation. Our team's work therefore focused on synthetic mammalian promoters. We provide the foundations of a methodical library of such promoters, together with novel standards for their characterization. We have developed an avant-garde method for the synthesis of mammalian promoters, and a bioinformatical model predicting such promoters which we test in vivo. Go to Project Abstract

Team

Thirteen students and nine advisors are working on this four month project. We split up into several subgroups whose focus and results you can follow on the Notebook and Project pages. If you want to know more about the subgroups and the people involved, meet us on our Team page and let's get to know each other better at the Jamboree in Boston.

HEARTBEAT

Our team worked on a computational approach for the rational design of promoter libraries. Similar to existing methods which predict spatial preferences of transcription factor binding sites (TFBS) by detecting statistically overrepresented motives we used Promotersweep to analyze and process the information of over 4000 human promoter sequences.

Eukaryopedia

You are working in bacteria and never heard of U2-OS, SREBP or CYP1A1? Don't worry! Browse our Eukaryopedia and enter the world of mammalian BioBricks.

Parts

Our team submits a library of thoroughly characterized and standardized parts. Therefore contributing towards the establishment of a new standard for eukaryotic cells in the iGEM context.

Sponsors

We thank our great sponsors, who supported us financially and made this project a success. Go here to find out more about them.

The Team

This year 13 students started the Heidelberg iGEM team.

Heidelberg Jamboree Blog

We will report all important news during the jamboree right away from Cambridge here.

The iGEM idea

iGEM (international genetically engineered machines competition) is an international competition in synthetic biology, hosted by the MIT in Boston. The aim of this competition is to answer a basic question that Randy Rettberg, the director of iGEM, once described as follows: "Can simple biological systems be built from standard, interchangeable parts and operated in living cells? Or is biology just too complicated to be engineered in this way?" The iGEM-approach to answer that question is to actually try to engineer biological systems with a proper function. To this end, more than 100 interdisciplinary student teams from all over the world, mainly consisting of undergraduate students in biology, biochemistry, engineering, informatics and mathematics, carry out different projects during the Summer. These projects reach from medical applications, i.e. genetically modified bacteria used in cancer-treatment to environmental and manufacturing projects, i.e. the construction of a watch-like counter consisting of living cells. In contrast to classical genetic engineering where only one gene is transferred from organism A to organism B, synthetic biology goes forward into the construction of whole new systems with a completely new function. Therefore, all iGEM-Teams get access to a gene- Database called registry, where hundreds of different genetic parts with characterized functions are available in a “plug-and-play” –like format. These parts can be simply stuck together to build functional systems. The rising number of iGEM-Teams over the last years as well as the upcoming public interest in iGEM, the iGEM-Teams’ projects and synthetic biology in general shows, that synthetic biology will for sure have a great impact in many different fields of both scientific research and every-day life.

The contents and design of this wiki are published under the GNU Free Documentation License You are granted the right to copy and modify our work, but you must publish your work under the same type of license while recognizing us the authors.

Retrieved from "http://2009.igem.org/Team:Heidelberg"