Team:KULeuven/Zandbak/Home

From 2008.igem.org

(Difference between revisions)

Latest revision as of 13:54, 5 September 2008

Result:

Home
The Team
Research Labs and Groups Students Instructors Advisors Pictures
The Project
Summary Components
Input Output Filter Invertimer Reset Cell Death Memory
End Evaluation Literature Brainstorm
Ethics
Submitted Parts
Listing Sandbox
Modeling
Overview Kinetic Constants Components
Output Filter Invertimer Reset Cell Death Memory
Full Model Sensitivity Analysis Multi-cell Model Diffusion
Data Analysis
Overview New Parts
GFP (LVA-tag) T7 (UmuD-tag) Antisense LuxI Celldeath (ccdB) Hybrid Promotor
Components
Input Output Filter Invertimer Reset Cell Death Memory
Full Model
Software
Multi-cell Toolbox Simbiology2LaTeX Toolbox
Notebook
Calendar Summer Holidays Reports
Daily Weekly
Lab Data
Freezer Primers Ligation
Tools Press Guestbook

To have a dropdown for your own team copy over all of the content below. It might be needed to adjust a thing or two. Comments have been added throughout the code what must be changed.

Inspirational websites:

[http://javascript-array.com/scripts/simple_drop_down_menu/ Most basic dropdown menu, with no submenu's]
[http://jquery.com/ The javascript library used to add effects and optimise the dropdown]
[http://www.tyssendesign.com.au/articles/css/centering-a-dropdown-menu/ How to center a ul list effectively]

The dropdown has been created and developed by the KULeuven team.

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<ul>
	<li>
		<a href="https://2008.igem.org/Team:KULeuven">Home</a>
	</li>
	<li>
		<a>The Team</a>
		<div>
			<a href="https://2008.igem.org/Team:KULeuven/Team/LabsandGroups">Research Labs and Groups</a>
			<a href="https://2008.igem.org/Team:KULeuven/Team/Students">Students</a>
			<a href="https://2008.igem.org/Team:KULeuven/Team/Instructors">Instructors</a>
			<a href="https://2008.igem.org/Team:KULeuven/Team/Advisors">Advisors</a>
                        <a href="https://2008.igem.org/Team:KULeuven/Team/Pictures">Pictures</a>
		</div>
	</li>
	<li>
		<a>The Project</a>
		<div>
			<a href="https://2008.igem.org/Team:KULeuven/Project">Summary</a>
			<span>
				<a>Components</a>
				<div>
					<a href="https://2008.igem.org/Team:KULeuven/Project/Input">Input</a>
					<a href="https://2008.igem.org/Team:KULeuven/Project/Output">Output</a>
					<a href="https://2008.igem.org/Team:KULeuven/Project/Filter">Filter</a>
					<a href="https://2008.igem.org/Team:KULeuven/Project/Inverter">Invertimer</a>
					<a href="https://2008.igem.org/Team:KULeuven/Project/Reset">Reset</a>
					<a href="https://2008.igem.org/Team:KULeuven/Project/CellDeath">Cell Death</a>
					<a href="https://2008.igem.org/Team:KULeuven/Project/Memory">Memory</a>
				</div>
			</span>
                        <a href="https://2008.igem.org/Team:KULeuven/Evaluation">End Evaluation</a>
			<a href="https://2008.igem.org/Team:KULeuven/Literature">Literature</a>
                        <a href="https://2008.igem.org/Team:KULeuven/Brainstorm">Brainstorm</a>
		</div>
	</li>
        <li>
		<a>Ethics</a>
		<div>

		</div>
	</li>
	<li>
		<a>Submitted Parts</a>
		<div>
			<a href="https://2008.igem.org/Team:KULeuven/Parts">Listing</a>
			<a href="http://partsregistry.org/cgi/partsdb/pgroup.cgi?pgroup=iGEM2008&group=KULeuven">Sandbox</a>
		</div>
	</li>
	<li>
		<a>Modeling</a>
		<div>
			<a href="https://2008.igem.org/Team:KULeuven/Model/Overview">Overview</a>
			<a href="https://2008.igem.org/Team:KULeuven/Model/KineticConstants">Kinetic Constants</a>
			<span>
				<a>Components</a>
				<div>
					<a href="https://2008.igem.org/Team:KULeuven/Model/Output">Output</a>
					<a href="https://2008.igem.org/Team:KULeuven/Model/Filter">Filter</a>
					<a href="https://2008.igem.org/Team:KULeuven/Model/Inverter">Invertimer</a>
					<a href="https://2008.igem.org/Team:KULeuven/Model/Reset">Reset</a>
					<a href="https://2008.igem.org/Team:KULeuven/Model/CellDeath">Cell Death</a>
					<a href="https://2008.igem.org/Team:KULeuven/Model/Memory">Memory</a>
				</div>
			</span>
			<a href="https://2008.igem.org/Team:KULeuven/Model/FullModel">Full Model</a>
                        <a href="https://2008.igem.org/Team:KULeuven/Model/Sensitivity">Sensitivity Analysis</a>
			<a href="https://2008.igem.org/Team:KULeuven/Model/MultiCell">Multi-cell Model</a>
			<a href="https://2008.igem.org/Team:KULeuven/Model/Diffusion">Diffusion</a>
		</div>
	</li>
	<li>
		<a>Data Analysis</a>
		<div>
			<a href="https://2008.igem.org/Team:KULeuven/Data/Overview">Overview</a>
			<span>
				<a>New Parts</a>
				<div>
					<a href="https://2008.igem.org/Team:KULeuven/Data/GFP">GFP (LVA-tag)</a>
					<a href="https://2008.igem.org/Team:KULeuven/Data/T7">T7 (UmuD-tag)</a>
					<a href="https://2008.igem.org/Team:KULeuven/Data/Antisense">Antisense LuxI</a>
					<a href="https://2008.igem.org/Team:KULeuven/Data/ccdB">Celldeath (ccdB)</a>
					<a href="https://2008.igem.org/Team:KULeuven/Data/HybridProm">Hybrid Promotor</a>
				</div>
			</span>
                        <span>
				<a>Components</a>
				<div>
					<a href="https://2008.igem.org/Team:KULeuven/Data/Input">Input</a>
					<a href="https://2008.igem.org/Team:KULeuven/Data/Output">Output</a>
					<a href="https://2008.igem.org/Team:KULeuven/Data/Filter">Filter</a>
					<a href="https://2008.igem.org/Team:KULeuven/Data/Inverter">Invertimer</a>
					<a href="https://2008.igem.org/Team:KULeuven/Data/Reset">Reset</a>
					<a href="https://2008.igem.org/Team:KULeuven/Data/CellDeath">Cell Death</a>
					<a href="https://2008.igem.org/Team:KULeuven/Data/Memory">Memory</a>
				</div>
			</span>
			<a href="https://2008.igem.org/Team:KULeuven/Data/FullModel">Full Model</a>
		</div>
	</li>
        <li>
		<a>Software</a>
		<div>
			<a href="https://2008.igem.org/Team:KULeuven/Software/MultiCell">Multi-cell Toolbox</a>
			<a href="https://2008.igem.org/Team:KULeuven/Software/Simbiology2LaTeX">Simbiology2LaTeX Toolbox</a>
		</div>
	</li>
	<li>
		<a>Notebook</a>
		<div>
			<a href="https://2008.igem.org/Team:KULeuven/Meeting_Calendar">Calendar</a>
                        <a href="https://2008.igem.org/Team:KULeuven/SummerHolidays">Summer Holidays</a>
			<span>
				<a>Reports</a>
				<div>
					<a href="https://2008.igem.org/Team:KULeuven/Meeting Reports">Daily</a>
					<a href="https://2008.igem.org/Team:KULeuven/Weekly Meetings">Weekly</a>
				</div>
			</span>
			<span>
				<a>Lab Data</a>
				<div>
					<a href="https://2008.igem.org/Team:KULeuven/Freezer">Freezer</a>
					<a href="https://2008.igem.org/Team:KULeuven/Primers">Primers</a>
					<a href="https://2008.igem.org/Team:KULeuven/Ligation">Ligation</a>
				</div>
			</span>
			<a href="https://2008.igem.org/Team:KULeuven/Tools">Tools</a>
			<a href="https://2008.igem.org/Team:KULeuven/Press">Press</a>
			<a href="https://2008.igem.org/Team:KULeuven/Guestbook">Guestbook</a>
                        
		</div>
	</li>
        
</ul>
</div>
</div>
</html>

Wellcome to the KULeuven IGEM 2008 Homepage!

Enjoy the hard work we delivered, and feel free to contact us at igem@kuleuven.be

Synthetic biology is a new challenge in biosciences. It combines biology and engineering principles to design and build new biological functions and systems. Examples are abound: cancer cell invading bacteria, microbes that take pictures, antimalarial drug producers,... The advantage of using living systems for these purposes is that, once they are designed and built, they are self-reproducible. The challenge, however lies exactly within the design and construction: making biological circuits and devices as robust and predictive as their electrical counterparts. ...

Read the whole page

The international Genetically Engineered Machine competition (iGEM) or iGEM competition is a synthetic biology competition for multidisciplinary teams of undergraduate students. It was first organized in 2004 by Drew Endy, Randy Rettberg and Tom Knight of MIT with two goals in mind: to yield new ideas in synthetic biology and to form the future researchers in this new scientific community. Whereas 5 US teams competed in 2004, the 2007 edition already had 750 students and advisors grouped in 54 teams from 19 countries. This year, the competition already counts 83 teams!

The core of the iGEM competition is to design and build a “new genetic machine” with BioBricks. BioBricks are standardized, off the shelf biological parts that are used by genetic network designers. All BioBricks that were made during previous iGEM competitions are registered and documented in the Registry of Standard Biological Parts. Each iGEM competition thus starts from the efforts of the previous years.

Leuven

KULeuven

The University of Leuven was founded almost six hundred years ago. Throughout the centuries people have always occupied center stage at the Catholic University of Leuven. The University's academic fame has attracted scholars and scientists as Justus Lipsius, Gerard Mercator and Andreas Vesalius who have all made valuable contribution to the European intellectual life. The University of Leuven can look back on a glorious past, but it also moves with the times. The University's educational concept is modern, with research activities focused on the needs and aspirations of contemporary people and society. The University of Leuven is famous not just within the borders of Belgium, but far beyond as well. Being a very lively city of and for students, Leuven aspires to maintain that reputation. In contrast to most university cities, Leuven does not have a closed campus. The University buildings are spread throughout the city and were originally built for completely different purposes.

The Team

Meet the team

The KULeuven team consists of 12 enthusiastic students selected out of three faculties, 4 civil engineers, 4 bio-engineers and 4 biochemists. More information on the team members can be found on the Students homepage or by scrolling over the heads of the students.

Maarten Breckpot: Maarten Breckpot

Studies:
1st Master of Applied Sciences and Engineering – Mathematical Engineering
Country:
Belgium
Nick Van Damme: Nick Van Damme

Studies:
1st Master of Applied Sciences and Engineering – Mathematical Engineering
Country:
Belgium
Benjamien Moeyaert: Benjamien Moeyaert

Studies:
3rd Bachelor of Biochemistry and Biotechnology
Country:
Belgium
Stefanie Roberfroid: Stefanie Roberfroid

Studies:
3rd Bachelor of Bioscience Engineering – Biomolecular Engineering
Country:
Belgium
Dries Vercruysse: Dries Vercruysse

Studies:
1st Master of Applied Sciences and Engineering - Nanoscience and Nanotechnology
Country:
Belgium
Andim Doldurucu: Andim Doldurucu

Studies:
1st Master of Bioscience Engineering – Nanoscience and Nanotechnology
Country:
Turkey
Hanne Tytgat: Hanne Tytgat

Studies:
3rd Bachelor of Biochemistry and Biotechnology
Country:
Belgium
Elke Van Assche: Elke Van Assche

Studies:
3rd Bachelor of Bioscience Engineering – Biomolecular Engineering
Country:
Belgium
Jan Mertens: Jan Mertens

Studies:
1st Master of Bioscience Engineering – Biomolecular Engineering
Country:
Belgium
Nathalie Busschaert: Nathalie Busschaert

Studies:
3rd Bachelor of Chemistry
Country:
Belgium
Jonas Demeulemeester: Jonas Demeulemeester

Studies:
1st Master of Biochemistry and Biotechnology
Country:
Belgium
Antoine Vandermeersch: Antoine Vandermeersch

Studies:
2nd and 3rd Bachelor of Applied Sciences and Engineering – Electrical and Materials Engineering
Country:
Belgium

The Project

Project

Our team’s project is Dr. Coli, an E. coli bacterium that produces a drug when and where it is needed in the human body. It does this in an intelligent way, such that the drug production meets the individual patient’s needs. And when the patient is cured, Dr. Coli eliminates itself from the body. To achieve this goal we divided our project into several subsystems. A detailed description about every subsystem can be found by clicking on one of the following pictograms.

scroll over the pictograms to get a short description or click on them to go to the corresponding page

Modeling

Introducing engineering
Quest for parameters
Building the model

The most important assets of our project are the different control mechanisms. Since these are very much dependent on kinetic and other constants, Dr. Coli heavily relies on proper modeling. Our Dry-Lab team has spend its summer setting up a computational model of Dr. Coli to completely simulate his actions. We constructed models of all the subsystems (components) in both CellDesigner and Matlab. All these subsystems have been characterised by their ODE's and have been simulated thoroughly. Together they form our full model of Dr. Coli. These models are only capable of simulating the behaviour of 1 Dr. Coli cell, so we implemented our own Software Tool that can work with multi cellular models.

Interesting Links

[http://www.nature.com/nature/comics/syntheticbiologycomic/index.html Synthetic Biology comic]
[http://partsregistry.org/Main_Page Registry of Standard Biological Parts]
[http://www.kuleuven.be/bioscenter BioSCENTer]

Fun Stuff

Bacteria Pairs

Bacteria Solitaire

Double Helix

PCR song

Notebook (November)

November
M	T	W	T	F	S	S
					[http://2008.igem.org/wiki/index.php?title=Team:KULeuven/1_November_2008&preload=:Team:KULeuven/Tools/New_Day&action=edit 1]	[http://2008.igem.org/wiki/index.php?title=Team:KULeuven/2_November_2008&preload=:Team:KULeuven/Tools/New_Day&action=edit 2]
[http://2008.igem.org/wiki/index.php?title=Team:KULeuven/3_November_2008&preload=:Team:KULeuven/Tools/New_Day&action=edit 3]	[http://2008.igem.org/wiki/index.php?title=Team:KULeuven/4_November_2008&preload=:Team:KULeuven/Tools/New_Day&action=edit 4]	[http://2008.igem.org/wiki/index.php?title=Team:KULeuven/5_November_2008&preload=:Team:KULeuven/Tools/New_Day&action=edit 5]	[http://2008.igem.org/wiki/index.php?title=Team:KULeuven/6_November_2008&preload=:Team:KULeuven/Tools/New_Day&action=edit 6]	[http://2008.igem.org/wiki/index.php?title=Team:KULeuven/7_November_2008&preload=:Team:KULeuven/Tools/New_Day&action=edit 7]	[http://2008.igem.org/Team:KULeuven/8_November_2008 8]	[http://2008.igem.org/Team:KULeuven/9_November_2008 9]
[http://2008.igem.org/wiki/index.php?title=Team:KULeuven/10_November_2008&preload=:Team:KULeuven/Tools/New_Day&action=edit 10]	[http://2008.igem.org/wiki/index.php?title=Team:KULeuven/11_November_2008&preload=:Team:KULeuven/Tools/New_Day&action=edit 11]	[http://2008.igem.org/wiki/index.php?title=Team:KULeuven/12_November_2008&preload=:Team:KULeuven/Tools/New_Day&action=edit 12]	[http://2008.igem.org/wiki/index.php?title=Team:KULeuven/13_November_2008&preload=:Team:KULeuven/Tools/New_Day&action=edit 13]	[http://2008.igem.org/wiki/index.php?title=Team:KULeuven/14_November_2008&preload=:Team:KULeuven/Tools/New_Day&action=edit 14]	[http://2008.igem.org/wiki/index.php?title=Team:KULeuven/15_November_2008&preload=:Team:KULeuven/Tools/New_Day&action=edit 15]	[http://2008.igem.org/wiki/index.php?title=Team:KULeuven/16_November_2008&preload=:Team:KULeuven/Tools/New_Day&action=edit 16]
[http://2008.igem.org/wiki/index.php?title=Team:KULeuven/17_November_2008&preload=:Team:KULeuven/Tools/New_Day&action=edit 17]	[http://2008.igem.org/wiki/index.php?title=Team:KULeuven/18_November_2008&preload=:Team:KULeuven/Tools/New_Day&action=edit 18]	[http://2008.igem.org/wiki/index.php?title=Team:KULeuven/19_November_2008&preload=:Team:KULeuven/Tools/New_Day&action=edit 19]	[http://2008.igem.org/wiki/index.php?title=Team:KULeuven/20_November_2008&preload=:Team:KULeuven/Tools/New_Day&action=edit 20]	[http://2008.igem.org/wiki/index.php?title=Team:KULeuven/21_November_2008&preload=:Team:KULeuven/Tools/New_Day&action=edit 21]	[http://2008.igem.org/wiki/index.php?title=Team:KULeuven/22_November_2008&preload=:Team:KULeuven/Tools/New_Day&action=edit 22]	[http://2008.igem.org/wiki/index.php?title=Team:KULeuven/23_November_2008&preload=:Team:KULeuven/Tools/New_Day&action=edit 23]
[http://2008.igem.org/wiki/index.php?title=Team:KULeuven/24_November_2008&preload=:Team:KULeuven/Tools/New_Day&action=edit 24]	[http://2008.igem.org/wiki/index.php?title=Team:KULeuven/25_November_2008&preload=:Team:KULeuven/Tools/New_Day&action=edit 25]	[http://2008.igem.org/wiki/index.php?title=Team:KULeuven/26_November_2008&preload=:Team:KULeuven/Tools/New_Day&action=edit 26]	[http://2008.igem.org/wiki/index.php?title=Team:KULeuven/27_November_2008&preload=:Team:KULeuven/Tools/New_Day&action=edit 27]	[http://2008.igem.org/wiki/index.php?title=Team:KULeuven/28_November_2008&preload=:Team:KULeuven/Tools/New_Day&action=edit 28]	[http://2008.igem.org/wiki/index.php?title=Team:KULeuven/29_November_2008&preload=:Team:KULeuven/Tools/New_Day&action=edit 29]	[http://2008.igem.org/wiki/index.php?title=Team:KULeuven/30_November_2008&preload=:Team:KULeuven/Tools/New_Day&action=edit 30]

Search in our wiki pages:

Custom Search

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Amount:

@@ Line 1: / Line 1: @@
-{{:Team:KULeuven/Tools/Header}}
+{{:Team:KULeuven/Tools/Navigation_Bar}}
-<!-- Explaining the structure:
-The homepage is divides into a main and a sidebar area, the sidebar is seen to the right, while the main area keeps to the left.
-The main area is further divided by a header, containing the wellcome word, and the main-container, which will hold all the blocks (kuleuven, team, ...).
-The sidebar is also divided into a sidebar-header and sidebar-content.
--->
 <html lang="en">
@@ Line 17: / Line 7: @@
 <!-- CSS -->
-<style type="text/css" media="screen, projection">
+<style type="text/css">
-	@import url(http://www.student.kuleuven.be/~s0173901/wiki/css/home.css);
+	@import url('http://www.student.kuleuven.be/~s0173901/wiki/css/experimental/home.css');
-	@import url(http://www.student.kuleuven.be/~s0173901/wiki/css/ui.tabs.css);
+	@import url('http://www.student.kuleuven.be/~s0173901/wiki/css/ui.menubar.css');
-	@import url(http://www.google.com/cse/api/branding.css);
+	@import url('http://www.student.kuleuven.be/~s0173901/wiki/css/experimental/ui.calendar.css');
+	@import url('http://www.student.kuleuven.be/~s0173901/wiki/css/experimental/ui.tabs.css');
+        @import url('http://www.student.kuleuven.be/~s0160104/iGEM/teammap.css');
+        @import url('http://www.google.com/cse/api/branding.css');
 #bioscenter-box {background: #5cc7dd;}
@@ Line 43: / Line 36: @@
 });
 </script>
 <script language="JavaScript" type="text/javascript">
 function CngTxt(id,txt){
@@ Line 50: / Line 44: @@
 }
 </script>
 <script type="text/javascript">
 Image1= new Image(665,499)
 Image1.src = "https://static.igem.org/mediawiki/2008/1/17/StudentsKULBlackWhite.JPG"
 </script>
-</html>
-__NOTOC__
+<script type="text/javascript">
+function popup(mylink, windowname)
+{
+if (! window.focus)return true;
+var href;
+if (typeof(mylink) == 'string')
+   href=mylink;
+else
+   href=mylink.href;
+window.open(href, windowname, 'width=640,height=480,scrollbars=yes');
+return false;
+}
+</script>
+</html>
+<!--
 Work to be done:
@@ Line 65: / Line 74: @@
 * Countdown/Number Visitors/...
 * Move css files internal
-* CSS remark: smaller font tabs
 * ...
 Global:
+* http://www.webdeveloper.com/forum/showthread.php?t=32317
+* http://ajaxian.com/archives/favicon-access-via-javascript
 * Breadcrumb navigation?
 ** [http://www.eastonmass.net/tullis/WebsiteNavigation/WebsiteNavigationPaper.htm A study of website navigation =P]
@@ Line 75: / Line 85: @@
 * Wiki faq, tips and tricks for other teams?
 * Global css file (h1, h2, ... p, ...): visit [[Team:KULeuven/Zandbak/Global]]
-** ul needs 1em more paddin-left;
+** p needs 1em more padding-left
-** Error: use of # in lists needs padding
+** unknown error in project: input, yet not occuring in zandbak/global
-** Error: concreties -> Project D
+** tables need css -> class="wikitable"
-** Error: concreties -> reset mechanism het prentje
+** constantlactonasepictogram
-** Error: project -> Summary needs img + img[float="left"]: margin-left: 0;
-** Error: Components bar
-** Error: h3 needs border-bottom applied to only span child element
-** Remark: error in freezer
-** Remark: images need extra padding to push back text
-** Remark (unrelated): output icon modeling is small
 * ...
+-->
+__NOTOC__
+<div id="home">
-<div id="kul">
+<html>
-<!-- MAIN -->
+<!-- HEADER -->
-<div id="kul-main">
+<div id="home-header">
-<!-- MAIN HEADER -->
+<!-- COUNTDOWN -->
-<div id="kul-main-header">
+<div class="countdown">
-<h3>Wellcome to the KULeuven 2008 iGEM team page!</h3>
+<embed src="http://www.oneplusyou.com/bb/files/countdown/countdown.swf?co=075A90&date_month=11&date_day=09&date_year=1&un=IGEM JAMBOREE 2008&size=normal&mo=11&da=09&yr=2008" type="application/x-shockwave-flash" pluginspage="http://www.macromedia.com/go/getflashplayer" width="240" height="80" wmode="transparent"></embed>
-<p>
-The ''2008 iGEM team of the Katholieke Universiteit Leuven'' works on '''a bacterial drug delivery system''', for instance for the production of a peptide such as vasoactive intestinal peptide as a potential treatment for Crohn's disease. The bacterial drug delivery system will have ''several advantages over classical drugs''. These are (a) the bacterium will produce the exact amount of drug necessary for each individual by means of a feedback control mechanism, (b) the bacterium will die upon a long symptomless period and (c) a possible development towards drugs being taken up in the bloodstream.
-</p>
-<p>
-...
-</p>
 </div>
-<!-- END MAIN HEADER -->
-<html>
+<h2>Wellcome to the KULeuven IGEM 2008 Homepage!</h2>
-<!-- MAIN CONTAINER -->
+<p>Enjoy the hard work we delivered, and feel free to contact us at <a href="mailto:igem@kuleuven.be?SUBJECT=IGEM 2008">igem@kuleuven.be</a></p>
-<div id="kul-main-container">
-<!-- MAIN CONTENT -->
+</div>
-<div id="kul-main-content">
+<!-- MAIN -->
+<div id="home-main">
+<!-- CONTENT -->
+<div id="home-content">
-<!-- BIOSCENTER BOX -->
+<!-- CONTENT: BIOSCENTER -->
 <div id="bioscenter-box">
-	<h4>BioScenter</h4>
+	<h3>Synthetic Biology: BioSCENTer and iGEM</h3>
 	<ul>
 	<li><a href="#bioscenter-1"><span>On Synthetic Biology</span></a></li>
@@ Line 117: / Line 122: @@
 	</ul>
+<!-- CONTENT: BIOSCENTER: SYNTHETIC BIOLOGY -->
 <div id="bioscenter-1">
 <p>
-<a href="http://syntheticbiology.org">Synthetic biology</a> is a new challenge in biosciences. It combines biology and engineering principles to design and build new biological functions and systems. Examples are abound: cancer cell invading bacteria, microbes that take pictures, antimalarial drug producers,... The advantage of using living systems for these purposes is that, once they are designed and built, they are self-reproducible. The challenge, however lies exactly within the design and construction: making biological circuits and devices as robust and predictive as their electrical counterparts. ...
+<a href="http://syntheticbiology.org">Synthetic biology</a> is a new challenge in biosciences. It combines biology and engineering principles to design and build new biological functions and systems. Examples are abound: cancer cell invading bacteria, microbes that take pictures, antimalarial drug producers,... The advantage of using living systems for these purposes is that, once they are designed and built, they are self-reproducible. The challenge, however lies exactly within the design and construction: making biological circuits and devices as robust and predictive as their electrical counterparts. <a href="http://www.kuleuven.be/bioscenter/igem/?go=syntheticbiology">...</a>
 </p>
-<ul class="bioscenter" style="float: right; margin-right: 20px;">
+<ul class="more">
 <li><a href="http://www.kuleuven.be/bioscenter/igem/?go=syntheticbiology">Read the whole page</a></li>
 </ul>
 </div>
+<!-- CONTENT: BIOSCENTER: IGEM -->
 <div id="bioscenter-2">
-<img style="float: right; margin-right: 20px; margin-left: 10px; margin-bottom: 0; margin-top: 15px" src="https://static.igem.org/mediawiki/2008/1/1e/IGEM_logo_1.png" />
+<img class="floatright" src="https://static.igem.org/mediawiki/2008/1/1e/IGEM_logo_1.png" />
 <p>
 The <a href="https://2008.igem.org">international Genetically Engineered Machine competition (iGEM) or iGEM competition</a> is a synthetic biology competition for multidisciplinary teams of undergraduate students. It was first organized in 2004 by Drew Endy, Randy Rettberg and Tom Knight of MIT with two goals in mind: to yield new ideas in synthetic biology and to form the future researchers in this new scientific community. Whereas 5 US teams competed in 2004, the 2007 edition already had 750 students and advisors grouped in 54 teams from 19 countries. This year, the competition already counts 83 teams!
@@ Line 133: / Line 140: @@
 The core of the iGEM competition is to design and build a “new genetic machine” with <a href="http://partsregistry.org">BioBricks</a>. BioBricks are standardized, off the shelf biological parts that are used by genetic network designers. All BioBricks that were made during previous iGEM competitions are registered and documented in the Registry of Standard Biological Parts. Each iGEM competition thus starts from the efforts of the previous years.
 </p>
-<ul class="bioscenter" style="float: right; margin-right: 20px;">
+<ul class="more">
 <li><a href="http://www.kuleuven.be/bioscenter/igem/?go=competition">Read the whole page</a></li>
 <li><a href="http://www.kuleuven.be/bioscenter/igem/?go=people2008">More on our team</a></li>
@@ Line 140: / Line 147: @@
 </div>
-<!-- END BIOSCENTER BOX -->
-<!-- KULEUVEN BOX  -->
+<!-- CONTENT: KULEUVEN -->
 <div id="kuleuven-box">
-	<h4>Leuven</h4>
+	<h3>Leuven</h3>
 	<ul>
-	<li><a href="#kuleuven-1"><span>Leuven 1</span></a></li>
+	<li><a href="#kuleuven-1"><span>KULeuven</span></a></li>
 	</ul>
+<!-- CONTENT: KULEUVEN DESCRIPTION -->
 <div id="kuleuven-1">
-<img style="float: right; margin-right: 20px; margin-left: 10px; margin-bottom: 0; margin-top: 15px" width="300" heigth="300" src="https://static.igem.org/mediawiki/2008/5/59/Leuven_by_night.jpg" />
+<img class="floatright" width="300" heigth="300" src="https://static.igem.org/mediawiki/2008/5/59/Leuven_by_night.jpg" />
 <p>
-The Katholieke Universiteit Leuven (KULeuven) was founded almost six hundred years ago.
+The University of Leuven was founded almost six hundred years ago. Throughout the centuries people have always occupied center stage at the <a href="http://www.kuleuven.be/english">Catholic University of Leuven</a>.
-The university's academic fame has attracted scholars and scientists as Justus Lipsius, Gerard Mercator and Andreas Vesalius who have all made valuable contribution to the European intellectual life.
+The University's academic fame has attracted scholars and scientists as Justus Lipsius, Gerard Mercator and Andreas Vesalius who have all made valuable contribution to the European intellectual life.
-The KULeuven can look back on a glorious past, but it also moves with the times.
+The University of Leuven can look back on a glorious past, but it also moves with the times.
-The university's educational concept is modern, with research activities focused on the needs and aspirations of contemporary people and society.
+The University's educational concept is modern, with research activities focused on the needs and aspirations of contemporary people and society.
-The KULeuven is famous not just within the borders of Belgium, but far beyond as well. Being a very lively city of and for students, Leuven aspires to maintain that reputation. In contrast to most university cities, Leuven does not have a closed campus. The university buildings are spread troughout the city and were originally built for completely different purposes.
+The University of Leuven is famous not just within the borders of Belgium, but far beyond as well. Being a very lively city of and for students, Leuven aspires to maintain that reputation. In contrast to most university cities, Leuven does not have a closed campus. The University buildings are spread throughout the city and were originally built for completely different purposes.
 </p>
 </div>
 </div>
-<!-- END KULEUVEN BOX -->
-<!-- TEAM BOX -->
+<!-- CONTENT: TEAM -->
 <div id="team-box">
-	<h4>The Team</h4>
+	<h3>The Team</h3>
 	<ul>
 	<li><a href="#team-1"><span>Meet the team</span></a></li>
 	</ul>
+<!-- CONTENT: TEAM: IMAGE MAP -->
 <div id="team-1">
-The KULeuven team consists of 12 enthusiastic students selected out of three faculties, 4 civil engineers, 4 bio-engineers and 4 biochemists.
+<p>
+The KULeuven team consists of 12 enthusiastic students selected out of three faculties, 4 civil engineers, 4 bio-engineers and 4 biochemists. More information on the team members can be found on the <a href="https://2008.igem.org/Team:KULeuven/Team/Students">Students homepage</a> or by scrolling over the heads of the students.
+</p>
 <script>
 function haxbackground(){
@@ Line 181: / Line 188: @@
 }
 </script>
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-	display:block;
-	position:relative;
-	width:665px;
-	height:499px;
-	margin:0px;
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-dl#cartoonmap dt{
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-dl#cartoonmap dd a{
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-	width:200px;
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-        z-index: 100;
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-dl#cartoonmap dd a:hover span div.rest{
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-</style>
 <dl id="cartoonmap">
@@ Line 411: / Line 233: @@
          <dt>Elke Van Assche</dt>
-	<dd id="elke"><a href="https://2008.igem.org/User:Elkevanassche" onmouseover="haxbackground();" onmouseout="unhaxbackground();">
+	<dd id="elke"><a href="" onmouseover="haxbackground();" onmouseout="unhaxbackground();">
 		<span><div class="first">Elke Van Assche</div>
 		<div class="rest"><br> <b><font size="2.5">Studies:</font></b> <br> <font size="2"> 3rd Bachelor of Bioscience Engineering – Biomolecular Engineering</font> <br> <b><font size="2.5">Country:</font></b> <br> <font size="2"> Belgium</font> </div></span>
@@ Line 417: / Line 239: @@
          <dt>Jan Mertens</dt>
-	<dd id="jan"><a href="https://2008.igem.org/User:Jotaro" onmouseover="haxbackground();" onmouseout="unhaxbackground();">
+	<dd id="jan"><a href="" onmouseover="haxbackground();" onmouseout="unhaxbackground();">
 		<span><div class="first">Jan Mertens</div>
 		<div class="rest"><br> <b><font size="2.5">Studies:</font></b> <br> <font size="2"> 1st Master of Bioscience Engineering – Biomolecular Engineering</font> <br> <b><font size="2.5">Country:</font></b> <br> <font size="2"> Belgium</font> </div></span>
@@ Line 447: / Line 269: @@
 </div>
-<!-- END TEAM BOX -->
-<!-- PROJECT BOX -->
+<!-- CONTENT: PROJECT -->
 <div id="project-box">
-	<h4>The Project</h4>
+	<h3>The Project</h3>
 	<ul>
 	<li><a href="#project-1"><span>Project</span></a></li>
 	</ul>
+<!-- CONTENT: PROJECT: SUBSYSTEMS -->
 <div id="project-1">
 <p>
-The 2008 iGEM team of the Katholieke Universiteit Leuven works on a bacterial drug delivery system, for instance for the production of a peptide such as vasoactive intestinal peptide as a potential treatment for Crohn's disease. The bacterial drug delivery system will have several advantages over classical drugs. These are (a) the bacterium will produce the exact amount of drug necessary for each individual by means of a feedback control mechanism, (b) the bacterium will die upon a long symptomless period and (c) a possible development towards drugs being taken up in the bloodstream.
+Our team’s project is Dr. Coli, an E. coli bacterium that produces a drug when and where it is needed in the human body. It does this in an intelligent way, such that the drug production meets the individual patient’s needs. And when the patient is cured, Dr. Coli eliminates itself from the body. To achieve this goal we divided our project into several subsystems. A detailed description about every subsystem can be found by clicking on one of the following pictograms.
-</p>
 <br>
-... Our project consists of several subsystems. A detailed description about every subsystem can be found by clicking on one of the following pictograms
+<center>
-<br>
 <a href="https://2008.igem.org/Team:KULeuven/Project/Input">
-<img src="https://static.igem.org/mediawiki/2008/a/a9/Pictogram_input.png" width="40" height="40"
+<img src="https://static.igem.org/mediawiki/2008/a/a9/Pictogram_input.png" width="50" height="50"
 onmouseover="CngTxt('Txt','<b>INPUT:</b> <br> The input mechanism makes use of the red light detector, used because of the possibility of easy and rapid switching between ON and OFF state. This input serves as a dummy input for e.g. inflammation signaling molecules.')"
 onmouseout="CngTxt('Txt')"
 ></a>
 <a href="https://2008.igem.org/Team:KULeuven/Project/Output">
-<img src="https://static.igem.org/mediawiki/2008/d/db/Pictogram_output.png" width="40" height="40"
+<img src="https://static.igem.org/mediawiki/2008/d/db/Pictogram_output.png" width="50" height="50"
 onmouseover="CngTxt('Txt','<b>OUTPUT:</b> <br> GFP is an easy-to-measure output mechanism. To lower the stability of GFP, the C-terminal LVA tag is applied. This output serves as a dummy output for e.g. peptide drugs.')"
 onmouseout="CngTxt('Txt')"
@@ Line 476: / Line 295: @@
 </a>
 <a href="href="https://2008.igem.org/Team:KULeuven/Project/Filter">
-<img src="https://static.igem.org/mediawiki/2008/e/ed/Pictogram_filter.png" width="40" height="40"
+<img src="https://static.igem.org/mediawiki/2008/e/ed/Pictogram_filter.png" width="50" height="50"
 onmouseover="CngTxt('Txt','<b>FILTER:</b> <br> The filter system is made to make the system irresponsive to background input. We do not want Dr. Coli to react on noise signals. The filter makes use of a coherent feed-forward loop with AND-gate, based on T7 RNA polymerase and the RiboKey/-Lock system.')"
 onmouseout="CngTxt('Txt')"
@@ Line 482: / Line 301: @@
 </a>
 <a href="https://2008.igem.org/Team:KULeuven/Project/Inverter">
-<img src="https://static.igem.org/mediawiki/2008/e/e7/Pictogram_inverter.png" width="40" height="40"
+<img src="https://static.igem.org/mediawiki/2008/e/e7/Pictogram_inverter.png" width="50" height="50"
-onmouseover="CngTxt('Txt','<b>INVERTER:</b> <br> For some of the following subsystems, an inverter is needed. It is based on a promoter repressor and also makes use of a C-terminal LVA tag for better responsiveness of the system. This was proven necessary by rigorous modelling.')"
+onmouseover="CngTxt('Txt','<b>INVERTIMER:</b> <br> For some of the following subsystems, an inverter is needed. It is based on a promoter repressor and also makes use of a C-terminal LVA tag for better responsiveness of the system. This was proven necessary by rigorous modelling.')"
 onmouseout="CngTxt('Txt')"
 >
 </a>
 <a href="https://2008.igem.org/Team:KULeuven/Project/Reset">
-<img src="https://static.igem.org/mediawiki/2008/e/ed/Pictogram_reset.png" width="40" height="40"
+<img src="https://static.igem.org/mediawiki/2008/e/ed/Pictogram_reset.png" width="50" height="50"
-onmouseover="CngTxt('Txt','<b>RESET:</b> <br> When input re-emerges during the self-elimination process, the dying process is stopped and resetted. This will allow Dr. Coli to come back from its decision of no longer being needed.')"
+onmouseover="CngTxt('Txt','<b>RESET:</b> <br> When input re-emerges during the self-elimination process, the dying process is stopped and reset. This will allow Dr. Coli to come back from its decision of no longer being needed.')"
 onmouseout="CngTxt('Txt')"
 >
 </a>
 <a href="https://2008.igem.org/Team:KULeuven/Project/CellDeath">
-<img src="https://static.igem.org/mediawiki/2008/c/c6/Pictogram_celldeath.png" width="40" height="40"
+<img src="https://static.igem.org/mediawiki/2008/c/c6/Pictogram_celldeath.png" width="50" height="50"
 onmouseover="CngTxt('Txt','<b>CELL DEATH:</b> <br> After a longer period without input signal, Dr. Coli decides to stop living because he feels himself no longer necessary. And in fact, as the patient is now cured, he is no longer of any need to the patient.')"
 onmouseout="CngTxt('Txt')"
@@ Line 500: / Line 319: @@
 </a>
 <a href="https://2008.igem.org/Team:KULeuven/Project/Memory">
-<img src="https://static.igem.org/mediawiki/2008/c/c2/Pictogram_memory.png" width="40" height="40"
+<img src="https://static.igem.org/mediawiki/2008/c/c2/Pictogram_memory.png" width="50" height="50"
 onmouseover="CngTxt('Txt','<b>MEMORY:</b> <br> As Dr. Coli does not want to die from the moment he is born, he can memorize whether he has already been active or not. If not, he will not die without input signal, thus being able to live previous to encoutering illness.')"
 onmouseout="CngTxt('Txt')"
@@ Line 509: / Line 328: @@
 #Txt {color:darkblue;}
 </style>
-<div id="Txt" style="width:300px;height:120px;border:solid darkblue 1px;"><br>scroll over the pictograms to get a short description or click on them to go to the corresponding page</font></div>
+<br>
+<br>
+<div id="Txt" style="width:350px;height:120px;border:solid darkblue 1px"><br>scroll over the pictograms to get a short description or click on them to go to the corresponding page</font></div>
+</center>
+</p>
 </div>
 </div>
-<!-- END PROJECT BOX -->
-<!-- MODELING BOX -->
+<!-- CONTENT: MODELING -->
 <div id="modeling-box">
-	<h4>Modeling</h4>
+	<h3>Modeling</h3>
 	<ul>
 	<li><a href="#modeling-3"><span>Introducing engineering</span></a></li>
@@ Line 524: / Line 346: @@
 	</ul>
+<!-- CONTENT: MODELING: MODEL -->
 <div id="modeling-1">
 <img align="center" src="http://dilbert.com/dyn/str_strip/000000000/00000000/0000000/000000/10000/1000/100/10797/10797.strip.gif" border="0" />
 </div>
+<!-- CONTENT: MODELING: PARAMETERS -->
 <div id="modeling-2">
 <img src="http://dilbert.com/dyn/str_strip/000000000/00000000/0000000/000000/00000/5000/500/5652/5652.strip.gif" border="0" />
 </div>
+<!-- CONTENT: MODELING: ENGINEERING -->
 <div id="modeling-3">
-<img src="http://dilbert.com/dyn/str_strip/000000000/00000000/0000000/000000/00000/8000/800/8718/8718.strip.gif" border="0" />
+<img class="floatright" width="140" heigth="170" src="https://static.igem.org/mediawiki/2008/4/4e/Model_homepage.PNG" />
+<p>
+The most important assets of our project are the different control mechanisms. Since these are very much dependent on kinetic and other constants, Dr. Coli heavily relies on proper <a href="https://2008.igem.org/Team:KULeuven/Model/Overview">modeling</a>. Our Dry-Lab team has spend its summer setting up a computational model of Dr. Coli to completely simulate his actions. We constructed models of all the subsystems (components) in both CellDesigner and Matlab. All these subsystems have been characterised by their ODE's and have been simulated thoroughly. Together they form our <a href="https://2008.igem.org/Team:KULeuven/Model/FullModel">full model</a> of Dr. Coli. These models are only capable of simulating the behaviour of 1 Dr. Coli cell, so we implemented our own Software Tool that can work with <a href="https://2008.igem.org/Team:KULeuven/Model/MultiCell">multi cellular models</a>.
+</p>
 </div>
 </div>
-<!-- END MODELING BOX -->
+</div><!-- END CONTENT -->
 </div>
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 </html>
+<!-- SIDEBAR -->
+<div id="home-sidebar">
+<!-- SIDEBAR: INTERESTING LINKS -->
+<div class="sidebox">
+<h3>Interesting Links</h3>
+<ul class="external-links">
+<li>[http://www.nature.com/nature/comics/syntheticbiologycomic/index.html Synthetic Biology comic]</li>
+<li>[http://partsregistry.org/Main_Page Registry of Standard Biological Parts]</li>
+<li>[http://www.kuleuven.be/bioscenter BioSCENTer]</li>
+</ul>
 </div>
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+<!-- SIDEBAR: FUN STUFF -->
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+<a href="http://student.kuleuven.be/~s0160104/iGEM/pairs.html" onClick="return popup(this,'notes')"><img src="https://static.igem.org/mediawiki/2008/e/e5/Bacteria_pairs.PNG">Bacteria Pairs</a>
+</p>
+<p>
+<a href="http://student.kuleuven.be/~s0160104/iGEM/bacteriasolitaire.html" onClick="return popup(this,'notes')"><img src="https://static.igem.org/mediawiki/2008/d/d9/Bacteria_solitaire.PNG">Bacteria Solitaire</a>
+</p>
+<p>
+<a href="http://nobelprize.org/educational_games/medicine/dna_double_helix/dnahelix.html" target="blank"><img src="https://static.igem.org/mediawiki/2008/1/1b/Helix-intro.png"> Double Helix</a>
+</p>
+<ul class="general-links">
+<li><a href="http://www.youtube.com/watch?v=x5yPkxCLads" target="blank">PCR song</a></li>
+</ul>
 </html>
+</div>
+<!-- SIDEBAR: NOTEBOOK -->
+<div class="sidebox">
+<h3>Notebook ({{CURRENTMONTHNAME}})</h3>
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+<!-- SIDEBAR: GOOGLE(CUSTOM SEARCH) -->
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+Search in our wiki pages:
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+<div class="cse-branding-form">
-	<div class="sidebox external">
+<form action="http://www.google.com/cse" id="cse-search-box">
-	<h3>Fun Stuff</h3>
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+<div>
-	<div class="sidebox">
+<input type="hidden" name="cx" value="014084360811440219920:o0ayl5nue-m" />
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+<input type="hidden" name="ie" value="UTF-8" />
-	<ul class="external">
+<input type="text" name="q" size="23" />
-	<li>[http://www.nature.com/nature/comics/syntheticbiologycomic/index.html Synthetic Biology comic]</li>
+<input type="submit" name="sa" value="Search" />
-	<li>[http://partsregistry.org/Main_Page Registry of Standard Biological Parts]</li>
+</div>
-	<li>[http://www.kuleuven.be/bioscenter BIOScenter]</li>
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-	<!-- END INTERESTING LINKS -->
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+</form>
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+</div>
-	<h3>Notebook ({{CURRENTMONTHNAME}})</h3>
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+<img src="http://www.google.com/images/poweredby_transparent/poweredby_FFFFFF.gif" alt="Google" />
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+<!-- SIDEBAR: VISITORS -->
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