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Team:KULeuven/Road Map
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Revision as of 15:57, 3 July 2008
Result:
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:
- Most basic dropdown menu, with no submenu's
- The javascript library used to add effects and optimise the dropdown
- How to center a ul list effectively
The dropdown has been created and developed by the KULeuven team.
<html>
<style type="text/css">
#content {z-index:4;}
#ddwrapper * {z-index:8 !important;}
div#ddwrapper {
margin:0;
padding:0;
height:28px;
width:945px; /* change to adjust imperfections in width */
}
div#ddnav {
margin:0 auto; /* needed to center the dropdown */
padding:0;
top:5px;
/* width: 965px */
visibility:hidden; /* dropdown is hidden until properly initalised by javascript */
}
div#ddtoggle {
margin:0;
position:fixed;
right:2px;
top:15px;
height:10px;
width:10px;
z-index:100;
}
#ddnav ul {
display:table-row; /* works only for firefox, later adjusted by javascript for IE */
margin:0 auto;
padding:0;
}
#ddnav ul li {
display:table-cell; /* works only for firefox, later adjusted by javascript for IE */
list-style:none;
margin:0;
padding:0 !important;
border-right:1px solid #FFF; /* creates illusion of spacing between tabs */
}
#ddnav ul li:last-child{border-right:none;}
#ddnav a{
display:block;
margin:0;
padding:4px 14px; /* play with dimensions for size of tabs */
background-color:#075A90; /* background color for tabs */
color:#FFF !important; /* font color for text in tabs */
text-align:center; /* aligning for text in tabs */
text-decoration:none !important;
font:bold 10pt Trebuchet MS; /* font properties for text in tabs */
outline:0;
}
#ddnav ul li a:hover {background-color:#99CCFF;}/* background color for tabs on mouseover */
#ddnav li a:active {outline:none;} /* remove standard dotted border for links when clicked (IE) */
#ddnav li a:focus {-moz-outline-style:none;} /* remove standard dotted border for links when clicked (FF) */
#ddnav div {
display:none;
position:absolute;
width:9em;
background-color:#000; /* bug solution, do not change ! */
border:1px solid #5970B2; /* border color for dropdown menus */
opacity:0.9; /* transparancy of the dropdown menus (FF) */
filter:alpha(opacity=90); /* transparancy of the dropdown menus (IE) */
}
#ddnav div a {
display:block;
padding:5px 10px; /* play with dimensions of block element in dropdown menus */
position:relative;
font:normal 8pt arial; /* font properties for text in dropdown menus */
text-align:left; /* aligning of text in dropdown menus */
cursor:pointer;
}
#ddnav div a:hover, #ddnav span a:hover {color:#000 !important;} /* text color on mouseover */
#ddnav span div {
position:relative;
border:none;
border-bottom:2px groove #5970B2; /* separator for submenus, groove does not work in FF */
opacity:1.0; /* avoid stacking transparancy for submenus (FF) */
filter:alpha(opacity=100); /* avoid stacking transparancy for submenus (IE) */
}
/* may want to upload the following pictures to a new location */
.expand {background: url('https://static.igem.org/mediawiki/2008/e/ef/Icon-expand.png') no-repeat 95% 50%;}
.collapse {background: url('https://static.igem.org/mediawiki/2008/c/cd/Icon-collapse.png') no-repeat 95% 50%;}
.docked {background: #99ccff url("https://static.igem.org/mediawiki/2008/6/62/Ddnavundock.png") no-repeat 50% 50%;}
.undocked {background: #99ccff url("https://static.igem.org/mediawiki/2008/e/e4/Ddnavdock.png") no-repeat 50% 50%;}
</style>
<!-- IMPORTANT: save following script under a personalized webspace or download the library at www.jquery.com -->
<script type="text/javascript" src="http://student.kuleuven.be/~s0173901/wiki/js/jquery.js"></script>
<script type="text/javascript">
function ddnav() {
$('#ddnav ul li').hover(
function () {
$(this).find('div:first').css('display','block');},
function () {
$(this).find('div:first').css('display','none');}
);
}
function ddnavsub() {
$('#ddnav span > a').toggle(
function () {
$(this).removeClass("#ddnav expand").addClass("#ddnav collapse");
$(this).parent().find('div:first').slideDown('fast');
$(this).hover(
function (){$(this).css('background-color','#99AAFF');},
function (){$(this).css('background-color','#99AAFF');});},
function () {
$(this).removeClass("#ddnav collapse").addClass("#ddnav expand");
$(this).parent().find('div:first').css('display','none');
$(this).hover(
function (){$(this).css('background-color','#99CCFF');},
function (){$(this).css('background-color','#075A90');});}
).addClass("#ddnav expand");
}
/* If you wish to omit the docking feature, remove following function ddtoggle() */
function ddtoggle() {
$('#ddtoggle').toggle(
function () {
$(this).removeClass('undocked').addClass('docked');
$('#ddnav').css('position','fixed');},
function () {
$(this).removeClass('docked').addClass('undocked');
$('#ddnav').css('position','static');}
);
}
function ddalign() {
var _windowWidth = $(window).width();
var _leftOffset = (_windowWidth - 965)/2;
$('div#ddnav').css('left',_leftOffset);
}
function ddmsie() {
$('#ddnav a').hover(
function () {$(this).css('background-color','#99ccff');},
function () {$(this).css('background-color','#075a90');}
);
/* toggle doesn't work yet */
$('#ddtoggle').css('display','none');
$('#ddnav ul').css('display','inline-block');
$('#ddnav ul li').css('display','inline');
$('#ddnav ul li').css('position','relative');
$('#ddnav ul li>a').css('display','inline-block');
$('#ddnav ul li>a').css('margin-right','-4px');
$('#ddnav div').css('left','0');
$('#ddnav div').css('top','100%');
$('#ddnav span div').css('top','0');
}
function ddmozilla() {
ddtoggle();
$(window).bind('resize', function() {ddalign();});
}
$(function () {
ddnav();
ddnavsub();
if(jQuery.browser.msie) ddmsie();
if(jQuery.browser.mozilla) ddmozilla();
$('#ddnav').css('visibility','visible');
});
</script>
<!-- If you wish to omit the docking feature omit following line (div with id ddtoggle) -->
<div id="ddtoggle" class="undocked"></div>
<div id="ddwrapper">
<!-- Here the actual links are defined, simply replace with your own links in the appropriate sections -->
<div id="ddnav" align="center">
<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>
This page contains information on meetings and schedules, on practical stuff, and some suggestions on background reading.
Brainstorm ideas for the project have been moved to the brainstorm page.
Spelen met de wiki doe je in de zandbak, vragen stellen of suggesties doen op de discussiepagina.
Contents |
To do
- check for international passport
- design a team t-shirt (Could someone check whether we can use Jan Fabre's Totem?)
- book flights and hotel
Meetings
May 22nd
students and instructors brainstorm @ ESAT 01.57
present: all students, SDK, LVA, YM, JR, GG, IT
- Each student presented his/her 3 favourite projects of previous iGEMs. All project brainstorm ideas are moved to the project page. There, you can add links to your favourite projects and/or upload your presentation.
- The group picture is on our team page.
- Vote here for the logo you like best (thanks Jonas for the logo and Benjamien for the Zandbak and Discussiepagina idea!).
- To make a summer schedule, please indicate your holiday plans below (Practical stuff - Planned summer holidays). The last exam is on June 27th.
- Since the engineers want to see what's going on in the lab, and the biologists/bio-engineers want to learn about modeling, we'll organize some introductory tutorials in the beginning of the summer holidays.
- Put ideas and suggestions for the wiki here.
- Inge will inform whether the students can stay at the Studentenwijk Arenberg during the summer holidays.
- You are all welcome to join the BioSCENTer launch event (Wednesday 28th, Max Weber auditorium, Parkstraat 51). Our iGEM participation will be presented between 15.35 and 15.45.
- Check out the iGEM website at BioSCENTer.
- Good luck with the exams!
June 10th
present: SDK, KM, AC, JR, LVO, IT
Teachers workshop
(Inge)
Tom Knight, Randy Rettberg and Meagan Lizarazo organised the Europe teachers workshop.
I'll summarize the most important things.
On the project:
- Try to divide the project into subparts in such a way that the whole project does not fail if one subpart fails / aim for intermediate goals and aim further if remaining time allows
- iGEM is about doing synthetic biology based on standard parts, not about freestyle synthetic biology, however great that can be
- They encourage to use existing BioBricks and improve their characterization and work further on previous projects - provide proper acknowledgement! ("Can someone completely own an idea?")
On sponsors:
- Matlab will sponsor!
- DNA synthesis by GeneArt (0.25/bp + 35 sample transport) - takes 4-6 weeks!
BioBrick practicalities:
- protocols can be found on openwetware (will be included in the iGEM website soon)
- plasmids in the Registry can be found by looking for ccdB (P1010) - available in a variety of plasmids
- document your parts! take your time for this, documentation is extremely important (cfr. judging page).
- The organisation has put a lot of work in quality checking the BioBricks spring 2008 distrubution, BUT, there still can be mistakes, so always check whether the BioBrick is indeed the one you were looking for!
- Measurement is important - we received Jason's measurement kit by mail!
- Meagan gave a tutorial on how to input a part in the registry
- every team has a sandbox and a favorite parts section: the judges will only look at the parts in the favorite parts section!
- each sent in BioBrick should be provided in a standard BioBrick plasmid
- there are no rules on modeling (yet)
General:
- what's the overall goal? impress iGEM ;)
- Over lunch, each instructor had to present his/her team short report.
- As part of the competition, we have to answer the questions on the safety page.
- We're supposed to have fun :) If we don't, we can call them and they'll tell us a joke
Project Brainstorm
The ideas that came up are on the brainstorm page.
June 17th
present: SDK, KM, JVDL, YM, LVO, JR, AC, IT
The ideas that came up are on the brainstorm page.
Marianne Heselmans, journalist for LifeSciences (Netherlands) and Mens&Molecule (Belgium) contacted us for an interview! She has written an article on iGEM and the Dutch and Belgian teams that are participating.
June 23rd
present: SDK, LVO, KM, JW, YM, JVDL, IT
The ideas that came up are on the brainstorm page.
June 30th
present: Benjamien, Hanne, Elke, Jan, Antoine, Dries, Nick, Stefanie, Jonas, Nathalie, Liesbeth, Sigrid, Astrid, Joris, Johan, Jos, Inge
getting started
- the students prepare tutorials and present these on Monday July 7th to the team (have a look at the teaching resources below for inspiration) --> room 00.210 of the LBI from 10h to 15h, we'll go to Alma at noon
- introduction to synthetic biology (goal, examples...): Benjamien, Nathalie
- basic molecular biology and gene technology: Hanne, Jonas --> Results
- BioBricks (how to work with them - standard cloning procedures - measurement...): Elke, Jan
- modeling (what for? how? eg. Matlab simbiology etc.) + iGEM modeling (go through last years modeling parts to get an idea of iGEM modeling): Maarten, Nick
- wet lab
- the team will work in the CMPG labs
- ensure lab guidance continuity
- all students have lab coats
- yet to decide how the costs will be arranged (also, do we order enzymes, disposables etc. especially for iGEM?)
- dry lab
- a desktop pc will be installed in room 91.13 (internet available)
- Jonas and Antoine explore the possibilities of the wiki (a.o. notebook, templates (eg. digest, PCR... cfr Paris 2007), ...) --> Results
- during iGEM, everyone is responsible for the wiki
- meeting arrangements
- room 91.13 of the LBI is reserved for iGEM for the whole summer holiday (not on Monday 12-13 and Thursday 12-13)--> to do: clean + writing board + check who has access
- weekly meeting at Friday from 12h to 14h in room 00.42 (except August of the LBI. You can order a sandwich by mailing to Inge before Thursday 16h. Students fill out the form by Thursday 16 (still have to put this online) - Put these in your agenda:
- Friday July 18th (LBI Landbouwinstituut 00.42)
- Friday July 25th (LBI 00.42)
- Friday August 1st (LBI 00.42)
- Friday August 8th (LBI 00.42)
- Thursday August 14th (LBI 00.42)
- Friday August 22nd (LBI TBA)
- Friday August 29th (LBI TBA)
- Friday September 5th (LBI TBA)
- Friday September 12th (LBI TBA)
- Friday September 19th (LBI 00.42)
- summer planning
- week of June 30th to July 1st = "orientation week"
- prepare tutorials
- assess the possibility of the project ideas
- check that we're not repeating previous years' work
- fill in the details of the project (interesting BioBricks to use, adapt, make...)
- ...
- full speed iGEM from July 7th to September 19th
- week of June 30th to July 1st = "orientation week"
the project
During orientation week, the timer project (PI control of drug production and timer for cell death) and the D project (with regulator and sRNA or with stable/unstable - gfp/TEV protease) will be assessed carefully (see the brainstorm page for an overview of these ideas).
things to think about
- fund raising?
- contact press - which? (Hanne has connections at Het Nieuwsblad)
July 7th
10-15 in room 00.210 of the LBI
meeting agenda
- fill out werkpostfiches (insurance)
- distribute iGEM pins
- tutorials
- 10: intro synthetic biology
- 11: intro molecular biology and gene technology
- 13: BioBricks (the CMPG people that will guide in the lab will attend this one)
- 14: modeling
Practical stuff
nickvd: I propose to start working on the project the first week of July (read: Monday 7th). In that way we can get some rest after the exams, recharge our batteries so we can start working with a clear mind and full of motivation!
- That would be excellent, because I' m going to Werchter... So I'm available starting from Monday 7th --Hanne 20:05, 22 May 2008 (UTC)
- I am also back on the 7th. --Andim
- ...
Are there people that can start on Monday 30th of June or somewhere that week? For instance because they have few exams, don't like holidays... ;) For some BioBricks playing-around, preliminary testing, toy-modeling etc. --Inge
- My last exam is on the 25th... I'll have a headache for the first two days and then I would like to review certain things on PID-controllers and Matlab, so I figure I should be able to start soon. --Antoine
- I can start the 3rd of July (and perhaps the 1st also) Benjamien
- I should be able to start the 1st of July. Nathalie
- Normally I can also start the 30th of june Jan
- I don't mind messing about a bit that first week, so no problem for me Jonas
Planned summer holidays
- IT: August 2nd-17th
- Benjamien: August 2nd-17th
- nickvd: no holiday plans, only moving plans the first week of July. I would also prefer to end somewhere around September 10th to get some rest before my thesis year.
- Stefanie: no holiday plans, only moving plans the first week of July.
- Hanne: August 11th-17th, August 6th, and a short minibreak.
- Jonas: I'm out of town September 15-21 and end of july, no other plans yet
- Elke: September 12th-19th
- Jan: In the beginning of september I'm probably expected to start in the lab with my thesis, but maybe I can also work a week for my thesis in august so I can also participate a week in IGEM in september. I'll try to arrange what fits with my promotor, but it's too early to say. I don't have holiday plans yet, but if there's a gap when there's no work for IGEM, I'll probably go on holiday :)
- Nathalie: I only planned something from June 28th until July 1st. So normally, I will be available all the time.
- maarten: no holiday plans so far, but like nick I would also prefer to end somewhere around September 10th so I can relax a bit before I start working on my thesis
- Antoine: 3 short breaks in August, not planned yet though
- Andim: June 24th- July7th I will be at home in Istanbul, then the weekend after I am not here.
- Dries: July 11, August 20th-31th
Interesting reads
Teaching resources
- Imperial College Introduction to Synthetic Biology Spring 2008
- Imperial College Computer Modelling Practicals Spring 2008
- Valencia Introduction to Synthetic Biology 2008
- Berkeley course on Synthetic Biology
- Harvard Synthetic Biology Nanocourse 2007
Software resources
General
iGEM and BioBricks
- introductory resources on the iGEM competition
- iGEM tutorial
- example of an iGEM model - Imperial 2006
- wiki of Taipei 2007, interesting links
- all previous iGEM projects categorized, feel free to add
- Registry of Standard Biological Parts
- BioBricks 2008 spring distribution
- BioBricks measurement
- parts characterization
- BioBricks help
- PMID 16978856: Chris Voigt 2006 review on synthetic biology parts (sensors, switches etc.) ! very useful to use in tutorials !
- PMID 18410688: BioBrick vectors
Original research papers and reviews
