Team:UCSF/kendall

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 +
font-size: 2.0em;
 +
}
 +
#sidebar ul{
 +
list-style: none;
 +
margin: 0px 15px;
 +
}
 +
#sidebar #list > ul{
 +
padding-bottom: 20px;
 +
}
 +
#sidebar a{
 +
color: white;
 +
font-family: Georgia, Serif;
 +
font-size: 1.4em;
 +
display: block;
 +
line-height: 1.4em;
 +
}
 +
#sidebar a:hover{
 +
text-decoration: none;
 +
color: #43BBFF;
 +
}
-
 
+
/* thumbnails */
-
</div>
+
div.thumb {
-
</div>
+
    margin-bottom: .5em;
-
<br><br><br><br><br><br><br><br><br><br><br><br><br><br><br><br><br><br><br><br><br><br><br><br><br><br><br><br><br><br><br><br><br><br><br><br><br><br><br><br><br><br><br><br><br><br><br><br><br><br><br><br><br><br><br><br><br><br><br><br><br><br><br><br><br><br><br><br><br><br><br><br><br><br><br><br><br><br><br>
+
    border-style: solid;
-
 
+
     border-color: transparent;
-
 
+
    width: auto;
-
<link rel="stylesheet" href="https://2012.igem.org/Team:Johns_Hopkins-Software/Templates/cssindex?action=raw&amp;ctype=text/css" type="text/css"/>
+
-
<div id="header_body">
+
-
<div id="header_new">
+
-
<div id="header_title">
+
-
<a href="https://2013.igem.org/Team:UCSF"><img src="https://dl.dropbox.com/u/24404809/iGEM%202012/igem%202012%20website%20photos/group%20photo%20on%20steps.jpg" width="45%"  alt="UCSF" style="border:none; -moz-box-shadow: 0px 0px 0px #fff;
+
-
-webkit-box-shadow: 0px 0px 0px #Fff;
+
-
box-shadow: 0px 0px 0px #fff;
+
-
/* For IE 8 */
+
-
-ms-filter: "progid:DXImageTransform.Microsoft.Shadow(Strength=0, Direction=135, Color='#ffffff')";
+
-
/* For IE 5.5 - 7 */
+
-
filter: progid:DXImageTransform.Microsoft.Shadow(Strength=0, Direction=135, Color='#ffffff');"></a><a href="https://2013.igem.org/Main_Page"><img src="https://dl.dropbox.com/u/24404809/iGEM%202012/igem%202012%20website%20photos/extra/photo%20page/IMG_4513.JPG" width="25.9%" style="border:none; -moz-box-shadow: 0px 0px 0px #fff;
+
-
-webkit-box-shadow: 0px 0px 0px #Fff;
+
-
box-shadow: 0px 0px 0px #fff;
+
-
/* For IE 8 */
+
-
-ms-filter: "progid:DXImageTransform.Microsoft.Shadow(Strength=0, Direction=135, Color='#ffffff')";
+
-
/* For IE 5.5 - 7 */
+
-
filter: progid:DXImageTransform.Microsoft.Shadow(Strength=0, Direction=135, Color='#FF9B40');"></a>
+
-
</div>
+
-
</div>
+
-
 
+
-
<div id = "navigation_wrapper">
+
-
<div id="navigation_low">
+
-
<div id="mydroplinemenu" class="droplinebar">
+
-
<ul>
+
-
<li><a href="#">Team</a>
+
-
<ul>
+
-
<li><a href="https://2013.igem.org/Team:UCSF/Team">Members</a></li>
+
-
+
-
+
-
</ul>
+
-
</li>
+
-
 
+
-
<li><a href="#">Software</a>
+
-
<ul>
+
-
<li><a href="https://2012.igem.org/Team:Johns_Hopkins-Software/theSoftware_overview">Overview</a></li>
+
-
<li><a href="https://2012.igem.org/Team:Johns_Hopkins-Software/AutoPlasmid">AutoPlasmid</a></li>
+
-
<li><a href="https://2012.igem.org/Team:Johns_Hopkins-Software/AutoDesign">AutoDesign</a></li>
+
-
<li><a href="https://2012.igem.org/Team:Johns_Hopkins-Software/Cloud">Cloud</a></li>
+
-
                                        <li><a href="https://2012.igem.org/Team:Johns_Hopkins-Software/Compatibility">Compatibility</a></li>
+
-
                                        <li><a href="http://www.ugrad.cs.jhu.edu/~eisinger/iGEM/Screencast.mov">Screencast</a></li>
+
-
                                        <li><a href="https://2012.igem.org/Team:Johns_Hopkins-Software/DownloadSoftware">Download</a></li>
+
-
</ul>
+
-
</li>
+
-
 
+
-
<li><a href="#">Requirements</a>
+
-
<ul>
+
-
<li><a href="https://2012.igem.org/Team:Johns_Hopkins-Software/MedalFulfillment">Medals</a></li>
+
-
    <li><a href="https://2012.igem.org/Team:Johns_Hopkins-Software/Safety">Safety</a></li>
+
-
<li><a href="https://2012.igem.org/Team:Johns_Hopkins-Software/Collaboration">Collaboration</a></li>
+
-
</ul>
+
-
</li>
+
-
 
+
-
<li><a href="https://2012.igem.org/Team:Johns_Hopkins-Software/PathogenDetection">Human Practices</a>
+
-
<ul>
+
-
+
-
</ul>
+
-
</li>
+
-
</div>
+
-
 
+
-
 
+
-
 
+
-
 
+
-
 
+
-
</div>
+
-
</div>
+
-
</div>
+
-
 
+
-
<script type="text/javascript" src="http://ajax.googleapis.com/ajax/libs/jquery/1.4.1/jquery.min.js"></script>
+
-
 
+
-
 
+
-
 
+
-
     <script type='text/javascript' src='http://ajax.googleapis.com/ajax/libs/jquery/1.3.2/jquery.min.js?ver=1.3.2'></script>
+
-
 
+
-
 
+
-
<script type="text/javascript">
+
-
 
+
-
/*********************
+
-
//* jQuery Drop Line Menu- By Dynamic Drive: http://www.dynamicdrive.com/
+
-
//* Last updated: May 9th, 11'
+
-
//* Menu avaiable at DD CSS Library: http://www.dynamicdrive.com/style/
+
-
*********************/
+
-
 
+
-
var droplinemenu={
+
-
 
+
-
/*arrowimage: {classname: 'downarrowclass', src: '', leftpadding: 5}, //customize down arrow image*/
+
-
animateduration: {over: 80, out: 50}, //duration of slide in/ out animation, in milliseconds
+
-
 
+
-
buildmenu:function(menuid){
+
-
jQuery(document).ready(function($){
+
-
var $mainmenu=$("#"+menuid+">ul")
+
-
var $headers=$mainmenu.find("ul").parent()
+
-
$headers.each(function(i){
+
-
var $curobj=$(this)
+
-
var $subul=$(this).find('ul:eq(0)')
+
-
this._dimensions={h:$curobj.find('a:eq(0)').outerHeight()}
+
-
this.istopheader=$curobj.parents("ul").length==1? true : false
+
-
if (!this.istopheader)
+
-
$subul.css({left:0, top:this._dimensions.h})
+
-
var $innerheader=$curobj.children('a').eq(0)
+
-
$innerheader=($innerheader.children().eq(0).is('span'))? $innerheader.children().eq(0) : $innerheader //if header contains inner SPAN, use that
+
-
/* $innerheader.append(
+
-
'<img src="'+ droplinemenu.arrowimage.src
+
-
+'" class="' + droplinemenu.arrowimage.classname
+
-
+ '" style="border:0; padding-left: '+droplinemenu.arrowimage.leftpadding+'px" />'
+
-
)*/
+
-
$curobj.hoverIntent(
+
-
function(e){
+
-
var $targetul=$(this).children("ul:eq(0)")
+
-
if ($targetul.queue().length<=1) //if 1 or less queued animations
+
-
if (this.istopheader)
+
-
$targetul.css({left: $mainmenu.position().left, top: $mainmenu.position().top+this._dimensions.h})
+
-
if (document.all &amp;&amp; !window.XMLHttpRequest) //detect IE6 or less, fix issue with overflow
+
-
$mainmenu.find('ul').css({overflow: (this.istopheader)? 'hidden' : 'visible'})
+
-
$targetul.dequeue().slideDown(droplinemenu.animateduration.over)
+
-
},
+
-
function(e){
+
-
var $targetul=$(this).children("ul:eq(0)")
+
-
$targetul.dequeue().slideUp(droplinemenu.animateduration.out)
+
-
}
+
-
) //end hover
+
-
}) //end $headers.each()
+
-
$mainmenu.find("ul").css({display:'none', visibility:'visible', width:$mainmenu.width()})
+
-
}) //end document.ready
+
}
}
 +
div.thumb div {
 +
    border: 0px;
 +
    padding: 3px !important;
 +
    font-size: 94%;
 +
    text-align: center;
 +
    overflow: hidden;
 +
background: transparent;
}
}
-
 
+
div.thumb div a img {
-
</text>
+
    border: none;
-
 
+
}
-
 
+
div.thumb div div.thumbcaption {
-
<script type="text/javascript">
+
    border: none;
-
 
+
    text-align: left;
-
 
+
    line-height: 1.4em;
-
var DDSPEED = 10;
+
    padding: .3em 0 .1em 0;
-
var DDTIMER = 15;
+
-
 
+
}
-
// main function to handle the mouse events //
+
div.magnify {
-
function ddMenu(id,d){
+
     float: right;
-
  var h = document.getElementById(id + '-ddheader');
+
     border: none !important;
-
  var c = document.getElementById(id + '-ddcontent');
+
     background: none !important;
-
  clearInterval(c.timer);
+
}
-
  if(d == 1){
+
div.magnify a, div.magnify img {
-
     clearTimeout(h.timer);
+
    display: block;
-
     if(c.maxh &amp;&amp; c.maxh <= c.offsetHeight){return}
+
    border: none !important;
-
     else if(!c.maxh){
+
    background: none !important;
-
      c.style.display = 'block';
+
}
-
      c.style.height = 'auto';
+
div.tright {
-
      c.maxh = c.offsetHeight;
+
    clear: right;
-
      c.style.height = '0px';
+
     float: right;
-
     }
+
     border-width: .5em 0 .8em 1.4em;
-
     c.timer = setInterval(function(){ddSlide(c,1)},DDTIMER);
+
}
-
  }else{
+
div.tleft {
-
     h.timer = setTimeout(function(){ddCollapse(c)},50);
+
     float: left;
-
  }
+
    margin-right: .5em;
 +
    border-width: .5em 1.4em .8em 0;
}
}
-
// collapse the menu //
+
/*colouring*/
-
function ddCollapse(c){
+
/*oranges: current page and all sidebar rollovers*/
-
  c.timer = setInterval(function(){ddSlide(c,-1)},DDTIMER);
+
#home header #homelink, #home #sidebar #list a:hover, #home #nav li a:hover, #home #nav li a.drop:hover::after,
 +
#team header #teamlink, #team #sidebar #list a:hover, #team #nav li a:hover, #team #nav li a.drop:hover::after,
 +
#proj_hp header #projectlink, #proj_hp #sidebar #list a:hover, #proj_hp #nav li a:hover, #proj_hp #nav li a.drop:hover::after,
 +
#parts header #partslink, #parts #sidebar #list a:hover, #parts #nav li a:hover, #parts #nav li a.drop:hover::after,
 +
#notebook header #notebooklink, #notebook #sidebar #list a:hover, #notebook #nav li a:hover, #notebook #nav li a.drop:hover::after,
 +
#outreach header #outreachlink, #outreach #sidebar #list a:hover, #outreach #nav li a:hover, #outreach #nav li a.drop:hover::after,
 +
#sponsors header #sponsorslink, #sponsors #sidebar #list a:hover, #sponsors #nav li a:hover, #sponsors #nav li a.drop:hover::after{
 +
color: #F6A82D;
 +
}
 +
/*oranges: sidebar border*/
 +
#home #sidebar #list,
 +
#team #sidebar #list,
 +
#proj_hp #sidebar #list,
 +
#parts #sidebar #list,
 +
#notebook #sidebar #list,
 +
#outreach #sidebar #list,
 +
#sponsors #sidebar #list{
 +
border-left: 10px solid #F6A82D;
 +
}
 +
/*oranges: links*/
 +
#team #bodycontainer a,
 +
#proj_hp #bodycontainer a,
 +
#parts #bodycontainer a,
 +
#notebook #bodycontainer a,
 +
#outreach #bodycontainer a,
 +
#sponsors #bodycontainer a{
 +
color: #FF7A00;
 +
}
 +
#team #bodycontainer a:visited,
 +
#proj_hp #bodycontainer a:visited,
 +
#parts #bodycontainer a:visited,
 +
#notebook #bodycontainer a:visited,
 +
#outreach #bodycontainer a:visited,
 +
#sponsors #bodycontainer a:visited{
 +
color: #C40;
}
}
-
// cancel the collapse if a user rolls over the dropdown //
+
/*blues: current page, all rollover links in nav, all sidebar hovers and dropdown menus*/
-
function cancelHide(id){
+
#proj_o header #projectlink, #proj_o #sidebar #list a:hover, #proj_o #nav li a:hover, #proj_o #nav li a.drop:hover::after,
-
  var h = document.getElementById(id + '-ddheader');
+
#note_o header #notebooklink, #note_o #sidebar #list a:hover, #note_o #nav li a:hover, #note_o #nav li a.drop:hover::after{
-
  var c = document.getElementById(id + '-ddcontent');
+
color: #43BBFF;
-
  clearTimeout(h.timer);
+
}
-
  clearInterval(c.timer);
+
/*blues: sidebar border*/
-
  if(c.offsetHeight < c.maxh){
+
#proj_o #sidebar #list,
-
    c.timer = setInterval(function(){ddSlide(c,1)},DDTIMER);
+
#note_o #sidebar #list{
-
  }
+
border-left: 10px solid #43BBFF;
 +
}
 +
/*blues: links*/
 +
#proj_o #bodycontainer a,
 +
#note_o #bodycontainer a{
 +
color: #1088CC;
 +
}
 +
#proj_o #bodycontainer a:visited,
 +
#note_o #bodycontainer a:visited{
 +
color: #05B;
}
}
-
// incrementally expand/contract the dropdown and change the opacity //
+
/*greens: current page, all rollover links in nav, all sidebar hovers, and dropdown menus*/
-
function ddSlide(c,d){
+
#proj_f header #projectlink, #proj_f #sidebar #list a:hover, #proj_f #nav li a:hover, #proj_f #nav li a.drop:hover::after,  
-
  var currh = c.offsetHeight;
+
#note_f header #notebooklink, #note_f #sidebar #list a:hover, #note_f #nav li a:hover, #note_f #nav li a.drop:hover::after{
-
  var dist;
+
color: #58CD45;
-
  if(d == 1){
+
}
-
    dist = (Math.round((c.maxh - currh) / DDSPEED));
+
/*greens: sidebar border*/
-
  }else{
+
#proj_f #sidebar #list,
-
    dist = (Math.round(currh / DDSPEED));
+
#note_f #sidebar #list{
-
  }
+
border-left: 10px solid #58CD45;
-
  if(dist <= 1 &amp;&amp; d == 1){
+
}
-
    dist = 1;
+
/*greens: links*/
-
  }
+
#proj_f #bodycontainer a,
-
  c.style.height = currh + (dist * d) + 'px';
+
#proj_f #bodycontainer a{
-
  c.style.opacity = currh / c.maxh;
+
color: #159900;
-
  c.style.filter = 'alpha(opacity=' + (currh * 100 / c.maxh) + ')';
+
}
-
  if((currh < 2 &amp;&amp; d != 1) || (currh > (c.maxh - 2) &amp;&amp; d == 1)){
+
/*greens: links*/
-
    clearInterval(c.timer);
+
#proj_f #bodycontainer a:visited,
-
  }
+
#proj_f #bodycontainer a:visited{
 +
color: #06660B;
}
}
-
</script>
+
/*hub page CSS*/
-
 
+
a.hublink{
 +
text-decoration: none;
 +
margin-left: 15px;
 +
margin-right: 15px;
 +
}
 +
div.hubbox{
 +
margin-left: 15px;
 +
}
 +
div.hubbox img{
 +
float: left;
 +
padding: 15px;
 +
}
 +
div.hubbox h2{
 +
color: white;
 +
padding: 15px 15px 0px 15px;
 +
font-size: 2.0em;
 +
margin-left: 120px !important;
 +
}
 +
div.hubbox p{
 +
color: white;
 +
padding: 0px 15px 15px 15px;
 +
margin-left: 120px !important;
 +
}
 +
div.hubbox b{
 +
font-size: 1.1em;
 +
}
 +
</style>
<script type="text/javascript">
<script type="text/javascript">
-
/**
 
-
* jQuery Opacity Rollover plugin
 
-
*
 
-
* Copyright (c) 2009 Trent Foley (http://trentacular.com)
 
-
* Licensed under the MIT License:
 
-
*  http://www.opensource.org/licenses/mit-license.php
 
-
*/
 
-
;(function($) {
 
-
var defaults = {
 
-
mouseOutOpacity:  0.67,
 
-
mouseOverOpacity:  1.0,
 
-
fadeSpeed:        'fast',
 
-
exemptionSelector: '.selected'
 
-
};
 
-
$.fn.opacityrollover = function(settings) {
+
    jQuery(document).ready(function ($) {
-
// Initialize the effect
+
-
$.extend(this, defaults, settings);
+
-
var config = this;
+
        //eliminate jsnotice
 +
        $('#jsnotice').hide();
-
function fadeTo(element, opacity) {
+
        //prepend menu icon
-
var $target = $(element);
+
        $('#nav-wrap').prepend('<div id="menu-icon">Menu</div>');
-
+
-
if (config.exemptionSelector)
+
-
$target = $target.not(config.exemptionSelector);
+
-
+
-
$target.fadeTo(config.fadeSpeed, opacity);
+
-
}
+
-
this.css('opacity', this.mouseOutOpacity)
+
        //toggle nav
-
.hover(
+
        $("#menu-icon").click(function () {
-
function () {
+
            $("#nav").slideToggle('fast');
-
fadeTo(this, config.mouseOverOpacity);
+
            $(this).toggleClass("active");
-
},
+
-
function () {
+
-
fadeTo(this, config.mouseOutOpacity);
+
-
});
+
-
return this;
+
        });
-
};
+
-
})(jQuery);
+
-
</script>
+
        //hide url bar
 +
        window.scrollTo(0, 1);
-
<script type="text/javascript">
 
-
$(function() {
 
-
    var offset = $("#navigation_low").offset();
 
-
    var topPadding = 0;
 
-
 
-
    $(window).scroll(function() {
 
-
   
 
-
        if ($(window).scrollTop() > offset.top) {
 
-
       
 
-
            $("#navigation_low").stop().animate({
 
-
           
 
-
                marginTop: $(window).scrollTop() - offset.top + topPadding
 
-
           
 
-
            });
 
-
       
 
-
        } else {
 
-
       
 
-
            $("#navigation_low").stop().animate({
 
-
           
 
-
                marginTop: 0
 
-
           
 
-
            });
 
-
       
 
-
        }
 
-
       
 
-
           
 
     });
     });
-
 
-
});
 
-
 
</script>
</script>
 +
<!--switching function: thanks to http://www.digital-web.com/articles/strategies_for_css_switching/-->
-
<script type="text/javascript" src="http://ajax.googleapis.com/ajax/libs/jquery/1.4/jquery.min.js"></script>
 
<script type="text/javascript">
<script type="text/javascript">
-
//build menu with DIV ID="myslidemenu" on page:
 
-
droplinemenu.buildmenu("mydroplinemenu")
 
-
//Nivoslider
+
    var _gaq = _gaq || [];
-
     $(window).load(function() {
+
     _gaq.push(['_setAccount', 'UA-32774032-1']);
-
        $('#slider').nivoSlider({
+
     _gaq.push(['_trackPageview']);
-
effect:'fade',
+
-
pauseOnHover:true
+
-
});
+
-
     });
+
-
//Profile script from http://www.willmaster.com/library/web-development/replace-div-content.php
+
    (function () {
-
function ReplaceContentInContainer(id,content) {
+
        var ga = document.createElement('script'); ga.type = 'text/javascript'; ga.async = true;
-
var container = document.getElementById(id);
+
        ga.src = ('https:' == document.location.protocol ? 'https://ssl' : 'http://www') + '.google-analytics.com/ga.js';
-
container.innerHTML = content;
+
        var s = document.getElementsByTagName('script')[0]; s.parentNode.insertBefore(ga, s);
-
}
+
    })();
</script>
</script>
 +
</head>
 +
<body>
-
<script type="text/javascript" src="http://ajax.googleapis.com/ajax/libs/jquery/1.4/jquery.min.js"></script>
+
<header>
-
<script src="https://2011.igem.org/Team:Johns_Hopkins/Templates/droplinemenu?action=raw&amp;ctype=text/javascript" type="text/javascript"></script>
+
<!--
-
<script type="text/javascript" src="https://2011.igem.org/Team:Johns_Hopkins/Templates/nivosliderpack?action=raw&amp;ctype=text/javascript"></script>
+
<a id="css-full" href="#default">Full View</a>
-
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<h2>ABSTRACT</h2>
 +
<p>
 +
    The human race is growing fast. The world population is projected to top 10 billion by 2050. One response to the food supply needs of an increasing world population is creating better crop yield through crop survival. Pathogens and pests can cause catastrophic crop loss. Currently there is no widely used synthetic biological mechanism to help plants fight off bacterial pathogens and pests, so the main way large-scale growers protect crops is by using pesticides. We have engineered two possible solutions to address this problem.
 +
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 +
    <p>
 +
    In our first project, we have incorporated catalytically dead CAS9 (dCAS9) in conjunction with synthetic gRNAs complementary to pathogenic bacterial genes into a plasmid that naturally conjugates into neighboring bacterial cells. The specificity of the gRNAs will potentially allow us to target specific populations of bacterial pathogens in soil while leaving positive bacterial populations unharmed.
 +
    </p>
 +
    <p>
 +
    Our second project will provide plants with a sugar-mediated synthetic circuit that boosts a plant’s natural immune system and pesticide-producing capabilities in response to different levels of sugar a plant naturally produces in response to pests. The repression capabilities of dCAS9 will be used to regulate the synthetic circuit promoters that sense high or low sugar levels, reducing metabolic strain.
 +
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<h2>Special Thanks to our 2013 iGEM Team Sponsors!</h2>
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Latest revision as of 02:59, 11 August 2013

<!DOCTYPE html PUBLIC "-//W3C//DTD XHTML 1.0 Transitional//EN" "http://www.w3.org/TR/xhtml1/DTD/xhtml1-transitional.dtd"> Team:UCSF/lily - 2013.igem.org

 

Team:UCSF/lily

From 2013.igem.org

ABSTRACT

The human race is growing fast. The world population is projected to top 10 billion by 2050. One response to the food supply needs of an increasing world population is creating better crop yield through crop survival. Pathogens and pests can cause catastrophic crop loss. Currently there is no widely used synthetic biological mechanism to help plants fight off bacterial pathogens and pests, so the main way large-scale growers protect crops is by using pesticides. We have engineered two possible solutions to address this problem.

In our first project, we have incorporated catalytically dead CAS9 (dCAS9) in conjunction with synthetic gRNAs complementary to pathogenic bacterial genes into a plasmid that naturally conjugates into neighboring bacterial cells. The specificity of the gRNAs will potentially allow us to target specific populations of bacterial pathogens in soil while leaving positive bacterial populations unharmed.

Our second project will provide plants with a sugar-mediated synthetic circuit that boosts a plant’s natural immune system and pesticide-producing capabilities in response to different levels of sugar a plant naturally produces in response to pests. The repression capabilities of dCAS9 will be used to regulate the synthetic circuit promoters that sense high or low sugar levels, reducing metabolic strain.

Special Thanks to our 2013 iGEM Team Sponsors!


Retrieved from "https://2013.igem.org/Team:UCSF/lily"

Retrieved from "http://2013.igem.org/Team:UCSF/kendall"