Team:Tsinghua-A

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<h1>Background</h1>
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<p>&emsp;&emsp;&emsp;&emsp;&emsp;Transcription Activator-Like Effectors (TALEs) is a technology that once revolutionized the way researchers manipulate DNA with exceptional site specificity. TALEs are proteins secreted by Xanthomonas bacteria and they recognize DNA sequences through a central repeat domain consisting of a variable number of 34 amino acid repeats. There appears to be a one-to-one correspondence between the identity of two critical amino acids in each repeat and each DNA base in the target sequence.</p>
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<h1>Assembly</h1>
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<title>suneamon</title>
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<p> &emsp;&emsp;&emsp;&emsp;&emsp;The TALE assembly strategy uses the Golden Gate cloning method, which is based on the ability of type IIS enzymes to cleave outside of their recognition site. When type IIS recognition sites are placed to the far 5’ and 3’ end of any DNA fragment in inverse orientation, they are removed in the cleavage process, allowing two DNA fragments flanked by compatible sequence overhangs, termed fusion sites, to be ligated seamlessly. Since type IIS fusion sites can be designed to have different sequences, directional assembly of multiple DNA fragments is feasible. Using this strategy, DNA fragments can be assembled from undigested input plasmids in a one-pot reaction with high efficiency.<br />
 
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&emsp;&emsp;&emsp;&emsp;&emsp; We chose the native TALE AvrBs3 as a scaffold for customized assembly of TALE constructs. The central DNA binding domain of AvrBs3 is formed by 17.5 tandemly arranged 34 amino acid repeats, with the last half repeat showing similarity to only the first 20 amino acids of a full repeat. To reduce the risk of recombination events between the 17.5 highly homologous repeat sequences, we codon-optimized avrBs3 applying the codon usage.<br />
 
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&emsp;&emsp;&emsp;&emsp;&emsp; In a single Golden Gate cloning reaction, cloning efficiency is significantly reduced for assembly of 17 repeat modules. Therefore, we split the assembly in two successive steps. In the first cloning step, 10 repeats are assembled in one vector. The preassembly vectors confer SpecR and encode a lacZ-α fragment for blue/white selection. On both sides of the lacZ-α fragment a type IIS recognition sequence - BsaI - is positioned. Similarly, 11~17 repeats and NG-last-repeat are respectively ligated and inserted into another vector. After preassembly of the 10 and 7 and last repeats using BsaI, the intermediate blocks are released via Esp3I and cloned into the final assembly vector (modified pTAL1). Modified pTAL1 confers AmpR, and allows plasmid replication in E.coli. The vector pTAL1 also contains all elements of the final TALE expression construct, except the repeat modules.</p>
 
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<h1>Modeling</h1>
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<p>&emsp;&emsp;&emsp;&emsp;&emsp; In modeling part, genetic algorithm is applied to TALE sequence optimization. We exploit amino acid degeneracy and alternate the nucleotides to reduce the repetition rate of DNA bases of the DNA sequence of TALE. Then the optimized TALE will be tested by biological experiments. We divide our algorithm into four parts. First, we alternate a random point of natural DNA sequence of TALE. It is the same as gene mutation. Thousands of mutational sequences form a population and we simulate the process of reproduction in computer. The population will be changed by exchange of parts of DNA. Then each sequence will be estimated by dynamic programming and given a score. The high scored sequences have higher possibility to survive and the lower ones are more likely to be obsoleted. After more than 200 generations, an optimized population will be created. And we choose a certain number of the sequences to be tested in the next biological test.</p>
 
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<h1>Report System</h1>
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<p>  &emsp;&emsp;&emsp;&emsp;&emsp; We construct a report system so as to test the reliability and efficiency of our ‘Telling TALE’. In this section, we test the TALE’s DNA binding ability and report it with a common report gene ‘RFP’. We attempt to put the target of TALE’s DNA binding target sequence inside the expression cassette of report gene and binding TALE can disrupt the express of report gene. We use iGEM standard parts to build our report system.</p>
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<h1>Reference</h1>
 
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<p>  &emsp;&emsp;&emsp;&emsp;&emsp;1. <i> Assembly of Designer TAL Effectors by Golden Gate Cloning</i>, Weber E, Gruetzner R, Werner S, Engler C, Marillonnet S (2011),  PLoS ONE 6(5): e19722. doi:10.1371/journal.pone.0019722</p>
 
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</tr></table>
 +
<div class='formBannerOther formBannerOther37'>
 +
<div class='formBannerBtn formBannerBtn37'>
 +
<a hidefocus='true' href='javascript:;' onclick='Site.closeAd("module37");return false;' class='g_close'><span style='_display:none;' >&nbsp;</span></a>
 +
</div>
 +
</div>
 +
</td>
 +
<td class='right right37'></td>
 +
</tr></table>
 +
<table class='formMiddle formMiddle37' cellpadding='0' cellspacing='0'><tr>
 +
<td class='formMiddleLeft formMiddleLeft37'></td>
 +
<td class='formMiddleCenter formMiddleCenter37' valign='top'>
 +
<div class='formMiddleContent formMiddleContent37  '>
 +
<div class='shareInfo'><div class='shareCtrl shareNotTitlePanel shareMt'><a hidefocus='true' title='分享到腾讯微博'  href='javascript:;' onclick='window.open("http://v.t.qq.com/share/share.php?title=%E3%80%90suneamon%E3%80%91http%3A%2F%2Fwww.suneamon.icoc.cc%2F%3F_sc%3D1&url=http://www.suneamon.icoc.cc/?_sc=1&pic=")'><div class='shareIcon qq_weibo'></div><div class='shareCtrl'>腾讯微博</div></a><a hidefocus='true' title='分享到复制网址'  href='javascript:;'  onclick="Site.copyWebSite('http://www.suneamon.icoc.cc')"><div class='shareIcon copy'></div><div class='shareCtrl'>复制网址</div></a><a hidefocus='true' title='分享到新浪微博'  href='javascript:;' onclick='window.open("http://service.weibo.com/share/share.php?title=%E3%80%90suneamon%E3%80%91http%3A%2F%2Fwww.suneamon.icoc.cc%2F%3F_sc%3D1&url=http://www.suneamon.icoc.cc/?_sc=1&pic=")'><div class='shareIcon sina_weibo'></div><div class='shareCtrl'>新浪微博</div></a><a hidefocus='true' title='分享到QQ空间'  href='javascript:;' onclick='window.open("http://sns.qzone.qq.com/cgi-bin/qzshare/cgi_qzshare_onekey?summary=http%3A%2F%2Fwww.suneamon.icoc.cc%2F%3F_sc%3D1&url=http://www.suneamon.icoc.cc/?_sc=1&pics=&title=%E3%80%90suneamon%E3%80%91")'><div class='shareIcon qq_zone'></div><div class='shareCtrl'>QQ空间</div></a><a hidefocus='true' title='分享到开心网'  href='javascript:;' onclick='window.open("http://www.kaixin001.com/rest/records.php?content=%E3%80%90suneamon%E3%80%91http%3A%2F%2Fwww.suneamon.icoc.cc%2F%3F_sc%3D1&style=11")'><div class='shareIcon kaixin001'></div><div class='shareCtrl'>开心网</div></a><a hidefocus='true' title='分享到人人网'  href='javascript:;' onclick='window.open("http://widget.renren.com/dialog/share?resourceUrl=http://www.suneamon.icoc.cc/?_sc=1&description=http%3A%2F%2Fwww.suneamon.icoc.cc%2F%3F_sc%3D1&title=%E3%80%90suneamon%E3%80%91&pic=")'><div class='shareIcon renren'></div><div class='shareCtrl'>人人网</div></a><a hidefocus='true' title='分享到豆瓣网'  href='javascript:;' onclick='window.open("http://shuo.douban.com/!service/share?name=%E3%80%90suneamon%E3%80%91http%3A%2F%2Fwww.suneamon.icoc.cc%2F%3F_sc%3D1&text=http://www.suneamon.icoc.cc/?_sc=1&image=")'><div class='shareIcon douban'></div><div class='shareCtrl'>豆瓣网</div></a><a hidefocus='true' title='分享到淘江湖'  href='javascript:;' onclick='window.open("http://share.jianghu.taobao.com/share/addShare.htm?url=http://www.suneamon.icoc.cc/?_sc=1&title=%E3%80%90suneamon%E3%80%91")'><div class='shareIcon taojianghu'></div><div class='shareCtrl'>淘江湖</div></a><a hidefocus='true' title='分享到搜狐微博'  href='javascript:;' onclick='window.open("http://t.sohu.com/third/post.jsp?url=http%3A%2F%2Fwww.suneamon.icoc.cc%2F%3F_sc%3D1&title=%A1%BEsuneamon%A1%BF")'><div class='shareIcon sohu_weibo'></div><div class='shareCtrl'>搜狐微博</div></a><a hidefocus='true' title='分享到网易微博'  href='javascript:;' onclick='window.open("http://t.163.com/article/user/checkLogin.do?info=%E3%80%90suneamon%E3%80%91http%3A%2F%2Fwww.suneamon.icoc.cc%2F%3F_sc%3D1&images=&togImg=true")'><div class='shareIcon netease_weibo'></div><div class='shareCtrl'>网易微博</div></a><a hidefocus='true' title='分享到百度空间'  href='javascript:;' onclick='window.open("http://apps.hi.baidu.com/share/?content=http%3A%2F%2Fwww.suneamon.icoc.cc%2F%3F_sc%3D1&url=http://www.suneamon.icoc.cc/?_sc=1&title=%E3%80%90suneamon%E3%80%91")'><div class='shareIcon baidu_hi'></div><div class='shareCtrl'>百度空间</div></a><a hidefocus='true' title='分享到百度贴吧'  href='javascript:;' onclick='window.open("http://tieba.baidu.com/i/app/open_share_api?comment=&pic=&url=http://www.suneamon.icoc.cc/?_sc=1&title=%E3%80%90suneamon%E3%80%91http%3A%2F%2Fwww.suneamon.icoc.cc%2F%3F_sc%3D1")'><div class='shareIcon baidu_tieba'></div><div class='shareCtrl'>百度贴吧</div></a></div><div class='clearfloat'></div></div></div>
 +
</td>
 +
<td class='formMiddleRight formMiddleRight37'></td>
 +
</tr></table>
 +
<table class='formBottom formBottom37' cellpadding='0' cellspacing='0'><tr><td class='left left37'></td><td class='center center37'></td><td class='right right37'></td></tr></table>
 +
<div class='clearfloat clearfloat37'></div>
 +
</div>
 +
 
 +
 
 +
</div>
 +
</div>
 +
<div class="floatLeftBottom">
 +
<div id="floatLeftBottomForms" class="forms sideForms floatForms">
 +
 +
</div>
 +
</div>
 +
<div class="floatRightBottom">
 +
<div id="floatRightBottomForms" class="forms sideForms floatForms">
 +
 +
</div>
 +
</div>
 +
 
 +
 
 +
 
 +
 
 +
 
 +
 
 +
 
 +
 +
 
 +
<div id="bgMusic"  class="bgMusic">
 +
 +
</div>
 +
 +
 
 +
 
 +
<script type="text/javascript" src="http://0.ss.faidns.com/js/comm/jquery/jquery-core.min.js?v=201404111745"></script>
 +
<script type="text/javascript" src="http://0.ss.faidns.com/js/comm/jquery/jquery-mousewheel.min.js?v=201408111734"></script>
 +
<script type="text/javascript" src="http://0.ss.faidns.com/js/comm/fai.min.js?v=201409221731"></script>
 +
<script type="text/javascript" src="http://0.ss.faidns.com/js/comm/jquery/jquery-ui-core.min.js?v=201409151747"></script>
 +
<script type="text/javascript" src="http://0.ss.faidns.com/js/site.min.js?v=201410141438"></script>
 +
<script type="text/javascript" src="http://0.ss.faidns.com/js/locale/2052.min.js?v=201407141810"></script>
 +
<script type="text/javascript" src="http://0.ss.faidns.com/js/comm/ZeroClipboard/ZeroClipboard.min.js?v=201212061014"></script>
 +
 
 +
 
 +
 
 +
 
 +
 
 +
 
 +
<script type="text/javascript">
 +
Fai.top = window;
 +
var bgmCloseToOpen = false;
 +
window.onerror = function() {
 +
if (typeof Site == 'undefined') {
 +
alert('您的网页未加载完成，请尝试按“CTRL+功能键F5”重新加载。');
 +
}
 +
};
 +
var _colOtherStyleData = {"independentList":[],"y":0,"h":0,"layout4Width":0,"layout5Width":0}; // 当前页面的数据   
 +
var _templateOtherStyleData = {"h":584,"independentList":[],"y":0,"layout4Width":0,"layout5Width":0}; // 全局的数据 
 +
$(function() {
 +
if(false){
 +
Fai.ing("",true);
 +
}
 +
//topBarMember
 +
 +
 +
// 管理态下, QQ/微博登陆 禁止登陆
 +
if( _manageMode ) {
 +
$('#memberBar .l_Btn').click(function(){
 +
Fai.ing('您目前处于网站管理状态，请先点击网站右上方的“退出”后再登录会员。', true);
 +
});
 +
//绑定放大镜遮罩效果事件
 +
Site.bindEventToOverLayer();
 +
}
 +
 +
 +
 +
 +
var faiscoAd = $.cookie('faiscoAd',{path:'/'});
 +
 +
if( true && faiscoAd !== "false" ){
 +
$(".siteAdvertisement_box").show();
 +
}
 +
 +
 +
 
 +
 +
 +
 +
 +
// 绑定退出事件
 +
$(window).bind("beforeunload", function(e) {
 +
 
 +
 +
if(bgmCloseToOpen){
 +
Site.bgmFlushContinue();
 +
}
 +
 +
 +
 +
 +
 +
});
 +
 +
 
 +
Site.initTemplateLayout(1, true);
 +
 
 +
// spider统计
 +
 +
 
 +
 +
// ajax统计
 +
Site.total({colId:2, pdId:-1, ndId:-1, sc:0, rf:"http://suneamon.faisco.cn/index.jsp"});
 +
//保留旧用户的初始化版式区域4 和区域5 中，区域4的padding-right空间
 +
Site.colLayout45Width();
 +
 
 +
Site.initBanner({"_open":true,"data":[{"title":"","desc":"","imgWidth":1440,"imgHeight":380,"src":"http://0.ss.faidns.com/image/template/banners/1831.jpg"}],"width":1440,"height":380,"playTime":4000,"animateTime":1500,"from":"banner","btnType":1}, {"_open":true,"type":64,"position":0,"positionTop":0,"positionLeft":0,"text1":"自定义文字1","text2":"自定义文字2","style1":"宋体","style2":"宋体","color1":"#000","color2":"#FFFFFF","size1":"50","size2":"30"}, 4);
 +
Site.loadProductTile(306, false, true, -1);
 +
 
 +
Site.loadNewsList(316);
 +
 
 +
 
 +
 
 +
 
 +
 +
 
 +
 
 +
Site.initPage(); // 这个要放在最后，因为模块组初始化时会把一些模块隐藏，导致没有高度，所以要放最后执行
 +
 
 +
 +
 +
 +
setTimeout("afterModuleLoaded()", 0);
 +
 
 +
if( _manageMode ) {
 +
 +
}
 +
 +
if (!_oem && _manageMode) {
 +
Site.siteGuideInit();
 +
if( false ){
 +
$.cookie('_loadedRegStatIframe',true,{ expires: 2 });
 +
}
 +
}
 +
 +
});
 +
 
 +
function afterModuleLoaded() {
 +
Site.initPage2();
 +
 
 +
 
 +
} // afterModuleLoaded end
 +
 
 +
var _portalHost = 'www.faisco.cn';
 +
 
 +
var _lcid = 2052;
 +
var _userHostName = 'www.suneamon.icoc.cc';
 +
var _siteDomain = 'http://www.suneamon.icoc.cc';
 +
var _signupDays = 0;
 +
var _cid = 4438089;
 +
var _resRoot = 'http://0.ss.faidns.com';
 +
var _colId = 2;
 +
var _extId = 0;
 +
var _fromColId = -1;
 +
var _designAuth = false;
 +
var _manageMode = false;
 +
var _oem = false;
 +
var _siteAuth = 0;
 +
var _adm = false;
 +
var _siteVer = 10;
 +
var _manageStatus = false;
 +
 
 +
var nav2SubMenu=[];
 +
var nav12SubMenu=[];
 +
var nav21SubMenu=[];
 +
var nav9SubMenu=[];
 +
var nav101SubMenu=[];
 +
var nav102SubMenu=[];
 +
 
 +
var _customBackgroundData = {"styleDefault":true,"s":true,"h":false,"r":3,"o":"","sw":-1,"e":0,"wbh":-1,"wbw":-1,"clw":-1,"crw":-1,"id":"","p":"","bBg":{"y":0,"r":3,"f":"","p":"","c":"#000"},"cBg":{"y":0,"r":3,"f":"","p":"","c":"#000"},"cmBg":{"y":0,"r":3,"f":"","p":"","c":"#000"}};          //自定义的数据
 +
var _templateBackgroundData = {"styleDefault":true,"s":true,"h":false,"r":3,"o":"","sw":-1,"e":0,"wbh":-1,"wbw":-1,"clw":-1,"crw":-1,"id":"","p":"","bBg":{"y":0,"r":3,"f":"","p":"","c":"#000"},"cBg":{"y":0,"r":3,"f":"","p":"","c":"#000"},"cmBg":{"y":0,"r":3,"f":"","p":"","c":"#000"}};// 模版的数据
 +
var _useTemplateBanner = true; // 是否使用全局模版
 +
var _templateBannerData = {"ce":{"c1":"#000","c2":"#FFFFFF"},"pl":0,"n":[{"t":0,"i":"1831","e":0,"u":"","p":"http://0.ss.faidns.com/image/template/banners/1831.jpg","w":1440,"h":380}],"s":4,"o":true,"t":64,"i":4000,"a":1500,"h":false,"p":0,"pt":0,"bt":1,"l":[],"f":{},"c":3}; // 模版的数据
 +
var _pageBannerData = {"s":0,"i":4000,"a":1500,"h":false,"o":false,"t":1,"p":0,"pt":0,"pl":0,"bt":1,"l":[],"f":{},"ce":{},"n":[],"c":3}; // 当前页面的自定义数据（页面独立样式设置）
 +
var _bannerData = _templateBannerData;
 +
 
 +
 
 +
var _aid = 4438089;
 +
var _templateLayout = 1;
 +
var _webBannerHeight = -1;
 +
</script>
 +
 
 +
 
 +
 
 +
</body>
 +
</html>

Revision as of 17:32, 14 October 2014

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suneamon

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XXX广告有限公司成立于0000年，是XXX地区有影响力的一家专业影视制作基地。拥有一流的演播厅、专业录音系统、世界领先的专业数码摄影设备、灯光设备、国内最先进的后期剪辑非编系统和三维制作能力。

XXX广告有一支专业的智囊团队。拥有实力不凡的前后期专业制作队伍，并联合新加坡、香港、广州最优秀的制作力量。在文案创意、成本控制、制作流程等方面经验丰富，前期筹划、拍摄实施、后期制作、特技合成一气呵成，可为客户提供全方位的广告策划、投放、制作服务，赋予客户最大的附加值。

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