<!DOCTYPE HTML PUBLIC "-//W3C//DTD HTML 4.0 Transitional//EN"> <HTML><HEAD><TITLE>GenomeGraph / The GeneNetwork</TITLE> <META http-equiv=Content-Type content="text/html; charset=iso-8859-1"> <LINK REL="stylesheet" TYPE="text/css" HREF='css/general.css'> <LINK REL="stylesheet" TYPE="text/css" HREF='css/menu.css'> <SCRIPT SRC="javascript/webqtl.js"></SCRIPT> </HEAD> <BODY bottommargin="2" leftmargin="2" rightmargin="2" topmargin="2" text=#000000 bgColor=#ffffff onload="javascript:initialDatasetSelection()"> <TABLE cellSpacing=5 cellPadding=4 width="100%" border=0> <TBODY> <TR> <script language="JavaScript" src="/javascript/header.js"></script> </TR> <TR> <TD bgColor=#eeeeee class="solidBorder"> <Table width= "100%" cellSpacing=0 cellPadding=5><TR> <!-- Body Start from Here --> <TD vAlign=top width="45%" bgColor=#eeeeee> <P class="title">Introduction <A HREF="webqtl/main.py?FormID=editHtml"> <img src="images/modify.gif" alt="modify this page" border= 0 valign="middle"></A></P> <BLOCKQUOTE> <A HREF="gghelp.html" target="_empty" class="fs14">GenomeGraph</A> is designed to help discover genetic sources of variation in trait and transcript expression at a global level. Choose a database and click on the Mapping button. The y-axis marks the physical locations of genes from which transcripts are synthesized. In contrast, the x-axis plots the locations of the highest <A HREF="glossary.html#L" target="_empty" class="fs14">LRS</A> values associated with each trait or transcript; in essence, the location of the best QTL. The false discovery rate (FDR) can be tuned from 1 (all data shown) to values between 0.1 and 0.01 (only transcripts with significant QTLs shown). <P>Note that many data set results are still being computed. You may encounter an "in progress" message. <P>For a more complete explanation see Chesler, Lu and colleagues (<A HREF="http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=pubmed&dopt=Abstract&list_uids=15711545" class="fs14" target="_empty">2005</A>), or the <A HREF="gghelp.html" target="_empty" class="fs14">GenomeGraph Help</A> page. </BLOCKQUOTE> </TD> <TD vAlign=top width="55%" bgColor=#eeeeee> <P class="title">Choose Data Set</P> <Center> <Form METHOD="POST" ACTION="webqtl/main.py" ENCTYPE="multipart/form-data" NAME="SEARCHFORM"> <TABLE width="90%"> <TR> <TD align=right height=40> <P>Choose Species</P> </TD> <TD width=20> </TD> <TD NOWRAP> <DIV Id="menu0"> <Select NAME="species" size=1 id="species" onChange="fillOptions('species');"> </Select> </DIV> </TD> </TR> <TR> <TD align=right height=40> <P>Group</P> </TD> <TD width=20> </TD> <TD NOWRAP> <DIV Id="menu1"> <Select NAME="cross" size=1 id="cross" onChange="fillOptions('cross');"> </Select> <input type="button" class="button" value="Info" onCLick="javascript:crossinfo();"> </DIV> </TD> </TR> <TR> <TD align=right height=40> <P>Type</P> </TD> <TD width=20> </TD> <TD NOWRAP> <DIV Id="menu2"><Select NAME="tissue" size=1 id="tissue" onChange="fillOptions('tissue');"> </Select> </DIV> </TD> </TR> <TR> <TD align=right height=40> <P>Database</P> </TD> <TD width=20> </TD> <TD NOWRAP> <DIV Id="menu3"> <Select NAME="database" size=1 id="database"> </Select> <input type="button" class="button" value="Info" onCLick="javascript:databaseinfo();"> </DIV> </TD> </TR> <TR> <TD colspan=3 align="center" height=50> <input type="button" CLASS="button" value="Mapping" onClick="databaseFunc(this.form, 'transciptMapping');"> <input type="button" CLASS="button" value="Download" onClick="databaseFunc(this.form, 'genAllDbResult', 'Generating Excel file, please wait.');"> <input type="button" CLASS="button" value="Set To Default" onClick="setDefault(this.form);"> </TD> </TR> </TABLE> <INPUT TYPE="hidden" NAME="FormID" VALUE="searchResult"> <INPUT TYPE="hidden" NAME="RISet" VALUE="BXD"> <SCRIPT src="/javascript/selectDatasetMenu.js"></SCRIPT> </Form> </center> </TD> </TR></TABLE> </TD> </TR> <TR> <TD align=center bgColor=#ddddff class="solidBorder"> <!--Start of footer--> <TABLE width="90%"> <script language='JavaScript' src='/javascript/footer.js'></script> </TABLE> <!--End of footer--> </TD> </TR> </TABLE> <!-- /Footer --> <script language="JavaScript" src="javascript/menu_new.js"></script> <script language="JavaScript" src="javascript/menu_items.js"></script> <script language="JavaScript" src="javascript/menu_tpl.js"></script> <script language="JavaScript"> <!--// new menu (MENU_ITEMS, MENU_POS); //--> </script> <script src="http://www.google-analytics.com/urchin.js" type="text/javascript"> </script> <script type="text/javascript"> _uacct = "UA-3782271-1"; urchinTracker(); </script> </BODY> </HTML>