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											<P class="fs12">&nbsp;&nbsp;&nbsp;&nbsp;Databases marked with <B>**</B> suffix are not public yet. 
											<BR>&nbsp;&nbsp;&nbsp;&nbsp;Access requires <A HREF="http://www.genenetwork.org/account.html" target="_blank" class="fs14"><small>user login</small></A>.</P>
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											<P class="fs12">&nbsp;&nbsp;&nbsp;&nbsp;Enter terms, genes, ID numbers in the <B>Get Any</B> field.  
											<BR>&nbsp;&nbsp;&nbsp;&nbsp;Use <B>*</B> or <B>?</B> wildcards (Cyp*a?, synap*).
											<BR>&nbsp;&nbsp;&nbsp;&nbsp;Use <B>Combined</B> for terms such as <I>tyrosine kinase</I>.</P>
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<P><LEFT>&nbsp;______________________________________________________

<P STYLE="font-size:13px;font-family:verdana;color:black"><B>&nbsp;

Quick HELP Examples and </B>
<A HREF="http://www.genenetwork.org/index4.html" target="_blank"  class="fs14"><B>
 User's Guide</B></A></P>


</CENTER style="font-size:12px;font-family:verdana;color:black">
&nbsp;&nbsp;You can also use advanced commands. Copy these simple examples 
<BR>&nbsp;&nbsp;into the <B>Get Any</B> or <B>Combined</B> search fields:
<UL style="font-size:12px;font-family:verdana;color:black">

<LI><B><I>POSITION=(chr1 25 30)</I></B> finds genes, markers, or transcripts on chromosome 1 between 25 and 30 Mb.

<LI><B><I>MEAN=(15 16) LRS=(23 46)</I></B> in the <B>Combined</B> field finds highly expressed genes (15 to 16 log2 units) AND with peak <A HREF="http://www.genenetwork.org/glossary.html#L" target="_blank"  class="fs14"><small>LRS</small></A> linkage between 23 and 46.

<LI><B><I>RIF=mitochondrial</I></B> searches RNA databases for <A HREF="http://www.ncbi.nlm.nih.gov/projects/GeneRIF/GeneRIFhelp.html" target="_blank"  class="fs14"><small>GeneRIF</small></A> links.

<LI><B><I>WIKI=nicotine</I></B> searches <A HREF="http://www.genenetwork.org/webqtl/main.py?FormID=geneWiki" target="_blank"  class="fs14"><small>GeneWiki</small></A> for genes that you or other users have annotated with the word <I>nicotine</I>.

<LI><B><I>GO:0045202</I></B> searches for synapse-associated genes listed in the <A HREF="http://www.godatabase.org/cgi-bin/amigo/go.cgi" target="_blank"  class="fs14"><small>Gene Ontology</small></A>.

<LI><B><I>GO:0045202 LRS=(9 99 Chr4 122 155) cisLRS=(9 999 10)</I> </B><BR> in <B>Combined</B> finds synapse-associated genes with <A HREF="http://www.genenetwork.org/glossary.html#E" target="_blank"  class="fs14"><small>cis eQTL</small></A> on Chr 4 from 122 and 155 Mb with LRS scores between 9 and 999.

<LI><B><I>RIF=diabetes LRS=(9 999 Chr2 100 105) transLRS=(9 999 10)</I> </B><BR> in <B>Combined</B> finds diabetes-associated transcripts with peak <A HREF="http://www.genenetwork.org/glossary.html#E" target="_blank"  class="fs14"><small>trans eQTLs</small></A> on Chr 2 between 100 and 105 Mb with LRS scores between 9 and 999.

</UL> 
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							<p style="font-size:15px;font-family:verdana;color:black"><B>Top New Features</B> &nbsp;&nbsp; </p>
							<BLOCKQUOTE>
								<p style="font-size:12px;font-family:verdana;color:black"> <A HREF="http://ucscbrowser.genenetwork.org/" target="_blank" class="fs14"><small>RNA-seq and Whole-Genome Sequencing</small></A> data for mouse BXD strains and DBA/2J.</P>
							</BLOCKQUOTE>		

							<BLOCKQUOTE>
								<p style="font-size:12px;font-family:verdana;color:black"> <A HREF="http://galaxy.genenetwork.org/" target="_blank" class="fs14"><small>CITG Open Galaxy Service</small></A>: 200-core cluster at UTHSC for next-gen sequence analysis.</P>
							</BLOCKQUOTE>


							<P>____________________________



						
							<p style="font-size:15px;font-family:verdana;color:black"><B>Getting Started</B> &nbsp;&nbsp; </p>
							<OL style="font-size:12px;font-family:verdana;color:black">
								<LI>Select <B>Species</B> (or select All) 
								<LI>Select <B>Group</B> (a specific sample)
								<LI>Select <B>Type</B> of data:  
								<UL>
									<LI>Phenotype (traits)
									<LI>Genotype (markers)
									<LI>Expression (mRNAs)
								</UL>
								<LI>Select a <B>Database</B> 
								<LI>Enter search terms in the <B>Get Any</B> or <B>Combined</B> field: words, genes, ID numbers, probes, advanced search commands 
								<LI>Click on the <B>Search</B> button
								<LI>Optional: Use the <B>Make Default</B> button to save your preferences
							
							</OL>
							<P>____________________________

<p style="font-size:14px;font-family:verdana;color:black"><B>How to Use GeneNetwork</B>

							<BLOCKQUOTE>
								<p style="font-size:12px;font-family:verdana;color:black">Take a 20-40 minute GeneNetwork <A HREF="http://www.genenetwork.org/tutorial/WebQTLTour/" target="_blank" class="fs14"><small>Tour</small></A> that includes screen shots and typical steps in the analysis.</P>
							</BLOCKQUOTE>							
							<BLOCKQUOTE>
								<p style="font-size:12px;font-family:verdana;color:black">For information about resources and methods, select the <img src="http://www.genenetwork.org/images/upload/Info.png" alt="INFO" border= 0 valign="middle"> buttons.</P>
													
														
<p style="font-size:12px;font-family:verdana;color:black">Try the <A HREF="http://proust.uthsc.edu" target="_blank" class="fs14"><small>Test</small></A> site to explore data and features that are being implemented.</P>


<p style="font-size:12px;font-family:verdana;color:black">Review the <A HREF="conditionsofUse.html" target="_blank" class="fs14"><small>Conditions</small></A> and <A HREF="statusandContact.html" target="_blank" class="fs14"><small>Contacts</small></A> pages for information on the status of data sets and advice on their use and citation.</P> 


							</BLOCKQUOTE>
							

							<p style="font-size:14px;font-family:verdana;color:black"><B>Mirror and Development Sites</B></P>

							<UL>
								<LI><A HREF="http://www.genenetwork.org/" target="_blank" style="font-size:12px;font-family:verdana;color:blue">Main GN site at UTHSC</A> (main site)
								<LI><A HREF="http://www.genenetwork.waimr.uwa.edu.au/" target="_blank" style="font-size:12px;font-family:verdana;color:blue">Australia at the UWA</A>
								<LI><A HREF="http://www.sysgen.org.au/bottom.html" target="_blank" style="font-size:12px;font-family:verdana;color:blue">Genome-Centered Systems Genetics at UWA</A> (Morahan and colleagues)			
								<LI><A HREF="http://gn.genetics.ucla.edu/" target="_blank" style="font-size:12px;font-family:verdana;color:blue">California at UCLA</A>
								<LI><A HREF="http://genenetwork.helmholtz-hzi.de/" target="_blank" style="font-size:12px;font-family:verdana;color:blue">Germany at the HZI</A> (QTLminer site, Development)
								<LI><A HREF="https://genenetwork.hubrecht.eu/" target="_blank" style="font-size:12px;font-family:verdana;color:blue">Netherlands at the Hubrecht</A> (Development)
								<LI><A HREF="http://xzhou3.memphis.edu/" target="_blank" style="font-size:12px;font-family:verdana;color:blue">Memphis at the U of M</A>
								<LI><A HREF="http://gnat.versailles.inra.fr/" target="_blank" style="font-size:12px;font-family:verdana;color:blue">France at INRA, Versailles</A> (Development)
								<LI><A HREF="http://webqtl.bic.nus.edu.sg/" target="_blank" style="font-size:12px;font-family:verdana;color:blue">Singapore at the NUS</A>
 								<LI><A HREF="http://genenetwork.epfl.ch/" target="_blank" style="font-size:12px;font-family:verdana;color:blue">Switzerland at the EPFL</A>
								<LI><A HREF="http://biopubinfo.zju.edu.cn/" target="_blank" style="font-size:12px;font-family:verdana;color:blue">China at ZJU</A> (no update)</li>
							</UL>


							<p style="font-size:14px;font-family:verdana;color:black"><B>History and Archive</B>

							<BLOCKQUOTE>
								<p style="font-size:12px;font-family:verdana;color:black">GeneNetwork's <A HREF="http://artemis.uthsc.edu" target="_blank" class="fs14"><small>Time Machine</small></A> links to earlier versions that correspond to specific publication dates.</P>
							</BLOCKQUOTE> 

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