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Template:Known motif: Difference between revisions

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<html>
<html>
<style type="text/css" title="currentStyle">
<style type="text/css" title="currentStyle">
@import "/resource_browser/rb_js/datatables/media/css/jquery.dataTables.css";
@import "/5/sstar/rb_js/datatables/media/css/jquery.dataTables.css";
@import "/resource_browser/rb_js/datatables/extras/TableTools/media/css/TableTools.css";
@import "/5/sstar/rb_js/datatables/extras/TableTools/media/css/TableTools.css";
</style>
</style>
<script type="text/javascript" src="/resource_browser/rb_js/datatables/media/js/jquery.dataTables.min.js"></script>
<script type="text/javascript" src="/5/sstar/rb_js/datatables/media/js/jquery.dataTables.min.js"></script>
<script type="text/javascript" src="/resource_browser/rb_js/datatables/extras/TableTools/media/js/TableTools.min.js"></script>
<script type="text/javascript" src="/5/sstar/rb_js/datatables/extras/TableTools/media/js/TableTools.min.js"></script>
<style type="text/css">
<style type="text/css">
#wrap{
#wrap{
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"sScrollY": "500px",
"sScrollY": "500px",
"bScrollCollapse": true,
"bScrollCollapse": true,
                "iDisplayLength": 5,
"aLengthMenu": [[5, 10, -1], [5, 10, "All"]],
"bPaginate": true,
"bPaginate": true,
"bFilter": true,
"bFilter": true,
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if(motif_db== "JASPAR"){
if(motif_db== "JASPAR"){
  sReturn =motif_db+"_motif:"+motif_id;
  sReturn =motif_db+"_motif:"+motif_id;
                   return '<a href=/resource_browser/'+sReturn+'>'+motif_id+'</a>';
                   return '<a href=/5/sstar/'+sReturn+'>'+motif_id+'</a>';
}else
}else
{
{
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$('.dataTables_scrollBody').css("resize", "vertical");
$('.dataTables_scrollBody').css("resize", "vertical");
motif_table_tools = new TableTools( motif_table, {"sSwfPath": "/resource_browser/rb_js/datatables/extras/TableTools/media/swf/copy_csv_xls_pdf.swf", "aButtons": [ {"sExtends": "copy", "mColumns": "visible"}, {"sExtends": "csv", "mColumns": "visible"}, {"sExtends": "pdf", "mColumns": "visible"} ]});
motif_table_tools = new TableTools( motif_table, {"sSwfPath": "/5/sstar/rb_js/datatables/extras/TableTools/media/swf/copy_csv_xls_pdf.swf", "aButtons": [ {"sExtends": "copy", "mColumns": "visible"}, {"sExtends": "csv", "mColumns": "visible"}, {"sExtends": "pdf", "mColumns": "visible"} ]});


$('#motif_export_tool').before( motif_table_tools.dom.container );
$('#motif_export_tool').before( motif_table_tools.dom.container );
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var uri = decodeURIComponent(motif_id);
var uri = decodeURIComponent(motif_id);


return '<a class="" href="/resource_browser/seqlogos/'+tmp+"/"+ uri + '.png"><img src="/resource_browser/seqlogos/'+tmp+"/"+ uri +'.png" width="80px" height="26px" border="0"/></a>';
return '<a class="" href="/5/sstar/seqlogos/'+tmp+"/"+ uri + '.png"><img src="/5/sstar/seqlogos/'+tmp+"/"+ uri +'.png" width="80px" height="26px" border="0"/></a>';


    
    
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* name    :[[motifname::{{{representative_motif_name}}}]]
* name    :[[motifname::{{{representative_motif_name}}}]]
* score    :[[motifscore::{{{score}}}]]<br>
* score    :[[motifscore::{{{score}}}]]<br>
* External refs:  
* External refs: {{#arraymap:{{{entrez_gene_id}}}|,|$|
{{#arraymap:{{{entrez_gene_id}}}|,|$|
<span>
<span>
:[http://www.ncbi.nlm.nih.gov/gene?term=$  EntrezGene:[[GeneID::$]]]<html><br></html>[http://www.uniprot.org/uniprot/?query=$  UniProt:$]
:[http://www.ncbi.nlm.nih.gov/gene?term=$  EntrezGene:[[GeneID::$]]]<html><br></html>[http://www.uniprot.org/uniprot/?query=$  UniProt:$]
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|}}
|}}


* Internal refs:  
* Internal refs: {{#arraymap:{{{entrez_gene_id}}}|,|$|
{{#arraymap:{{{entrez_gene_id}}}|,|$|
<span>
<span>
:[[EntrezGene:$]]<html><br></html>
:[[EntrezGene:$]]<html><br></html>
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}
}


var tmp ="/resource_browser/seqlogos/"+ "known_motifs"+"_201304"+"/"+motif_id.toLowerCase()+".png";
var tmp ="/5/sstar/seqlogos/"+ "known_motifs"+"_201304"+"/"+motif_id.toLowerCase()+".png";
var uri = encodeURI(tmp);
var uri = encodeURI(tmp);
  return number_prefix='<img src="'+uri+'"  id="pic" width ="310" height = "100">'
  return number_prefix='<img src="'+uri+'"  id="pic" width ="310" height = "100">'

Latest revision as of 15:19, 24 August 2015

Representative Motif

<br>Analyst: Ivan Kulakovskiy,Ilya Vorontsov, Vsevolod Makeev, Michiel de Hoon <br>May 2013, Collection Name: Non-redundant known motifs<br>Analysis information: 208 clusters of known motifs were produced by MACRO-APE [1] using the general phase1 motif clustering procedure applied for known motif collections.<br>207 of 208 clusters had at least one member passing motif-promoter correlation procedure.For these clusters representative motifs were selected based on motif-promoter correlation values.For each cluster only motifs with an average distance to of ther members not greater than mean+SD were considered as representatives.

  • Name  :{{{name}}}
  • db  :{{{representative_motif_db}}}
  • Id  :{{{representative_motif_id}}}
  • name  :{{{representative_motif_name}}}
  • score  :{{{score}}}
  • External refs:
EntrezGene:{{{entrez_gene_id}}}
UniProt:{{{entrez_gene_id}}}

  • Internal refs:
[[EntrezGene:{{{entrez_gene_id}}}]]


Motif matrix
{{{PWM}}}

Sub Motif Members