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User:Serkan/test2/known2: Difference between revisions

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(Replaced content with "{{Known motif|name=known2}}")
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<html>
{{Known motif|name=known2}}
<title>known motifs</title>
<script type="text/javascript" src="/resource_browser/rb_js/datatables/media/js/jquery.dataTables.min.js"></script>
<style type="text/css" title="currentStyle">
@import "/resource_browser/rb_js/datatables/media/css/jquery.dataTables.css";
</style>
<script type="text/javascript">
var global_name="";
var motif_prefix="";
var sReturn ="";
var motif_id ="";
/* Formating function for row details */
 
$(document).ready(function() {
      $('#example').dataTable( {
        "aaData": [
    {"0":"HOCOMOCO:ZFHX3_f1","1":"HOCOMOCO:ZFHX3_f1"},
{"0":"HOCOMOCO:ARI3A_f1","1":"HOCOMOCO:ARI3A_f1"},
{"0":"HOCOMOCO:HXD9_f1","1":"HOCOMOCO:HXD9_f1"},
{"0":"HOCOMOCO:PDX1_do","1":"HOCOMOCO:PDX1_do"},
{"0":"HOCOMOCO:HXD4_f1","1":"HOCOMOCO:HXD4_f1"},
{"0":"HOCOMOCO:HXC8_f1","1":"HOCOMOCO:HXC8_f1"},
{"0":"HOCOMOCO:LHX3_f1","1":"HOCOMOCO:LHX3_f1"},
{"0":"JASPAR:Nobox;MA0125.1","1":"JASPAR:Nobox;MA0125.1"},
{"0":"JASPAR:Nkx2-5;MA0063.1","1":"JASPAR:Nkx2-5;MA0063.1"}
        ], 
          "aoColumns": [
            { "sTitle": "motif type","fnRender": function(obj) {
                      sReturn = obj.aData[ obj.iDataColumn ];
                              sReturn = sReturn.split(":");
                              motif_prefix = sReturn[0];
      return motif_prefix ;
    }
          },
            { "sTitle": "motif name", "fnRender": function ( obj ) {
sReturn = obj.aData[ obj.iDataColumn ];
var SReturn_org = sReturn ;
var browser_link=global_name=SReturn_org ;
sReturn = sReturn.split(":");
motif_prefix=sReturn[0];
motif_id = sReturn[1];
if(motif_prefix =="JASPAR"){
sReturn = sReturn[1].split(";");
motif_id = sReturn[1];
browser_link=motif_prefix +"_motif:"+motif_id;
}
return '<a href=/resource_browser/'+browser_link+'>'+motif_id +'</a>';}}
,
{ "sTitle": "Sequence logos", "mData": 1, "mRender": function (data) {
 
var number_prefix ="";
var SReturn_org = global_name;
motif_prefix = SReturn_org .split(":")[0];
motif_id=  SReturn_org .split(":")[1];
if(motif_prefix == "HOCOMOCO"){
number_prefix = "426";
}
else if(motif_prefix == "JASPAR"){
number_prefix = "130";
motif_id= SReturn_org .split(":")[1].split(";")[1];
}
else if(motif_prefix == "HOMER"){
number_prefix = "138";
}
else if(motif_prefix == "SWISSREGULON"){
number_prefix = "190";
}
else if(motif_prefix == "UNIPROBE"){
number_prefix = "413";
}
else if(motif_prefix == "ENCODE"){
number_prefix = "683";
}
 
motif_prefix = "KNOWN"+"_"+motif_prefix +"_"+number_prefix+"_201304";
return '<img src="/resource_browser/seqlogos/' +motif_prefix+"/"+ motif_id+ '.png" width ="80" height = "20">'; }
}
 
 
                      ] 
      } ); 
} );
</script>
 
</head>
<body>
<table cellpadding="0" cellspacing="0" border="0" class="display" id="example"></table>
     
</body>
 
</html>

Revision as of 11:53, 22 April 2013

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 :known2
  • db  :{{{representative_motif_db}}}
  • Id  :{{{representative_motif_id}}}
  • name  :{{{representative_motif_name}}}
  • score  :{{{score}}}"{{{score}}}" is not a number.
  • External refs:
EntrezGene:{{{entrez_gene_id}}}
UniProt:{{{entrez_gene_id}}}

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


Motif matrix
{{{PWM}}}

Sub Motif Members