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<html>
<html>
<script type="text/javascript" language="javascript" src="/resource_browser/rb_js/datatables/media/js/jquery.dataTables.min.js"></script>
<script type="text/javascript" language="javascript" src="/resource_browser/rb_js/datatables/media/js/jquery.dataTables.min.js"></script>
<script type="text/javascript" language="javascript" src="/resource_browser/rb_js/datatables/extras/TableTools/media/js/TableTools.min.js"></script>
<script type="text/javascript" language="javascript" src="/resource_browser/rb_js/datatables/extras/TableTools/media/js/TableTools.min.js"></script>
<script  type="text/javascript" language="javascript" src="/resource_browser/rb_js/prettyPhoto/js/jquery.prettyPhoto.js" ></script>
<style type="text/css" title="currentStyle">
<style type="text/css" title="currentStyle">
@import "/resource_browser/rb_js/datatables/media/css/jquery.dataTables.css";
@import "/resource_browser/rb_js/datatables/media/css/jquery.dataTables.css";
@import "/resource_browser/rb_js/datatables/extras/TableTools/media/css/TableTools.css";
@import "/resource_browser/rb_js/datatables/extras/TableTools/media/css/TableTools.css";
                @import "/resource_browser/rb_js/prettyPhoto/css/prettyPhoto.css";
</style>
</style>
<style type="text/css">
#wrap{
clear: both;
background:#fff;
overflow:hidden;
}
#left_col{
float: left;
display:inline;
width:100%;
height:100%;
background:#fff;
}
#right_col{
float: right;
width:100%;
height:100%;
background:#fff;
}
</style>


<script type="text/javascript">
<script type="text/javascript">
$(document).ready(function() {
$(document).ready(function() {
motif_table=$('.known_motif_list').dataTable( {
motif_table=$('.known_motif_list').dataTable( {
"iDisplayLength": 50,
                "iDisplayLength": 25,
"aLengthMenu": [[25, 100, -1], [25, 100, "All"]],
                "aLengthMenu": [[5, 10, 25, 50, -1], [5, 10, 25, 50, "All"]],
"aaSorting": [[1, "asc"]],
        "aaSorting": [[1, "asc"]],
"aoColumnDefs": [           
                "aoColumnDefs": [           
             { "aTargets": [5],
             { "aTargets": [5],
               "fnRender": function (obj ) {
               "fnRender": function (obj ) {
                 var uri =logoLocator($(obj.aData[0]).text(),$(obj.aData[0]).text());
                 var uri =logoLocator($(obj.aData[0]).text(),$(obj.aData[0]).text());
                 return uri;
                 return uri;
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             },
             },
             {"aTargets":[2], "fnRender": function ( obj ) {
             {"aTargets":[2], "fnRender": function ( obj ) {
                   var motif_id = $(obj.aData[ obj.iDataColumn ]).text();
                   var motif_id = obj.aData[ obj.iDataColumn ];
                   var motif_prefix = motif_id ;
                   var motif_prefix = motif_id ;
                   var motif_db = obj.aData[obj.iDataColumn-1];
                   var motif_db = obj.aData[obj.iDataColumn-1];
if(motif_db =="JASPAR"){
                   var sReturn =motif_db+"_motif:"+motif_id;
                   var sReturn =motif_db+"_motif:"+motif_id;
                   return '<a href=/resource_browser/'+sReturn+'>'+motif_id+'</a>';}
                   return '<a href=/resource_browser/'+sReturn+'>'+motif_id+'</a>';
}
else{
return motif_id ;
}
                  }
},   
},   
{"aTargets":[3], "fnRender": function ( obj ) {
                  var motif_id = obj.aData[ obj.iDataColumn-1 ];
                  var motif_db = obj.aData[obj.iDataColumn-2];
var ret ="";
if(motif_db=="HOCOMOCO" || motif_db=="UNIPROBE" || motif_db=="HOMER")
ret=motif_id.split(/_(.+)?/)[0];
else if (motif_db=="SWISSREGULON"){
var i = motif_id.lastIndexOf('.');
if (i != -1) {
    ret= motif_id.substr(0, i) ;
}
}
else ret ="";
return ret;
}
},
{"aTargets":[1], "fnRender": function ( obj ) {
{"aTargets":[1], "fnRender": function ( obj ) {
                   var temp= $(obj.aData[ obj.iDataColumn ]).text();               
 
                   var temp= obj.aData[ obj.iDataColumn ];               
                   return temp;}
                   return temp;}
},  
},  
{"aTargets":[4], "fnRender": function ( obj ) {
{"aTargets":[4], "fnRender": function ( obj ) {
                   var temp= $(obj.aData[ obj.iDataColumn ]).text();
 
                         
                   var temp= obj.aData[ obj.iDataColumn ]; 
                   return  parseFloat(temp).toFixed(5); }
                    var num = parseFloat(temp);
                      if(isNaN(num)){
                        num = new Number(0.0);
                      }
                      else{
                    }
                   return  num.toFixed(4); }
}                   
}                   
         ]
         ]
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function logoLocator(motif_db,motif_id){
function logoLocator(motif_db,motif_id){
var index = motif_id.indexOf(' ');
var index = motif_id.split(":")[1];


if (index >= 0) {
if (index >= 0) {
     motif_id= motif_id.substr(0, index - 1) +"_"+ motif_id.substr(index);
     //motif_id= motif_id.substr(0, index)+motif_id.substr(index+1);
       
}
}


var tmp ="/resource_browser/seqlogos/"+ "known_motifs"+"_201304"+"/"+motif_id.toLowerCase()+".png";
var tmp ="/resource_browser/seqlogos/"+ "known_motifs"+"_201304"+"/"+"nonredundant"+index+".png";
 
var uri = encodeURI(tmp);
var uri = encodeURI(tmp);
  return number_prefix='<img src="'+uri+'" width ="80" height = "20">';  
   
 
return number_prefix='<a rel="thumbnail" href="'+uri+'"><img src="'+ uri +' " width="70px" height="24px" border="0"/></a>';
 
}
}


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</html>
</html>


<span id = "motif_export_tool"></span>
{{#vardefine:motifdatabases|{{#ask:[[Category:NonRedundantMotifCluster]]  
{{#ask:[[Category:MotifCluster2013March]]
|?Motifdb
|?Database=motif db
|format=array
|?Motifid=motif id
|?Name=motif name
|?Score=score
|?=Logo
|format=ttable
|class=known_motif_list
|offset=0
|offset=0
|limit=1000
|limit=
|mainlabel=name
|mainlabel=-
|sort=Motifdb
|order=ASC
|link=none
|headers=hide
|titles=show
|hidegaps=none
|sep=,
|propsep=&lt;PROP&gt;
|manysep=&lt;MANY&gt;
|recordsep=&lt;RCRD&gt;
|headersep=
}}
}}
}}


{{#ask:[[Category:MotifCluster2013March]]
<div id="wrap">
<div id="left_col">
Analysis information : {{#info:<br>Analyst:  Ivan Kulakovskiy,Ilya Vorontsov, Vsevolod Makeev, Michiel de Hoon <br>
May 2013 <br> Collection Name: Non-redundant known motifs <br>
Analysis information: 208 clusters of known motifs were produced by MACRO-APE [http://autosome.ru/macroape/] 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.
<br>[https://fantom5-collaboration.gsc.riken.jp/webdav/home/vigg/motifs-phase1/v2/  data source]
}}
</div>
<div id="right_col">
<div class="toccolours mw-collapsible" style="width:700px">
Representative Motifs General View (PieChart)
<div class="mw-collapsible-content">
{{PieChart|data={{#var:motifdatabases}}
|delimiter=,
|chartTitle=Representative Motifs General View
|seriesName=representative motifs
|chartSize=300
|renderTo=container
|percentageDecimals=1
|tableName=known_motif_list
}}
</div>
</div>
 
</div>
</div>
 
 
<br>
<span id = "motif_export_tool"></span>
{{#ask:[[Category:NonRedundantMotifCluster]]
|?Motifdb=motif db
|?Motifdb=motif db
|?motifid=motif id
|?motifid=motif id
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|?=Logo
|?=Logo
|format=ttable
|format=ttable
|class=known_motif_list2
|class=known_motif_list
|limit=1000
|limit=1000
|mainlabel=name
|mainlabel=name
}}
}}

Latest revision as of 15:33, 10 July 2013


Analysis information : <br>Analyst: Ivan Kulakovskiy,Ilya Vorontsov, Vsevolod Makeev, Michiel de Hoon <br>May 2013 <br> 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.<br>data source

Representative Motifs General View (PieChart)



motif dbmotif idmotif namescore
UNIPROBELhx8_2247.2CELL080.145
SWISSREGULONZEB1.p2ZEB10.811
UNIPROBESp4_secondarySCI091.18
UNIPROBECphx_3484.1CELL080.0662
UNIPROBETcfap2c_secondarySCI090.931
HOCOMOCOTLX1_f10.119
SWISSREGULONCDX1,2,4.p2CDX1,2,40.0968
SWISSREGULONZBTB6.p2ZBTB60.955
UNIPROBEE2F2_secondarySCI091.877
HOCOMOCOFOXM1_f10.0817
SWISSREGULONSPZ1.p2SPZ11.293
HOCOMOCOSPZ1_f10.815
JASPARMA0065.2PPARG::RXRA0.403
UNIPROBEGata6_secondarySCI090.906
HOMERPBX1_MCF7-PBX1-ChIP-Seq(GSE28007)0.0635
HOCOMOCOSMAD1_si0.209
UNIPROBERhox11_2205.1CELL080.0179
HOMERZBTB33_GM12878-ZBTB33-ChIP-Seq0.414
HOCOMOCOMAZ_f14.357
SWISSREGULONCDC5L.p2CDC5L0.0474
HOCOMOCOZBT7B_si4.964
SWISSREGULONPOU6F1.p2POU6F10.0332
HOCOMOCOKLF15_f14.5
HOCOMOCOSP3_f15.013
HOCOMOCOMBD2_si2.962
UNIPROBEGcm1_primarySCI090.518
SWISSREGULONEWSR1-FLI1.p2EWSR1-FLI10.0505
SWISSREGULONMSX1,2.p2MSX1,20.0479
SWISSREGULONARID5B.p2ARID5B0.0544
UNIPROBEOsr1_secondarySCI090.0379
UNIPROBEOsr1_primarySCI090.0404
UNIPROBESp100_primarySCI090.0332
HOMERZNF263_K562-Znf263-ChIP-Seq1.154
SWISSREGULONEN1,2.p2EN1,20.0733
HOMERSTAT1_HelaS3-STAT1-ChIP-Seq0.147
HOCOMOCOSOX17_f20.04
UNIPROBEIsgf3g_secondarySCI090.0255
UNIPROBESox7_secondarySCI090.0146
UNIPROBEZbtb12_secondarySCI090.06
HOCOMOCOFUBP1_f10.218
HOMERDMC1_Testis-DMC1-ChIP-Seq0.0436
SWISSREGULONHMX1.p2HMX10.123
HOCOMOCOIRF5_f10.116
HOCOMOCOEOMES_f10.012
UNIPROBEIRC900814_secondarySCI090.0303
HOMERCDX2_mES-Cdx2-ChIP-Seq0.101
UNIPROBEZfp187_primarySCI090.0513
HOCOMOCOHXD10_f10.0675
SWISSREGULONPOU3F1..4.p2POU3F10.0499
HOMEREBNA1_Raji-EBNA1-ChIP-Seq(GSE30709)0.0362
UNIPROBESox15_secondarySCI090.0175
UNIPROBEArid5a_secondarySCI090.0107
UNIPROBEGabpa_secondarySCI092.566
HOCOMOCOZN350_f12.679
UNIPROBEIrf3_secondarySCI090.341
UNIPROBEZbtb3_secondarySCI090.0699
HOCOMOCOSTAT2_f10.728
SWISSREGULONHOX(A5,B5).p2HOX(A5,B5)1.476
HOCOMOCOMCR_f10.113
HOCOMOCOZBTB4!METH_f11.448
HOMERTAL1_motifBHPC7-Scl-ChIP-Seq0.12
HOCOMOCOMYBB_f10.0171
HOCOMOCOFOXC2_f10.147
HOCOMOCOEPAS1_si0.665
UNIPROBEHomez_1063.2CELL080.0255
UNIPROBESox5_secondarySCI090.0172
HOCOMOCOPURA_f13.94
HOCOMOCOCEBPB_f10.651
HOCOMOCOTEF_f10.0613
UNIPROBETcf3_secondarySCI090.00582
UNIPROBEZfp410_primarySCI090.0497
HOCOMOCOHXA7_f10.0141
HOCOMOCOZBT7A_f13.48
HOCOMOCOATF5_si0.0903
HOCOMOCOTEAD4_f10.0572
SWISSREGULONFOXP3.p2FOXP30.113
UNIPROBEZfp187_secondarySCI090.565
JASPARMA0035.2Gata10.207
JASPARMA0164.1Nr2e30.0473
UNIPROBEZfp161_secondarySCI092.983
SWISSREGULONGZF1.p2GZF10.0278
UNIPROBEZbtb3_primarySCI090.16
HOCOMOCOPAX2_f10.0597
SWISSREGULONPAX8.p2PAX80.116
UNIPROBERxra_secondarySCI090.0814
HOCOMOCONR2E3_f10.112
HOCOMOCOPAX8_f10.143
HOMERPRDM14_H1-PRDM14-ChIP-Seq0.0155
SWISSREGULONNHLH1,2.p2NHLH1,21.43
SWISSREGULONGTF2A1,2.p2GTF2A1,20.07
HOCOMOCOPAX5_si0.0807
UNIPROBEArid3a_secondarySCI090.00803
HOCOMOCOPROP1_f10.0296
HOCOMOCOPTF1A_f10.304
HOCOMOCOTGIF1_f10.146
HOCOMOCOALX1_si0.0736
HOCOMOCOZEP2_si0.458
HOCOMOCOHXD13_f10.027
HOCOMOCOAIRE_f20.0501
HOCOMOCOLEF1_f10.165
SWISSREGULONAIRE.p2AIRE0.108
HOCOMOCOHLTF_f10.064
HOCOMOCOHESX1_f10.865
HOCOMOCOBHE41_f12.43
SWISSREGULONNANOG(mouse).p2NANOG(mouse)0.0559
UNIPROBEZfp105_secondarySCI090.0307
HOCOMOCOMLXPL_f10.909
SWISSREGULONZBTB16.p2ZBTB160.194
HOCOMOCOBRAC_si0.0116
UNIPROBEGlis2_secondarySCI090.0207
JASPARMA0080.2SPI12.116
HOCOMOCOCREB1_f10.455
HOCOMOCOZBTB4_si0.621
SWISSREGULONALX1.p2ALX10.049
UNIPROBESp100_secondarySCI090.184
HOCOMOCOARI3A_do0.0743
UNIPROBEArid5a_primarySCI090.0566
HOCOMOCOHMGA2_f10.0213
HOMERPAX3_Rh4-PAX3FKHR-ChIP-Seq0.0402
UNIPROBEGcm1_secondarySCI090.446
UNIPROBEAtf1_secondarySCI090.0583
HOCOMOCOE2F6_f14.312
UNIPROBERara_secondarySCI090.868
JASPARMA0003.1TFAP2A3.387
HOCOMOCOZEB1_do0.791
HOCOMOCOTGIF1_si0.25
HOCOMOCONKX25_f10.15
HOMERRELA_GM12787-p65-ChIP-Seq0.684
HOMERMYBL2_Hela-BMYB-ChIPSeq(GSE27030)0.183
HOCOMOCOGCR_do0.223
HOCOMOCOHIF1A_si0.628
HOCOMOCOZN219_f13.257
HOCOMOCONFYB_f10.742
HOMERPOU5F1_mES-Oct4-ChIP-Seq0.161
HOCOMOCOKLF4_f22.542
SWISSREGULONNFATC1..3.p2NFATC10.173
HOCOMOCOZIC1_f11.743
HOCOMOCORARA_f10.279
SWISSREGULONNFE2L1.p2NFE2L10.552
JASPARMA0112.2ESR10.655
SWISSREGULONRFX1..5_RFXANK_RFXAP.p2RFX10.408
HOCOMOCOFOXO1_si0.207
HOCOMOCOSMAD3_f10.0983
HOMERRUNX1_Jurkat-RUNX1-ChIP-Seq0.527
UNIPROBESry_primarySCI090.0425
SWISSREGULONZNF143.p2ZNF1430.862
SWISSREGULONTP53.p2TP531.033
SWISSREGULONMAFB.p2MAFB0.368
SWISSREGULONBPTF.p2BPTF1.641
HOMERNANOG_mES-Nanog-ChIP-Seq0.0322
JASPARMA0108.2TBP0.123
UNIPROBESix6_2267.5CELL080.0474
SWISSREGULONSOX5.p2SOX50.146
HOCOMOCOMEF2D_f10.11
SWISSREGULONGFI1.p2GFI10.279
SWISSREGULONPAX5.p2PAX54.345
HOCOMOCOSRF_do0.133
SWISSREGULONPOU5F1_SOX2(dimer).p2POU5F1_SOX2(dimer)0.086
UNIPROBEZic1_primarySCI091.931
UNIPROBEIrx4_2242.3CELL080.0662
SWISSREGULONNKX2-2,8.p2NKX2-2,80.107
SWISSREGULONMZF1.p2MZF12.526
SWISSREGULONNKX3-1.p2NKX3-10.0865
HOCOMOCOPPARA_f10.26
UNIPROBEBbx_primarySCI090.0769
HOCOMOCOCTCF_f22.277
HOCOMOCOMTF1_f10.798
HOCOMOCOHSF1_f20.082
HOCOMOCOHNF1B_f10.199
HOCOMOCOATF6A_si0.193
UNIPROBEHmbox1_2674.1CELL080.0453
HOCOMOCONFIA+NFIB+NFIC+NFIX_f20.404
UNIPROBESrf_secondarySCI091.693
JASPARMA0090.1TEAD10.193
HOCOMOCOJUN_f11.959
HOCOMOCOCOE1_f20.372
UNIPROBESox8_secondarySCI090.0533
HOCOMOCOKLF8_f10.816
JASPARMA0146.1Zfx1.377
HOCOMOCOSRBP1_f20.111
SWISSREGULONRXRA_VDR(dimer).p2RXRA_VDR(dimer)0.172
HOCOMOCOTFCP2_f12.03
HOCOMOCOREST_f10.184
UNIPROBEZfp161_primarySCI092.064
HOCOMOCOARNT2_si2.087
HOCOMOCOOTX2_si0.215
UNIPROBEIrf6_secondarySCI091.59
HOCOMOCONRF1_f12.271
UNIPROBEZic2_secondarySCI090.284
HOCOMOCORARA_f20.406
HOCOMOCORREB1_si0.914
SWISSREGULONEVI1.p2EVI10.079
UNIPROBEHic1_secondarySCI090.173
HOCOMOCONFIA+NFIB+NFIC+NFIX_si0.0453
HOCOMOCOBRCA1_f10.0661
SWISSREGULONYY1.p2YY10.0853
HOCOMOCOHXB6_f10.127
UNIPROBESox18_secondarySCI090.0104
UNIPROBERfx3_secondarySCI090.119
UNIPROBEEhf_secondarySCI090.0479
SWISSREGULONHMGA1,2.p2HMGA1,20.218
JASPARMA0155.1INSM11.159
HOCOMOCOPLAG1_f13.725
JASPARMA0068.1Pax40.153
HOCOMOCOHINFP_f10.255
UNIPROBEKlf7_secondarySCI090.331
SWISSREGULONPOU1F1.p2POU1F10.089
{{{representative_motif_db}}}{{{representative_motif_id}}}{{{representative_motif_name}}}
{{{representative_motif_db}}}{{{representative_motif_id}}}{{{representative_motif_name}}}
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