Personal tools

Template:NonRedundantMotifRender: Difference between revisions

From FANTOM5_SSTAR

Jump to: navigation, search
(Created page with "{{#set:id={{{id}}}}} <table> <tr><th scope="row" align="right">Name:</th><td>[[name::{{{name}}}]]</td></tr> <tr><th scope="row" align="right">[[Property:Sample_species|Species...")
 
No edit summary
 
(33 intermediate revisions by 3 users not shown)
Line 1: Line 1:
{{#set:id={{{id}}}}}
{{Loading|loadingimage=sprites.gif}}{{#ask:[[Category:Novel_motif]]|mainlabel=Novel motif ID|?Logo|?name=name|format=ttable|class=novel_motif_list stripe cell-border order-column compact|limit=1100|headers=hide|searchlabel=}}<html>
<table>
<style type="text/css" title="currentStyle">
<tr><th scope="row" align="right">Name:</th><td>[[name::{{{name}}}]]</td></tr>
@import "/5/sstar/rb_js/html5button/datatables.css";
<tr><th scope="row" align="right">[[Property:Sample_species|Species]]:</th><td>[[sample_species::{{{sample_species}}}]]</td></tr>
@import "/5/sstar/rb_js/datatables/extras/TableTools/media/css/TableTools.css";
<tr><th scope="row" align="right">Genomic View:</th><td>[https://fantom5-collaboration.gsc.riken.jp/zenbu/dex/#section=Experiments;search={{#replace:{{{id}}}|FF:|}} zenbu] , [https://fantom5-collaboration.gsc.riken.jp/ucsc/cgi-bin/hgTracks?db={{#ifeq: {{{sample_species}}} | Human (Homo sapiens) | hg19 | }}{{#ifeq: {{{sample_species}}} | Mouse (Mus musculus) | mm9 | }}{{#ifeq: {{{sample_species}}} | Rat (Rattus rattus) |  rn4 | }}{{#ifeq: {{{sample_species}}} | Dog (Canis lupus familaris) | canFam2 | }}{{#ifeq: {{{sample_species}}} | Chicken (Gallus gallus) | galGal3 | }}&tsCurTab=advancedTab&hgt_tsPage=&hgt_tSearch=search&tsName={{#replace:{{{id}}}|FF:|}} UCSC] </td></tr>
.bgwhite { background-color: white};
</table>
</style>
<script type="text/javascript" src="/5/sstar/rb_js/jquery-1.7.1.min.js"></script>
<script type="text/javascript" src="/5/sstar/rb_js/html5button/datatables.js"></script>
<script type="text/javascript" language="javascript" src="/5/sstar/rb_js/datatables/extras/TableTools/media/js/TableTools.min.js"></script>
<script type="text/javascript">
$(document).ready(function() {
    $('.novel_motif_list').DataTable({
        dom: 'Blfrtip',
        lengthMenu: [[25, 50, -1], [25, 50, "All"]],
processing: true,
scrollCollapse: true,
autoWidth: false,
        buttons: ['copyHtml5', 'excelHtml5', 'csvHtml5', 'pdfHtml5'],


<html>
        columns: [
<style type="text/css" title="currentStyle">
{ title: "Novel motif ID" },
@import "/resource_browser/rb_js/datatables/media/css/f5_rb_table.css";
            { title: "Logo" ,
</style>
              render: function ( data, type, row, meta ) {
<script type="text/javascript" language="javascript" src="/resource_browser/rb_js/datatables/media/js/jquery.dataTables.js"></script>
return "<img src=\"/5/sstar/seqlogos/novel/" +  $(row[0]).text() + ".png\" style=\"width:80px;height:20px;border:1px solid lightgrey\">";
              },
              width: "50px", className: "bgwhite"
            },
    { title: "Name", width: "50px" }
        ]
});


</html>
$('.dataTables_scrollBody').css("resize", "vertical");
 
{{#if: {{#pos:{{{expression_enrichment_score}}}|chr}} |
<html>
<br>
<!-- tf enrich table: start-->
<script type="text/javascript" charset="utf-8">
var ffcp_tf_enrichscore_d=
[
</html>
{{#exp_enrichscore_dtarr:{{{expression_enrichment_score}}}|FFCP_PHASE1:{{#switch: {{{sample_species}}} | Human (Homo sapiens) = Hg19 | Mouse (Mus musculus) = Mm9 }}::}}
<html>
];
 
$(document).ready(function() {
$('#ffcp_tf_enrichscore').html( '<table cellpadding="0" cellspacing="0" border="0" class="display" id="ffcp_tf_enrichscore_cont"></table>' );
$('#ffcp_tf_enrichscore_cont').dataTable( {
"sDom": '<"toolbar">frtip',
"sScrollY": "300px",
"bPaginate": false,
"bScrollCollapse": true,
"iDisplayLength": -1,
"aaData": ffcp_tf_enrichscore_d,
"aoColumns": [
{ "sTitle": "FFCP Phase1","sWidth": "30px",
"fnRender": function(obj) {
var id = obj.aData[ obj.iDataColumn ].split("!");
return sReturn = "<a href=\"/resource_browser/"+encodeURI(id[0])+"\">"+id[1]+"</a>";
}
},
{ "sTitle": "Enrichment Score","sWidth": "30px"},
{ "sTitle": "TPM","sWidth": "30px"},
{ "sTitle": "TF","sWidth": "30px"}
 
],
"aaSorting": [[ 1, "desc" ]]
} );
$("div.toolbar").html('<b>TF expression and enrichment</b>');
$("div.toolbar").css('border-width', '0 0 2px 0');
$("div.toolbar").css('border-color', '#6495ED');
$("div.toolbar").css('border-style', 'solid');
} );
</script>
<!-- tf enrich table: end-->
</html>
}}
 
{{#if: {{#pos:{{{top_motifs}}}|;}} |
<html>
<!-- top motif table: start-->
<script type="text/javascript" charset="utf-8">
var top_motif_d=
[
</html>
{{#top_motifs_dtarr:{{{top_motifs}}}}}
<html>
];
 
$(document).ready(function() {
$('#top_motiftb').html( '<table cellpadding="0" cellspacing="0" border="0" class="display" id="top_motiftb_cont"></table>' );
$('#top_motiftb_cont').dataTable( {
"sDom": '<"top_motif_toolbar">frtip',
"sScrollY": "300px",
"bPaginate": false,
"bScrollCollapse": true,
"iDisplayLength": -1,
"aaData": top_motif_d,
"aoColumns": [
{ "sTitle": "Motifs","sWidth": "30px",
"fnRender": function(obj) {
var id = obj.aData[ obj.iDataColumn ].split("!");
return sReturn = "<a href=\"/resource_browser/"+id[0]+"\">"+id[1]+"</a>";
}
},
{ "sTitle": "Z-score", "sType": "numeric", "sWidth": "30px"},


],
});
"aaSorting": [[ 1, "desc" ]]
</script>
} );
$("div.top_motif_toolbar").html('<b>Top motif activities with MARA</b>');
$("div.top_motif_toolbar").css('border-width', '0 0 2px 0');
$("div.top_motif_toolbar").css('border-color', '#6495ED');
$("div.top_motif_toolbar").css('border-style', 'solid');
$("#top_motiftb thead th").css('line-height', '34px');
} );
</script>
<!-- top motif table: end-->
</html>
</html>
}}
<html>
<div id="ffcp_tf_enrichscore" style="float:left;"></div>
<div id="top_motiftb" style="float:left;padding-left:15px;"></div>
<div style="clear:both;"></div>
<TABLE border="1" cellpading="0" cellspacing="0">
<TR><TD><div align="center"><b>Rank</b><div></TD><TD><b><div align="center"><b>Motif</b><div></TD><TD><div align="center"><b>Enrichment<br>and <i>P</i>-value<br>(ln(<i>P</i>-value))</b><b></TD><TD><div align="center"><b>Best Match/Details<br> and Motif File</b></div></TD></TR>
<TR><TD>1
</TD><TD><IMG src="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif1.logo.png" width="50%" height="50%"/><TD>9.14% Targets<br>1.14% Backgr.<br><i>P</i> &lt; 1e-264<br>(-6.092e+02)</TD><TD>JUN.p2.SwissRegulon.nucfreq<BR/><A target="_blank" HREF="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif1.info.html">More Info/Top 5 Known Motifs</A><br><A target="_blank" HREF="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif1.motif">Motif File (PWM)</A></TD></TR>
<TR><TD>2
</TD><TD><IMG src="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif2.logo.png" width="50%" height="50%"/><TD>11.38% Targets<br>2.45% Backgr.<br><i>P</i> &lt; 1e-209<br>(-4.824e+02)</TD><TD>SOX10_si_HM09<BR/><A target="_blank" HREF="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif2.info.html">More Info/Top 5 Known Motifs</A><br><A target="_blank" HREF="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif2.motif">Motif File (PWM)</A></TD></TR>
<TR><TD>3
</TD><TD><IMG src="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif3.logo.png" width="50%" height="50%"/><TD>7.12% Targets<br>1.28% Backgr.<br><i>P</i> &lt; 1e-153<br>(-3.526e+02)</TD><TD>RFX1..5_RFXANK_RFXAP.p2.SwissRegulon.nucfreq<BR/><A target="_blank" HREF="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif3.info.html">More Info/Top 5 Known Motifs</A><br><A target="_blank" HREF="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif3.motif">Motif File (PWM)</A></TD></TR>
<TR><TD>4
</TD><TD><IMG src="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif4.logo.png" width="50%" height="50%"/><TD>14.68% Targets<br>5.34% Backgr.<br><i>P</i> &lt; 1e-140<br>(-3.229e+02)</TD><TD>CREB1_f1_HM09<BR/><A target="_blank" HREF="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif4.info.html">More Info/Top 5 Known Motifs</A><br><A target="_blank" HREF="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif4.motif">Motif File (PWM)</A></TD></TR>
<TR><TD>5
</TD><TD><IMG src="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif5.logo.png" width="50%" height="50%"/><TD>60.12% Targets<br>44.92% Backgr.<br><i>P</i> &lt; 1e-109<br>(-2.510e+02)</TD><TD>NFYA_f1_HM09<BR/><A target="_blank" HREF="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif5.info.html">More Info/Top 5 Known Motifs</A><br><A target="_blank" HREF="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif5.motif">Motif File (PWM)</A></TD></TR>
<TR><TD>6
</TD><TD><IMG src="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif6.logo.png" width="50%" height="50%"/><TD>14.49% Targets<br>6.31% Backgr.<br><i>P</i> &lt; 1e-99<br>(-2.296e+02)</TD><TD>BMYB(HTH)/Hela-BMYB-ChIPSeq(GSE27030)/Homer<BR/><A target="_blank" HREF="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif6.info.html">More Info/Top 5 Known Motifs</A><br><A target="_blank" HREF="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif6.motif">Motif File (PWM)</A></TD></TR>
<TR><TD>7
</TD><TD><IMG src="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif7.logo.png" width="50%" height="50%"/><TD>26.46% Targets<br>15.18% Backgr.<br><i>P</i> &lt; 1e-98<br>(-2.277e+02)</TD><TD>E4F1_f1_HM09<BR/><A target="_blank" HREF="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif7.info.html">More Info/Top 5 Known Motifs</A><br><A target="_blank" HREF="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif7.motif">Motif File (PWM)</A></TD></TR>
<TR><TD>8
</TD><TD><IMG src="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif8.logo.png" width="50%" height="50%"/><TD>15.02% Targets<br>7.77% Backgr.<br><i>P</i> &lt; 1e-69<br>(-1.602e+02)</TD><TD>RFX1_f1_HM09<BR/><A target="_blank" HREF="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif8.info.html">More Info/Top 5 Known Motifs</A><br><A target="_blank" HREF="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif8.motif">Motif File (PWM)</A></TD></TR>
<TR><TD>9
</TD><TD><IMG src="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif9.logo.png" width="50%" height="50%"/><TD>25.03% Targets<br>15.74% Backgr.<br><i>P</i> &lt; 1e-67<br>(-1.553e+02)</TD><TD>SP1_f1_HM09<BR/><A target="_blank" HREF="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif9.info.html">More Info/Top 5 Known Motifs</A><br><A target="_blank" HREF="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif9.motif">Motif File (PWM)</A></TD></TR>
<TR><TD>10
</TD><TD><IMG src="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif10.logo.png" width="50%" height="50%"/><TD>5.73% Targets<br>2.01% Backgr.<br><i>P</i> &lt; 1e-55<br>(-1.284e+02)</TD><TD>ATF1_si_HM09<BR/><A target="_blank" HREF="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif10.info.html">More Info/Top 5 Known Motifs</A><br><A target="_blank" HREF="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif10.motif">Motif File (PWM)</A></TD></TR>
<TR><TD>11
</TD><TD><IMG src="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif11.logo.png" width="50%" height="50%"/><TD>5.88% Targets<br>2.10% Backgr.<br><i>P</i> &lt; 1e-55<br>(-1.280e+02)</TD><TD>NFYB_f1_HM09<BR/><A target="_blank" HREF="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif11.info.html">More Info/Top 5 Known Motifs</A><br><A target="_blank" HREF="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif11.motif">Motif File (PWM)</A></TD></TR>
<TR><TD>12
</TD><TD><IMG src="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif12.logo.png" width="50%" height="50%"/><TD>11.43% Targets<br>5.88% Backgr.<br><i>P</i> &lt; 1e-52<br>(-1.214e+02)</TD><TD>NRF1(NRF)/MCF7-NRF1-ChIP-Seq/Homer<BR/><A target="_blank" HREF="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif12.info.html">More Info/Top 5 Known Motifs</A><br><A target="_blank" HREF="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif12.motif">Motif File (PWM)</A></TD></TR>
<TR><TD>13
</TD><TD><IMG src="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif13.logo.png" width="50%" height="50%"/><TD>14.31% Targets<br>8.32% Backgr.<br><i>P</i> &lt; 1e-47<br>(-1.083e+02)</TD><TD>ATF5_CREB3.p2.SwissRegulon.nucfreq<BR/><A target="_blank" HREF="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif13.info.html">More Info/Top 5 Known Motifs</A><br><A target="_blank" HREF="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif13.motif">Motif File (PWM)</A></TD></TR>
<TR><TD>14
</TD><TD><IMG src="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif14.logo.png" width="50%" height="50%"/><TD>4.98% Targets<br>1.78% Backgr.<br><i>P</i> &lt; 1e-46<br>(-1.081e+02)</TD><TD>RFX2_f1_HM09<BR/><A target="_blank" HREF="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif14.info.html">More Info/Top 5 Known Motifs</A><br><A target="_blank" HREF="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif14.motif">Motif File (PWM)</A></TD></TR>
<TR><TD>15
</TD><TD><IMG src="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif15.logo.png" width="50%" height="50%"/><TD>65.83% Targets<br>56.15% Backgr.<br><i>P</i> &lt; 1e-46<br>(-1.070e+02)</TD><TD>MYB(HTH)/ERMYB-Myb-ChIPSeq(GSE22095)/Homer<BR/><A target="_blank" HREF="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif15.info.html">More Info/Top 5 Known Motifs</A><br><A target="_blank" HREF="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif15.motif">Motif File (PWM)</A></TD></TR>
<TR><TD>16
</TD><TD><IMG src="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif16.logo.png" width="50%" height="50%"/><TD>5.01% Targets<br>1.87% Backgr.<br><i>P</i> &lt; 1e-44<br>(-1.018e+02)</TD><TD>Rfx1(HTH)/NPC-Rfx1-ChIP-Seq/Homer<BR/><A target="_blank" HREF="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif16.info.html">More Info/Top 5 Known Motifs</A><br><A target="_blank" HREF="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif16.motif">Motif File (PWM)</A></TD></TR>
<TR><TD>17
</TD><TD><IMG src="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif17.logo.png" width="50%" height="50%"/><TD>45.42% Targets<br>36.08% Backgr.<br><i>P</i> &lt; 1e-43<br>(-1.010e+02)</TD><TD>ATF3_f1_HM09<BR/><A target="_blank" HREF="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif17.info.html">More Info/Top 5 Known Motifs</A><br><A target="_blank" HREF="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif17.motif">Motif File (PWM)</A></TD></TR>
<TR><TD>18
</TD><TD><IMG src="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif18.logo.png" width="50%" height="50%"/><TD>3.57% Targets<br>1.10% Backgr.<br><i>P</i> &lt; 1e-41<br>(-9.658e+01)</TD><TD>ATF2.p2.SwissRegulon.nucfreq<BR/><A target="_blank" HREF="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif18.info.html">More Info/Top 5 Known Motifs</A><br><A target="_blank" HREF="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif18.motif">Motif File (PWM)</A></TD></TR>
<TR><TD>19
</TD><TD><IMG src="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif19.logo.png" width="50%" height="50%"/><TD>42.47% Targets<br>33.66% Backgr.<br><i>P</i> &lt; 1e-40<br>(-9.269e+01)</TD><TD>PRDM14(Zf)/H1-PRDM14-ChIP-Seq/Homer<BR/><A target="_blank" HREF="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif19.info.html">More Info/Top 5 Known Motifs</A><br><A target="_blank" HREF="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif19.motif">Motif File (PWM)</A></TD></TR>
<TR><TD>20
</TD><TD><IMG src="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif20.logo.png" width="50%" height="50%"/><TD>13.91% Targets<br>8.44% Backgr.<br><i>P</i> &lt; 1e-39<br>(-9.111e+01)</TD><TD>ELK1_f1_HM09<BR/><A target="_blank" HREF="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif20.info.html">More Info/Top 5 Known Motifs</A><br><A target="_blank" HREF="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif20.motif">Motif File (PWM)</A></TD></TR>
<TR><TD>21
</TD><TD><IMG src="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif21.logo.png" width="50%" height="50%"/><TD>8.04% Targets<br>4.06% Backgr.<br><i>P</i> &lt; 1e-38<br>(-8.841e+01)</TD><TD>MYB.p2.SwissRegulon.nucfreq<BR/><A target="_blank" HREF="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif21.info.html">More Info/Top 5 Known Motifs</A><br><A target="_blank" HREF="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif21.motif">Motif File (PWM)</A></TD></TR>
<TR><TD>22
</TD><TD><IMG src="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif22.logo.png" width="50%" height="50%"/><TD>43.56% Targets<br>35.32% Backgr.<br><i>P</i> &lt; 1e-34<br>(-8.012e+01)</TD><TD>E2F5_do_HM09<BR/><A target="_blank" HREF="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif22.info.html">More Info/Top 5 Known Motifs</A><br><A target="_blank" HREF="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif22.motif">Motif File (PWM)</A></TD></TR>
<TR><TD>23
</TD><TD><IMG src="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif23.logo.png" width="50%" height="50%"/><TD>51.05% Targets<br>42.61% Backgr.<br><i>P</i> &lt; 1e-34<br>(-8.003e+01)</TD><TD>CDX1_f1_HM09<BR/><A target="_blank" HREF="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif23.info.html">More Info/Top 5 Known Motifs</A><br><A target="_blank" HREF="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif23.motif">Motif File (PWM)</A></TD></TR>
<TR><TD>24
</TD><TD><IMG src="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif24.logo.png" width="50%" height="50%"/><TD>29.05% Targets<br>22.01% Backgr.<br><i>P</i> &lt; 1e-32<br>(-7.498e+01)</TD><TD>ELF1(ETS)/Jurkat-ELF1-ChIP-Seq/Homer<BR/><A target="_blank" HREF="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif24.info.html">More Info/Top 5 Known Motifs</A><br><A target="_blank" HREF="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif24.motif">Motif File (PWM)</A></TD></TR>
<TR><TD>25
</TD><TD><IMG src="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif25.logo.png" width="50%" height="50%"/><TD>4.41% Targets<br>1.84% Backgr.<br><i>P</i> &lt; 1e-31<br>(-7.364e+01)</TD><TD>BATF_si_HM09<BR/><A target="_blank" HREF="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif25.info.html">More Info/Top 5 Known Motifs</A><br><A target="_blank" HREF="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif25.motif">Motif File (PWM)</A></TD></TR>
<TR><TD>26
</TD><TD><IMG src="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif26.logo.png" width="50%" height="50%"/><TD>9.31% Targets<br>5.37% Backgr.<br><i>P</i> &lt; 1e-30<br>(-7.093e+01)</TD><TD>MAFG_si_HM09<BR/><A target="_blank" HREF="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif26.info.html">More Info/Top 5 Known Motifs</A><br><A target="_blank" HREF="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif26.motif">Motif File (PWM)</A></TD></TR>
<TR><TD>27
</TD><TD><IMG src="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif27.logo.png" width="50%" height="50%"/><TD>24.69% Targets<br>18.41% Backgr.<br><i>P</i> &lt; 1e-29<br>(-6.805e+01)</TD><TD>HBP1_HMGB_SSRP1_UBTF.p2.SwissRegulon.nucfreq<BR/><A target="_blank" HREF="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif27.info.html">More Info/Top 5 Known Motifs</A><br><A target="_blank" HREF="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif27.motif">Motif File (PWM)</A></TD></TR>
<TR><TD>28
</TD><TD><IMG src="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif28.logo.png" width="50%" height="50%"/><TD>25.03% Targets<br>18.78% Backgr.<br><i>P</i> &lt; 1e-28<br>(-6.643e+01)</TD><TD>BMYB(HTH)/Hela-BMYB-ChIPSeq(GSE27030)/Homer<BR/><A target="_blank" HREF="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif28.info.html">More Info/Top 5 Known Motifs</A><br><A target="_blank" HREF="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif28.motif">Motif File (PWM)</A></TD></TR>
<TR><TD>29
</TD><TD><IMG src="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif29.logo.png" width="50%" height="50%"/><TD>18.64% Targets<br>13.45% Backgr.<br><i>P</i> &lt; 1e-25<br>(-5.925e+01)</TD><TD>ZBTB33/GM12878-ZBTB33-ChIP-Seq/Homer<BR/><A target="_blank" HREF="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif29.info.html">More Info/Top 5 Known Motifs</A><br><A target="_blank" HREF="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif29.motif">Motif File (PWM)</A></TD></TR>
<TR><TD>30
</TD><TD><IMG src="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif30.logo.png" width="50%" height="50%"/><TD>25.25% Targets<br>19.53% Backgr.<br><i>P</i> &lt; 1e-23<br>(-5.516e+01)</TD><TD>E2F(E2F)/Cell-Cycle-Exp/Homer<BR/><A target="_blank" HREF="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif30.info.html">More Info/Top 5 Known Motifs</A><br><A target="_blank" HREF="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif30.motif">Motif File (PWM)</A></TD></TR>
<TR><TD>31
</TD><TD><IMG src="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif31.logo.png" width="50%" height="50%"/><TD>22.64% Targets<br>17.33% Backgr.<br><i>P</i> &lt; 1e-22<br>(-5.185e+01)</TD><TD>MYB_f1_HM09<BR/><A target="_blank" HREF="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif31.info.html">More Info/Top 5 Known Motifs</A><br><A target="_blank" HREF="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif31.motif">Motif File (PWM)</A></TD></TR>
<TR><TD>32
</TD><TD><IMG src="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif32.logo.png" width="50%" height="50%"/><TD>48.33% Targets<br>41.62% Backgr.<br><i>P</i> &lt; 1e-22<br>(-5.177e+01)</TD><TD>SPIB.p2.SwissRegulon.nucfreq<BR/><A target="_blank" HREF="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif32.info.html">More Info/Top 5 Known Motifs</A><br><A target="_blank" HREF="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif32.motif">Motif File (PWM)</A></TD></TR>
<TR><TD>33
</TD><TD><IMG src="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif33.logo.png" width="50%" height="50%"/><TD>5.91% Targets<br>3.25% Backgr.<br><i>P</i> &lt; 1e-22<br>(-5.162e+01)</TD><TD>MYB.p2.SwissRegulon.nucfreq<BR/><A target="_blank" HREF="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif33.info.html">More Info/Top 5 Known Motifs</A><br><A target="_blank" HREF="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif33.motif">Motif File (PWM)</A></TD></TR>
<TR><TD>34
</TD><TD><IMG src="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif34.logo.png" width="50%" height="50%"/><TD>1.69% Targets<br>0.49% Backgr.<br><i>P</i> &lt; 1e-22<br>(-5.087e+01)</TD><TD>HSF2_si_HM09<BR/><A target="_blank" HREF="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif34.info.html">More Info/Top 5 Known Motifs</A><br><A target="_blank" HREF="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif34.motif">Motif File (PWM)</A></TD></TR>
<TR><TD>35
</TD><TD><IMG src="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif35.logo.png" width="50%" height="50%"/><TD>87.66% Targets<br>82.97% Backgr.<br><i>P</i> &lt; 1e-20<br>(-4.812e+01)</TD><TD>Gfi1b(Zf)/HPC7-Gfi1b-ChIP-Seq/Homer<BR/><A target="_blank" HREF="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif35.info.html">More Info/Top 5 Known Motifs</A><br><A target="_blank" HREF="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif35.motif">Motif File (PWM)</A></TD></TR>
<TR><TD>36
</TD><TD><IMG src="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif36.logo.png" width="50%" height="50%"/><TD>12.20% Targets<br>8.41% Backgr.<br><i>P</i> &lt; 1e-20<br>(-4.724e+01)</TD><TD>NRF1.p2.SwissRegulon.nucfreq<BR/><A target="_blank" HREF="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif36.info.html">More Info/Top 5 Known Motifs</A><br><A target="_blank" HREF="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif36.motif">Motif File (PWM)</A></TD></TR>
<TR><TD>37
</TD><TD><IMG src="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif37.logo.png" width="50%" height="50%"/><TD>49.36% Targets<br>42.96% Backgr.<br><i>P</i> &lt; 1e-20<br>(-4.723e+01)</TD><TD>TGIF1_f1_HM09<BR/><A target="_blank" HREF="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif37.info.html">More Info/Top 5 Known Motifs</A><br><A target="_blank" HREF="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif37.motif">Motif File (PWM)</A></TD></TR>
<TR><TD>38
</TD><TD><IMG src="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif38.logo.png" width="50%" height="50%"/><TD>1.88% Targets<br>0.62% Backgr.<br><i>P</i> &lt; 1e-20<br>(-4.671e+01)</TD><TD>CREB1_f1_HM09<BR/><A target="_blank" HREF="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif38.info.html">More Info/Top 5 Known Motifs</A><br><A target="_blank" HREF="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif38.motif">Motif File (PWM)</A></TD></TR>
<TR><TD>39
</TD><TD><IMG src="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif39.logo.png" width="50%" height="50%"/><TD>3.76% Targets<br>1.81% Backgr.<br><i>P</i> &lt; 1e-20<br>(-4.632e+01)</TD><TD>ETS:E-box/HPC7-Scl-ChIP-Seq/Homer<BR/><A target="_blank" HREF="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif39.info.html">More Info/Top 5 Known Motifs</A><br><A target="_blank" HREF="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif39.motif">Motif File (PWM)</A></TD></TR>
<TR><TD>40
</TD><TD><IMG src="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif40.logo.png" width="50%" height="50%"/><TD>13.67% Targets<br>9.71% Backgr.<br><i>P</i> &lt; 1e-19<br>(-4.582e+01)</TD><TD>PRGR_f1_HM09<BR/><A target="_blank" HREF="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif40.info.html">More Info/Top 5 Known Motifs</A><br><A target="_blank" HREF="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif40.motif">Motif File (PWM)</A></TD></TR>
<TR><TD>41
</TD><TD><IMG src="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif41.logo.png" width="50%" height="50%"/><TD>9.01% Targets<br>5.88% Backgr.<br><i>P</i> &lt; 1e-19<br>(-4.403e+01)</TD><TD>ZBT7B_si_HM09<BR/><A target="_blank" HREF="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif41.info.html">More Info/Top 5 Known Motifs</A><br><A target="_blank" HREF="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif41.motif">Motif File (PWM)</A></TD></TR>
<TR><TD>42
</TD><TD><IMG src="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif42.logo.png" width="50%" height="50%"/><TD>50.54% Targets<br>44.43% Backgr.<br><i>P</i> &lt; 1e-18<br>(-4.313e+01)</TD><TD>TBP.p2.SwissRegulon.nucfreq<BR/><A target="_blank" HREF="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif42.info.html">More Info/Top 5 Known Motifs</A><br><A target="_blank" HREF="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif42.motif">Motif File (PWM)</A></TD></TR>
<TR><TD>43
</TD><TD><IMG src="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif43.logo.png" width="50%" height="50%"/><TD>3.32% Targets<br>1.60% Backgr.<br><i>P</i> &lt; 1e-18<br>(-4.160e+01)</TD><TD>ELF1(ETS)/Jurkat-ELF1-ChIP-Seq/Homer<BR/><A target="_blank" HREF="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif43.info.html">More Info/Top 5 Known Motifs</A><br><A target="_blank" HREF="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif43.motif">Motif File (PWM)</A></TD></TR>
<TR><TD>44
</TD><TD><IMG src="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif44.logo.png" width="50%" height="50%"/><TD>59.59% Targets<br>53.74% Backgr.<br><i>P</i> &lt; 1e-17<br>(-4.004e+01)</TD><TD>ISL1_f1_HM09<BR/><A target="_blank" HREF="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif44.info.html">More Info/Top 5 Known Motifs</A><br><A target="_blank" HREF="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif44.motif">Motif File (PWM)</A></TD></TR>
<TR><TD>45
</TD><TD><IMG src="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif45.logo.png" width="50%" height="50%"/><TD>5.43% Targets<br>3.16% Backgr.<br><i>P</i> &lt; 1e-17<br>(-3.975e+01)</TD><TD>SRBP2_f1_HM09<BR/><A target="_blank" HREF="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif45.info.html">More Info/Top 5 Known Motifs</A><br><A target="_blank" HREF="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif45.motif">Motif File (PWM)</A></TD></TR>
<TR><TD>46
</TD><TD><IMG src="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif46.logo.png" width="50%" height="50%"/><TD>2.97% Targets<br>1.41% Backgr.<br><i>P</i> &lt; 1e-16<br>(-3.816e+01)</TD><TD>NFY{A,B,C}.p2.SwissRegulon.nucfreq<BR/><A target="_blank" HREF="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif46.info.html">More Info/Top 5 Known Motifs</A><br><A target="_blank" HREF="/resource_browser/Homer_de_novo_Motif_Results/testis_adult_pool1.CNhs10632.10026-101D8/homerResults/motif46.motif">Motif File (PWM)</A></TD></TR>
</TABLE>
</html>
{{#ifeq: {{{sample_species}}} | Human (Homo sapiens)|
{{#if: {{{top_motifs}}} |
{{#if: {{#pos:{{{profile_hcage}}}|CNhs}} |
<html><h2>TF to Motif to TF network</h2></html>{{#info:Mouseover nodes and edges to see attributes.  Motifs are shown in orange, TFs are shown in blue.  Promoter and z-score are attributes of the Motif to TF edges (blue arrow).  TF to Motif edges are shown in orange.<br>Motifs shown are the top (maximum 30) motifs in the sample.  TFs shown have at least one CAGE promoter with at at least 10 TPM expression (RLE normalized) in the sample.  Edges shown have a z-score of at least 1.5 (based on correlation between motif activity and promoter expression).<br>Analyst: Erik Arner<br>Application Developer: Jayson HARSHBARGER}}<br>
{{Tf_motif_cytoscapenw
|CNhs={{#explode:{{{profile_hcage}}}|,|0}}
|FFid={{PAGENAME}}
}}
}}
}}
|}}
== Details ==
=== Transcriptome profiling ===
<table>
<tr><th scope="row" align="right"> [[Property:profile_hcage|hCAGE]] </th> <td> [[profile_hcage::{{{profile_hcage}}}]]</td>
<tr><th scope="row" align="right"> [[Property:profile_rnaseq|RNA-seq]] </th><td> [[profile_rnaseq::{{{profile_rnaseq}}}]]</td>
<tr><th scope="row" align="right"> [[Property:profile_srnaseq|smallRNA seq]] </th><td> [[profile_srnaseq::{{{profile_srnaseq}}}]]</td>
<tr><th scope="row" align="right"> [[Property:profile_cagescan|nanoCAGEscan]]</th><td> [[profile_cagescan::{{{profile_cagescan}}}]]
</table>
=== Sample info ===
<table>
<tr><th scope="row" align="right"> [[Property:sample_strain|strain]] </th><td> [[sample_strain::{{{sample_strain}}}]]</td>
<tr><th scope="row" align="right"> [[Property:sample_tissue|tissue]]</th><td> [[sample_tissue::{{{sample_tissue}}}]]</td>
<tr><th scope="row" align="right"> [[Property:sample_dev_stage|dev_stage]] </th><td> [[sample_dev_stage::{{{sample_dev_stage}}}]]</td>
<tr><th scope="row" align="right"> [[Property:sample_sex|sex]]</th><td> [[sample_sex::{{{sample_sex}}}]]</td>
<tr><th scope="row" align="right"> [[Property:sample_age|age]]</th><td> [[sample_age::{{{sample_age}}}]]</td>
<tr><th scope="row" align="right"> [[Property:sample_ethnicity|ethnicity]]</th><td> [[sample_ethnicity::{{{sample_ethnicity}}}]]</td>
<tr><th scope="row" align="right"> [[Property:sample_cell_type|cell_type]]</th><td> [[sample_cell_type::{{{sample_cell_type}}}]] </td>
<tr><th scope="row" align="right"> [[Property:sample_cell_line|cell_line]]</th><td> [[sample_cell_line::{{{sample_cell_line}}}]] </td>
<tr><th scope="row" align="right"> [[Property:sample_collaboration|collaboration]]</th><td> [[sample_collaboration::{{{sample_collaboration}}}]]</td>
<tr><th scope="row" align="right"> [[Property:sample_experimental_condition|Experimental condition]]</th><td>[[sample_experimental_condition::{{{sample_experimental_condition}}}]]</td>
<tr><th scope="row" align="right"> [[Property:sample_disease|disease]]</th><td> [[sample_disease::{{{sample_disease}}}]]</td>
<tr><th scope="row" align="right"> [[Property:sample_cell_lot|cell_lot]]</th><td> [[sample_cell_lot::{{{sample_cell_lot}}}]]</td>
<tr><th scope="row" align="right"> [[Property:sample_cell_catalog|cell_catalog]]</th><td> [[sample_cell_catalog::{{{sample_cell_catalog}}}]]</td>
<tr><th scope="row" align="right"> [[Property:sample_company|company]]</th><td> [[sample_company::{{{sample_company}}}]]</td>
<tr><th scope="row" align="right"> [[Property:sample_donor(cell lot)|donor(cell lot)]]</th><td> [[sample_donor(cell lot)::{{{sample_donor(cell lot)}}}]]</td>
<tr><th scope="row" align="right"> [[Property:sample_note|Note]]</th><td> [[sample_note::{{{sample_note}}}]]</td>
</table>
=== RNA info ===
<table>
<tr><th scope="row" align="right"> [[Property:sample_id|sample_id]] </th><td>[[sample_id::{{{sample_id}}}]]</td>
<tr><th scope="row" align="right"> [[Property:rna_tube_id|tube_id]]</th><td> [[rna_tube_id::{{{rna_tube_id}}}]]</td>
<tr><th scope="row" align="right"> [[Property:rna_box|box]]</th><td> [[rna_box::{{{rna_box}}}]]</td>
<tr><th scope="row" align="right"> [[Property:rna_position|position]]</th><td> [[rna_position::{{{rna_position}}}]]</td>
<tr><th scope="row" align="right"> [[Property:rna_lot_number|lot_number]]</th><td> [[rna_lot_number::{{{rna_lot_number}}}]]</td>
<tr><th scope="row" align="right"> [[Property:rna_catalog_number|catalog_number]]</th><td> [[rna_catalog_number::{{{rna_catalog_number}}}]]</td>
<tr><th scope="row" align="right"> [[Property:rna_rin|RIN]]</th><td> [[rna_rin::{{{rna_rin}}}]]</td>
<tr><th scope="row" align="right"> [[Property:rna_od260/230|OD260/230]]</th><td> [[rna_od260/230::{{{rna_od260/230}}}]]</td>
<tr><th scope="row" align="right"> [[Property:rna_od260/280|OD260/280]]</th><td> [[rna_od260/280::{{{rna_od260/280}}}]]</td>
<tr><th scope="row" align="right"> [[Property:rna_sample_type|sample_type]]</th><td> [[rna_sample_type::{{{rna_sample_type}}}]]</td>
<tr><th scope="row" align="right"> [[Property:rna_extraction_protocol|extraction_protocol]]</th><td> [[rna_extraction_protocol::{{{rna_extraction_protocol}}}]]</td>
<tr><th scope="row" align="right"> [[Property:rna_weight_ug|weight_ug]]</th><td> [[rna_weight_ug::{{{rna_weight_ug}}}]]</td>
<tr><th scope="row" align="right"> [[Property:rna_concentration|concentration]]</th><td>[[rna_concentration::{{{rna_concentration}}}]]</td>
</table>
== Parent ontology==
{{#if: {{{is_a}}} |
<div style="width:25%; float:left;">
'''is_a relathionship'''<br>{{#arraymap:{{{is_a}}}|;;|$|
{{#set:is_a=$}}{{#ifexist:$|[[$|$  {{#show:$|?name}}]]|$}}|<br>}}
</div>
|}}
{{#if: {{{part_of}}} |
<div style="width:25%; float:left;">
'''part_of relathionship'''<br>{{#arraymap:{{{part_of}}}|;;|$|
{{#set:part_of=$}}{{#ifexist:$|[[$|$  {{#show:$|?name}}]]|$}}|<br>}}
</div>
|}}
{{#if: {{{has_quality}}} |
<div style="width:25%; float:left;">
'''has_quality relathionship'''<br>{{#arraymap:{{{has_quality}}}|;;|$|
{{#set:has_quality=$}}{{#ifexist:$|[[$|$  {{#show:$|?name}}]]|$}}|<br>}}
</div>
|}}
<div style="clear:both;"></div>
== Ancestors in FF ontology ==
<!--
{{#if: {{{ancestors_in_cell_lineage_facet}}} |'''Cell_lineage'''<br>{{#arraymap:{{{ancestors_in_cell_lineage_facet}}}|,|$|
{{#set:ancestors_in_cell_lineage_facet=$}}CL:{{#ask:[[id::$]]|?name=|format=list}}|<br>}}|}}
{{#if: {{{ancestors_in_disease_facet}}} |<br>'''Disease'''<br>{{#arraymap:{{{ancestors_in_disease_facet}}}|,|$|
{{#set:ancestors_in_disease_facet=$}}DOID:{{#ask:[[id::$]]|?name=|format=list}}|<br>}}|}}
{{#if: {{{ancestors_in_anatomy_facet}}} |<br>'''Anatomy'''<br>{{#arraymap:{{{ancestors_in_anatomy_facet}}}|,|$|
{{#set:ancestors_in_anatomy_facet=$}}UBERON:{{#ask:[[id::$]]|?name=|format=list}}|<br>}}|}}
-->
<table>
<tr><th align="left">Anatomy</th><th align="left">Cell type</th> <th align="left">Disease</th>
<tr>
<td align="left" valign="top">
{{#arraymap:{{{ancestors_in_anatomy_facet}}}|,|$|{{#set:ancestors_in_anatomy_facet=$}}UBERON:{{#ask:[[id::$]]|?name=|format=list}}|<br>}}
</td>
<td align="left" valign="top">
{{#arraymap:{{{ancestors_in_cell_lineage_facet}}}|,|$|{{#set:ancestors_in_cell_lineage_facet=$}}CL:{{#ask:[[id::$]]|?name=|format=list}}|<br>}}
</td>
<td align="left" valign="top">
{{#arraymap:{{{ancestors_in_disease_facet}}}|,|$|{{#set:ancestors_in_disease_facet=$}}DOID:{{#ask:[[id::$]]|?name=|format=list}}|<br>}}
</td>
<!-- turn off for now
<div>
{{#ifeq: {{{sample_species}}} | Human (Homo sapiens) | http://upload.wikimedia.org/wikipedia/commons/thumb/1/11/Uomo_Vitruviano.jpg/86px-Uomo_Vitruviano.jpg | }}
{{#ifeq: {{{sample_species}}} | Mouse (Mus musculus) | http://genome.ucsc.edu/images/Mus_musculus.jpg | }}
{{#ifeq: {{{sample_species}}} | Rat (Rattus rattus) |  http://genome.ucsc.edu/images/Rattus_norvegicus.jpg | }}
{{#ifeq: {{{sample_species}}} | Dog (Canis lupus familaris) | http://genome.ucsc.edu/images/Canis_familiaris.jpg | }}
{{#ifeq: {{{sample_species}}} | Chicken (Gallus gallus) | http://genome.ucsc.edu/images/Gallus_gallus.jpg | }}
</div>
-->
[[Category:FF_Ontology]]
[[Category:FF_Samples]]

Latest revision as of 19:58, 3 July 2023

1motif1_TCGNAG
10motif10_SCGGAGASN
100motif100_GCYTNCTC
101motif101_NAGCAASA
102motif102_GCAAMGT
103motif103_CGGCTAWWT
104motif104_GTWSGMT
105motif105_KTNGNAGWMG
106motif106_KCGCANTC
107motif107_CGTCTGCGTA
108motif108_AACKSARM
109motif109_TCNMTMGC
11motif11_GCGANT
110motif110_AGTCGCAGCG
111motif111_WWAATYCGCTCC
112motif112_CGYGYAWT
113motif113_YGAGCTRTG
114motif114_AAACCCGCTC
115motif115_CATCAACTAC
116motif116_CCAARA
117motif117_SKSNGCGCTSN
118motif118_AATCCGGCT
119motif119_TCAAAANCG
12motif12_ACTAAG
120motif120_TTSMTGNNGKTG
121motif121_TGCAWTGTA
122motif122_TACAAYGGM
123motif123_TTGATGCAGTGA
124motif124_AATNCANCACT
125motif125_TTTAACTCGT
126motif126_AATGCAGTCG
127motif127_TTTTTACCCTC
128motif128_NNGNATRCGWN
129motif129_CTCGTAATCT
13motif13_GAGGATGCK
130motif130_TTTCAAACNCCC
131motif131_CTGCTTAAATA
132motif132_TCRCCAGWY
133motif133_TWTAWAGTWGRAG
134motif134_ATAAGAGAGGC
135motif135_TNKYTGCAKA
136motif136_GTCTGCGTCTCT
137motif137_MAACAGAAGY
138motif138_CTTTWANNYCC
139motif139_CGTTCGAATT
14motif14_TCNACG
140motif140_WTAAATAACG
141motif141_TTAAACGGC
142motif142_TCATATAGAGAAGC
143motif143_ATGATGTG
144motif144_AAKCMSGT
145motif145_GMAGWCGMAW
146motif146_AGACGAAGA
147motif147_ATATCCAGTG
148motif148_NTCSYSTYT
149motif149_CAAGCTGTACA
15motif15_ACTGTG
150motif150_AGCACAGGCG
151motif151_GCCYGTGCMKCW
152motif152_GCKYRMKCGS
153motif153_ACTYNYYATYG
154motif154_GRWGGCAARCG
155motif155_AATARSTCCC
156motif156_ACTGTAGGACMT
157motif157_AAACTWACC
158motif158_SRCGWYACA
159motif159_ACACATACTACA
16motif16_ACCAG
160motif160_AGCCGGTAACG
161motif161_CGGCTTGATT
162motif162_AGTTACCGTCA
163motif163_GARTCGCCCTGTNA
164motif164_AGCCGATTTG
165motif165_AAAGTTACTG
166motif166_TAMAACTTTGS
167motif167_TTGGGTAGGAG
168motif168_TCTCAGAGTATAAA
169motif169_GCCTGGCC
17motif17_CGCTAN
18motif18_CATCAG
19motif19_GYTGGMC
2motif2_GCTGGAGG
20motif20_TGNAGC
21motif21_TCTTGA
22motif22_GGMCTG
23motif23_CGCNAT
24motif24_AGAACT
25motif25_GATCCN
26motif26_CTCCGCAGTA
27motif27_CCTGCA
28motif28_CGTNCA
29motif29_TAGCTCGGCT
3motif3_CGCTNA
30motif30_AGNTCC
31motif31_AGNCGT
32motif32_TRGNMCTNNT
33motif33_AGAGCATGAGACGG
34motif34_GANCCT
35motif35_CGCCYAGA
36motif36_AAGGAGRAN
37motif37_GCTCGCA
38motif38_TCGNCA
39motif39_CCAAGT
4motif4_TGTCTA
40motif40_ATGCGGAGGAG
41motif41_TSACAA
42motif42_CGNTCA
43motif43_CCCWGT
44motif44_TGAAGST
45motif45_GCTCNGG
46motif46_CGNAGT
47motif47_CGAGTN
48motif48_CANTCG
49motif49_ACAGRG
5motif5_CAGTGT
50motif50_GTCCNA
51motif51_CGGNTA
52motif52_CGNATG
53motif53_ANGCTG
54motif54_CGNGTA
55motif55_CGTTATAGCC
56motif56_GANCGT
57motif57_AGGCAT
58motif58_CGGNAT
59motif59_NCWCCARNR
6motif6_AAGACT
60motif60_GCGNAT
61motif61_KAYMGMTN
62motif62_CGNGAT
63motif63_GTNCCA
64motif64_AGTCGN
65motif65_TNGCGA
66motif66_ACCGRTCA
67motif67_GNTAAC
68motif68_CTTTTAAAC
69motif69_RYKNAAATC
7motif7_CGNATC
70motif70_MAATCGC
71motif71_CTCCGCW
72motif72_CAGAAMC
73motif73_GAGCKMGC
74motif74_TTKAAAY
75motif75_AGCCGAGCGCT
76motif76_GGAGCAGCCAAT
77motif77_TCCTTGG
78motif78_NCGNWGCAWN
79motif79_ACATCTACAA
8motif8_CCATGN
80motif80_CTCTGAGAGAA
81motif81_NGCAGAA
82motif82_TTGAATCGCGG
83motif83_TTWTAAA
84motif84_GGKTTYT
85motif85_TWNNGCSNA
86motif86_CGCACAGACCGCGC
87motif87_RCGCACWS
88motif88_CCCTCTTT
89motif89_CGCCGTGTTTA
9motif9_ANGGCT
90motif90_TTATATCGC
91motif91_TTCTTTCG
92motif92_GCGKWWNAA
93motif93_TANTMTCTRWAT
94motif94_CATYTSA
95motif95_AGCGAGCTAGC
96motif96_TKNTTCTGTCTN
97motif97_TTCCCT
98motif98_GCCGAAGATT
99motif99_GYGTSANACG
Retrieved from "http://f5-webapp4.gsc.riken.jp/resource_browser/index.php?title=Template:NonRedundantMotifRender&oldid=4578820"