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Difference between revisions of "Template:FFCP"

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−
<html><style type="text/css"> 
+
{{Loading|loadingimage=sprites.gif}}<table>
−
table.detailinfo td { width:35%; background-color: #FFFFFF;}
+
<tr><th scope="row" align="right">Short description:</th><td>{{#show:{{FULLPAGENAME}}|?short_description}}</td></tr><tr><th scope="row" align="right">Species:</th><td>{{#if:{{#pos:{{FULLPAGENAME}}|Hg19}}|[[species::Human (Homo sapiens)]]}}{{#if:{{#pos:{{FULLPAGENAME}}|Mm9}}|[[species::Mouse (Mus musculus)]]}}</td></tr><tr><th scope="row" align="right">DPI dataset:</th><td> {{#switch:{{{DPIdataset}}} |robust=Robust|permissive=Permissive|#default = NA}}</td></tr>
−
table.detailinfo th { width:15%; background-color: #fbfffb; color:#054950;}
+
<tr><th scope="row" align="right">TSS-like-by-RIKEN-classifier(Yes/No):</th><td> {{#switch: {{{TSSclassifier}}} | strong = Yes| #default = NA| weak= No|not=No}} </td></tr>
−
</style></html>
+
<!--tr><th scope="row" align="right">[[Property:GencodeV16b_All_Build2_RSEM10_CPAT_consensus|GencodeV16b-All-Build2-RSEM10-CPAT_consensus:]]</th><td>  
−
<div style="width:50%; float:none;">
+
{{#switch: {{{GencodeV16b_All_Build2_RSEM10_CPAT_consensus}}} | no_gencodeV16_or_build2_transcript = no_gencodeV16_or_build2_transcript| #default = NA|novel_noncoding=novel_noncoding|novel_coding=novel_coding|gencodeV16_ncRNA=gencodeV16_ncRNA|gencodeV16_protein_coding=gencodeV16_protein_coding}}</td></tr-->
−
<table class="detailinfo">
+
<tr><th scope="row" align="right">DHS support(Yes/No):</th><td> {{#switch: {{{DHSsupport}}}|supported= Yes|not supported=No|#default=NA}} </td></tr>
−
<tr><th scope="row" align="right">short description:</th><td> {{#show:{{FULLPAGENAME}}|?short_description}}</td></tr>
+
<tr><th scope="row" align="right">Description:</th><td> {{#show:{{FULLPAGENAME}}|?description}}</td></tr><tr><th scope="row" align="right">Coexpression cluster:</th><td>{{#if:{{#pos:{{PAGENAME}}|Hg19}}
−
<tr><th scope="row" align="right">DPIdataset:</th><td> {{#switch:{{{DPIdataset}}} |robustDPI=robustDPI|permissiveDPI=permissiveDPI|#default = NA}}</td></tr>
 
−
<tr><th scope="row" align="right">TSS-like-by-RIKEN-classifier(Yes/No):</th><td> {{#switch: {{{TSSclassifier}}} | S = Yes| #default = NA| W= No|N=No}} </td></tr>
 
−
<tr><th scope="row" align="right">GencodeV16b_All_Build2_RSEM10_CPAT_consensus:</th><td>  
 
−
{{#switch: {{{GencodeV16b_All_Build2_RSEM10_CPAT_consensus}}} | no_gencodeV16_or_build2_transcript = no_gencodeV16_or_build2_transcript| #default = NA|novel_noncoding=novel_noncoding|novel_coding=novel_coding|gencodeV16_ncRNA=gencodeV16_ncRNA|gencodeV16_protein_coding=gencodeV16_protein_coding}}</td></tr>
 
−
<tr><th scope="row" align="right">EntrezGene:</th><td>{{#if:{{{EntrezGene}}}|{{#ifeq:{{#show:{{FULLPAGENAME}}|?EntrezGene}}|NA|NA|{{#ifexist:EntrezGene:{{{EntrezGene}}}|[[EntrezGene:{{{EntrezGene}}}|{{#show:EntrezGene:{{{EntrezGene}}}|?Symbol}}]]|[http://www.ncbi.nlm.nih.gov/gene?term={{{EntrezGene}}}  {{{EntrezGene}}}] }}}}|NA}}</td></tr>
 
−
<tr><th scope="row" align="right">description:</th><td> {{#show:{{FULLPAGENAME}}|?description}}</td></tr>
 
−
<tr><th scope="row" align="right">Species:</th><td>{{#if:{{#pos:{{FULLPAGENAME}}|Hg19}}|[[species::Human (Homo sapiens)]]}}{{#if:{{#pos:{{FULLPAGENAME}}|Mm9}}|[[species::Mouse (Mus musculus)]]}}</td></tr>
 
−
<tr><th scope="row" align="right">association with transcript:</th><td> {{#show:{{FULLPAGENAME}}|?association_with_transcript}}</td></tr>
 
−
{{#if: {{{HGNC}}} | <tr><th scope="row" align="right">HGNC:</th><td> {{#ifeq:{{#show:{{FULLPAGENAME}}|?HGNC}}| {{#if:{{#pos:{{FULLPAGENAME}}|Hg19}}|NA|}}|NA|[http://www.genenames.org/cgi-bin/quick_search.pl?.cgifields=type&num=50&search={{#show:{{FULLPAGENAME}}|?HGNC}}&submit=Submit {{#show:{{FULLPAGENAME}}|?HGNC}}]|NA}}</td></tr>|}}
 
−
{{#if: {{{UniProt}}} | <tr><th scope="row" align="right">UniProt:</th><td> {{#ifeq:{{#show:{{FULLPAGENAME}}|?UniProt}}|NA|NA|[http://www.uniprot.org/uniprot/?query={{#show:{{FULLPAGENAME}}|?UniProt}}  {{#show:{{FULLPAGENAME}}|?UniProt}}]|NA}}</td></tr> |}}
 
−
<tr><th scope="row" align="right">coexpression_cluster:</th><td>
 
−
{{#if:{{#pos:{{PAGENAME}}|Hg19}}
 
 
|{{#ifeq:{{#pos:{{{coexpression_cluster_id}}}|C}}|0|[[coexpression_cluster_id::{{{coexpression_cluster_id}}}|]][[Coexpression cluster:{{{coexpression_cluster_id}}}|{{#show:Coexpression cluster:{{{coexpression_cluster_id}}}|?Full_id}}]]|NA}}
 
|{{#ifeq:{{#pos:{{{coexpression_cluster_id}}}|C}}|0|[[coexpression_cluster_id::{{{coexpression_cluster_id}}}|]][[Coexpression cluster:{{{coexpression_cluster_id}}}|{{#show:Coexpression cluster:{{{coexpression_cluster_id}}}|?Full_id}}]]|NA}}
−
}}
+
}}{{#if:{{#pos:{{PAGENAME}}|Mm9}}
−
{{#if:{{#pos:{{PAGENAME}}|Mm9}}
+
|{{#if:{{#pos:{{{MCL_coexpression_id}}}|MCL}}|NA|[[MCL_coexpression_id::{{{MCL_coexpression_id}}}|]][[MCL_coexpression_mm9:{{{MCL_coexpression_id}}}]]}}
−
|{{#ifeq:{{#len:{{{MCL_coexpression_id}}}}}|0|NA|[[MCL_coexpression_id::{{{MCL_coexpression_id}}}|]][[MCL_coexpression_mm9:{{{MCL_coexpression_id}}}]]}}
+
}}</td></tr><tr><th scope="row" align="right">Association with transcript:</th><td> {{#show:{{FULLPAGENAME}}|?association_with_transcript}}</td></tr>
−
}}
+
<tr><th scope="row" align="right">EntrezGene:</th><td>{{#if:{{{EntrezGene}}}|{{#ifeq:{{#show:{{FULLPAGENAME}}|?EntrezGene}}|NA|NA|{{#ifexist:EntrezGene:{{{EntrezGene}}}|[[EntrezGene:{{{EntrezGene}}}|{{#show:EntrezGene:{{{EntrezGene}}}|?Symbol}}]]|[http://www.ncbi.nlm.nih.gov/gene?term={{#replace:{{{EntrezGene}}}|entrezgene:|}}  {{#replace:{{{EntrezGene}}}|entrezgene:|}}] }}}}|NA}}</td></tr>{{#if: {{{HGNC}}} | <tr><th scope="row" align="right">HGNC:</th><td> {{#ifeq:{{#show:{{FULLPAGENAME}}|?HGNC}}| {{#if:{{#pos:{{FULLPAGENAME}}|Hg19}}|NA|}}|NA|[http://www.genenames.org/cgi-bin/quick_search.pl?.cgifields=type&num=50&search={{#replace:{{#show:{{FULLPAGENAME}}|?HGNC}}|HGNC:| }}&submit=Submit {{#replace:{{#show:{{FULLPAGENAME}}|?HGNC}}|HGNC:|}}]|NA}}</td></tr> |}}{{#if: {{{HGNC}}} |<tr><th scope="row" align="right">UniProt:</th><td> {{#ifeq:{{#show:{{FULLPAGENAME}}|?UniProt}}||NA|{{#arraymap:{{#show:{{FULLPAGENAME}}|?UniProt}}|,|$|[http://www.uniprot.org/uniprot/?query=$  $] |}}}}</td></tr>|}}
−
</td></tr>
 
−
 
 
 
{{#switch:{{#explode:{{PAGENAME}}|:|0}}
 
{{#switch:{{#explode:{{PAGENAME}}|:|0}}
−
|Hg19=
+
|Hg19=<tr><th scope="row" align="right">Genome view:</th><td>[//fantom.gsc.riken.jp/zenbu/gLyphs/#config=ONHzqgf2E5Xtmnpsh2gURB;loc={{#explode:{{PAGENAME}}|,|0}} ZENBU]</td></tr>
−
<tr><th scope="row" align="right">Link to Zenbu:</th><td>[https://fantom5-collaboration.gsc.riken.jp/zenbu/gLyphs/#config=BQjFm9HSPlZkqiPpqgcJ8B;loc={{#explode:{{PAGENAME}}|,|0}} ZENBU]</td></tr>
+
|Mm9=<tr><th scope="row" align="right">Link to Zenbu:</th><td>[//fantom.gsc.riken.jp/zenbu/gLyphs/#config=Uz8Jh3NEDl8qV47r6EGQ8B;loc={{#explode:{{PAGENAME}}|,|0}} ZENBU]</td></tr>
−
|Mm9=
 
−
<tr><th scope="row" align="right">Link to Zenbu:</th><td>[https://fantom5-collaboration.gsc.riken.jp/zenbu/gLyphs/#config=3qebVNZHMB1tN8DyYkP1uD;loc={{#explode:{{PAGENAME}}|,|0}} ZENBU]</td></tr>
 
 
}}
 
}}
 
</table>
 
</table>
−
</div>
 
  
 
<html>
 
<html>
Line 45: Line 28:
 
});
 
});
 
</script>
 
</script>
−
</html>
+
</html><br>
−
 
+
{{Fontsize|3|View on UCSC genome browser}}
−
== View on UCSC genome browser OSC local mirror ==
+
----
 
<div id="ucsc_snap_view" style="width:750px; height:30px; border-style:solid; border-width:1px; border-color:#aaaaaa;  overflow:auto;">
 
<div id="ucsc_snap_view" style="width:750px; height:30px; border-style:solid; border-width:1px; border-color:#aaaaaa;  overflow:auto;">
 
Mouse over to see Genome browser image, Click image to go to Genome browser
 
Mouse over to see Genome browser image, Click image to go to Genome browser
  
−
{{#ucsc_gb_link:{{#replace:{{FULLPAGENAME}}|FFCP PHASE1:|}}|https://fantom5-collaboration.gsc.riken.jp/ucsc/}}
+
{{#ucsc_gb_link:{{#if:{{#pos:{{FULLPAGENAME}}|Hg19}}|Hg19}}{{#if:{{#pos:{{FULLPAGENAME}}|Mm9}}|Mm9}}::{{{cluster_id}}}}}
−
</div>
+
</div><br>
−
 
+
{{Fontsize|3|CAGE Expression}}
−
== CAGE Expression ==
+
----
−
<html>
+
<html><script type="text/javascript" src="/5/sstar/rb_js/html5button/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="/5/sstar/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="/5/sstar/rb_js/flot/jquery.flot.min.js"></script>
−
<script type="text/javascript" language="javascript" src="/resource_browser/rb_js/flot/jquery.flot.min.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 "/5/sstar/rb_js/html5button/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>
  
Line 79: Line 61:
 
<script type="text/javascript">
 
<script type="text/javascript">
 
$(document).ready(function() {
 
$(document).ready(function() {
−
     var oTable =  $('#gene_exptable').dataTable({
+
     var oTable =  $('#gene_exptable').DataTable({
−
"sScrollY": "300px",
+
        dom: 'frt',
−
"bPaginate": false,
+
scrollY: "300px",
−
"bScrollCollapse": true,
+
paging: false,
−
"iDisplayLength": -1,
+
scrollCollapse: true,
−
"aaSorting": [[1,'desc']],
+
pageLength: -1,
−
"aoColumnDefs": [ { "asSorting": [ "desc", "asc" ], "aTargets": [ 1 ] } , { "sType": "html", "aTargets": [ 0 ] }]
+
order: [[1,'desc']],
 +
columnDefs: [{ orderSequence: [ "desc", "asc" ], targets: [ 1 ] }, { type: "html-num", targets: [ 0 ] } ]
 
});
 
});
 
$('#gene_exptable_wrapper .dataTables_scrollHead th').css("height", "100px").css("vertical-align", "bottom");
 
$('#gene_exptable_wrapper .dataTables_scrollHead th').css("height", "100px").css("vertical-align", "bottom");
Line 96: Line 79:
  
 
// chart checkbox
 
// chart checkbox
−
for (var i2=1; i2<oTable.fnSettings().aoColumns.length; i2++){
+
for (var i2=1; i2<$('#gene_exptable thead th').length; i2++){
 
key2 = i2-1;
 
key2 = i2-1;
 
         $("#gene_exptable_chart_chkbox").append('<input type="checkbox" name="' + key2 +
 
         $("#gene_exptable_chart_chkbox").append('<input type="checkbox" name="' + key2 +
 
                               '" checked="checked" id="id' + key2 + '"><label for="id' + key2 + '">'
 
                               '" checked="checked" id="id' + key2 + '"><label for="id' + key2 + '">'
−
                                 + $(oTable.fnSettings().aoColumns[i2].sTitle).text() + '</label><br/>');
+
                                 + $('#gene_exptable thead th:nth-child('+(i2+1)+')').text() + '</label><br/>');
 
}
 
}
  
 
function collectdata(){
 
function collectdata(){
 
data = [];
 
data = [];
−
for (i2=1, len2=oTable.fnSettings().aoColumns.length; i2<len2; i2++){
+
for (i2=1, len2=$('#gene_exptable thead th').length; i2<len2; i2++){
 
var plots = [];
 
var plots = [];
 
for (i1=2, len1=$('#gene_exptable tr').length; i1<len1; i1++) {
 
for (i1=2, len1=$('#gene_exptable tr').length; i1<len1; i1++) {
 
     plots.push([i1,$("#gene_exptable tr")[i1].cells[i2].innerHTML]);
 
     plots.push([i1,$("#gene_exptable tr")[i1].cells[i2].innerHTML]);
 
}
 
}
−
data.push({"label": $(oTable.fnSettings().aoColumns[i2].sTitle).text(), "data": plots});
+
data.push({"label": $('#gene_exptable thead th:nth-child('+(i2+1)+')').text(), "data": plots});
 
}
 
}
 
slist = [];
 
slist = [];
Line 116: Line 99:
 
     slist.push($("#gene_exptable tr")[i1].cells[0].innerHTML);
 
     slist.push($("#gene_exptable tr")[i1].cells[0].innerHTML);
 
}
 
}
 +
//test
 +
//slist[0] = "test";
 
}
 
}
  
Line 129: Line 114:
  
 
var plot1 = $.plot($("#gene_exptable_chart"), plotdata, {
 
var plot1 = $.plot($("#gene_exptable_chart"), plotdata, {
−
                 yaxis : { axisLabel : 'TPM' },
+
                 yaxis:{ axisLabel:'TPM' },
−
lines : { show : false },
+
lines:{ show:false },
−
points : { show : true },
+
points:{ show:true },
−
                 grid: { hoverable: true, clickable: true },
+
                 grid:{ hoverable:true, clickable:true },
−
xaxis : { tickDecimals : 0, show: false },
+
xaxis:{ tickDecimals:0, show:false },
−
                 legend: { show: false }
+
                 legend:{ show:false }
 
});
 
});
  
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         $("#y").text(pos.y.toFixed(2));
 
         $("#y").text(pos.y.toFixed(2));
 
             if (item) {
 
             if (item) {
−
                 if (previousPoint != item.dataIndex) {
+
                 if (previousPoint!=item.dataIndex) {
 
                     previousPoint = item.dataIndex;
 
                     previousPoint = item.dataIndex;
 
                      
 
                      
Line 190: Line 175:
 
                    
 
                    
 
                     showTooltip(item.pageX, item.pageY,
 
                     showTooltip(item.pageX, item.pageY,
−
                                "Sample: "+slist[item.dataIndex]+"<br>TSS: "+ item.series.label +"<br>TPM: "+y);
+
                              "Sample: "+slist[item.dataIndex]+"<br>TSS: "+ item.series.label +" TPM: "+y);
 
                 }
 
                 }
 
             }
 
             }
Line 219: Line 204:
 
</html>
 
</html>
  
−
{{#gene_exptable:{{#explode:{{PAGENAME}}|:|0}}
+
<includeonly>{{#gene_exptable:{{#explode:{{PAGENAME}}|:|0}}
 
|{{#replace:{{{short_description}}}|,|}},{{{phase1_expression}}}
 
|{{#replace:{{{short_description}}}|,|}},{{{phase1_expression}}}
−
}}
+
}}</includeonly>
−
 
+
<br>
 +
<br>
 
<div id="gene_exptable_chart" style="float:left;width:600px;height:300px;"></div>
 
<div id="gene_exptable_chart" style="float:left;width:600px;height:300px;"></div>
 
<br>
 
<br>
Line 230: Line 216:
  
 
*Click each plot point to find sample in table
 
*Click each plot point to find sample in table
−
 
+
<br>
−
== Ontology-based sample term enrichment analysis ==
+
{{Fontsize|3| Ontology-based sample term enrichment analysis}}{{#info:<b>Summary:</b>This analysis has been performed by utilizing wilcoxon rank sum test.When the number of associated cells/tissues are > n , randomly sampled n cells/tissues are used for P value calculation with rank sum test. this process are repeated several times, and the P values are averaged on the log space <br><b>Analyst:</b> Hideya Kawaji
 +
<br><br>link to source dataset<br>
 +
[//fantom.gsc.riken.jp/5/datafiles/latest/extra/Sample_ontology_enrichment_of_CAGE_peaks/ data]
 +
}}
 +
----
 
<html>
 
<html>
−
<script type="text/javascript" language="javascript" src="/resource_browser/rb_js/datatables/media/js/jquery.dataTables.js"></script>
+
<script type="text/javascript" src="/5/sstar/rb_js/html5button/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="/5/sstar/rb_js/datatables/extras/TableTools/media/js/TableTools.min.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 "/5/sstar/rb_js/html5button/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";
 
.table_title{
 
.table_title{
 
text-align:left;
 
text-align:left;
Line 249: Line 239:
  
 
$(document).ready(function() {
 
$(document).ready(function() {
−
     var oTable =  $('.enrichment_list').dataTable({
+
     var oTable =  $('.enrichment_list').DataTable({
−
"sScrollY": "300px",
+
        dom: 'frtip',
−
"bScrollCollapse": true,
+
scrollCollapse: false,
−
"bPaginate": false,
+
        columnDefs: [{ orderable: false, targets: [ 0 ] },  { type: "html-num", width: "50pt", targets: [1] }],
−
"bFilter": false,
+
order: [[ 1, "asc" ]]
−
"bInfo": false,
 
−
"aoColumnDefs": [{ "bSortable": false, "aTargets": [ 0 ] },  { "sType": "numeric", "aTargets": [1] }, { "sWidth": "50pt", "aTargets": [ 1 ] }],
 
−
"aaSorting": [[ 1, "asc" ]]
 
 
});
 
});
  
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{{#if:{{{ontology_enrichment_celltype_v019_2}}}|
 
{{#if:{{{ontology_enrichment_celltype_v019_2}}}|
 
<div style="float:left;width:33%;">
 
<div style="float:left;width:33%;">
−
<table class="enrichment_list"><caption class="table_title">Cell Type</caption><html><thead></html>
+
<table class="enrichment_list stripe cell-border order-column compact"><caption class="table_title">Cell type</caption><html><thead></html>
 
<tr><th>Ontology term</th><th>p-value</th><th>n</th></tr>
 
<tr><th>Ontology term</th><th>p-value</th><th>n</th></tr>
−
<html></thead><tbody></html><tr><td>
+
<html></thead><tbody></html>
 
{{#arraymap:{{{ontology_enrichment_celltype_v019_2}}}|;|$
 
{{#arraymap:{{{ontology_enrichment_celltype_v019_2}}}|;|$
−
|{{#set:ffcp_ontology_enrichment_celltype={{#replace:$|,|;}}}}[[{{#explode:$|,|0}}|{{#show:{{#explode:$|,|0}}|?name}}]]</td><td>{{#explode:$|,|1}}</td><td>{{#explode:$|,|2}}
+
|{{#set:ffcp_ontology_enrichment_celltype={{#replace:$|,|;}}}}{{#ifexist:{{#explode:$|,|0}}|<tr><td>[[{{#explode:$|,|0}}|{{#show:{{#explode:$|,|0}}|?name}}]]</td><td>{{#explode:$|,|1}}</td><td>{{#explode:$|,|2}}</td></tr>| }}
−
|</td></tr><tr><td>}}
+
|}}
−
</td></tr>
 
 
<html></tbody></html></table>
 
<html></tbody></html></table>
 
</div>
 
</div>
 
}}{{#if:{{{ontology_enrichment_uberon_v019_2}}}|
 
}}{{#if:{{{ontology_enrichment_uberon_v019_2}}}|
 
<div style="float:left;width:33%;">
 
<div style="float:left;width:33%;">
−
<table class="enrichment_list"><caption class="table_title">Uber Anatomy</caption><html><thead></html>
+
<table class="enrichment_list stripe cell-border order-column compact"><caption class="table_title">Uber anatomy</caption><html><thead></html>
 
<tr><th>Ontology term</th><th>p-value</th><th>n</th></tr>
 
<tr><th>Ontology term</th><th>p-value</th><th>n</th></tr>
−
<html></thead><tbody></html><tr><td>
+
<html></thead><tbody></html>
 
{{#arraymap:{{{ontology_enrichment_uberon_v019_2}}}|;|$
 
{{#arraymap:{{{ontology_enrichment_uberon_v019_2}}}|;|$
−
|{{#set:ffcp_ontology_enrichment_uberon={{#replace:$|,|;}}}}[[{{#explode:$|,|0}}|{{#show:{{#explode:$|,|0}}|?name}}]]</td><td>{{#explode:$|,|1}}</td><td>{{#explode:$|,|2}}
+
|{{#set:ffcp_ontology_enrichment_uberon={{#replace:$|,|;}}}}{{#ifexist:{{#explode:$|,|0}}|<tr><td>[[{{#explode:$|,|0}}|{{#show:{{#explode:$|,|0}}|?name}}]]</td><td>{{#explode:$|,|1}}</td><td>{{#explode:$|,|2}}</td></tr>| }}
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|</td></tr><tr><td>}}
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|}}
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<html></tbody></html></table>
 
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</div>
 
</div>
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<table class="enrichment_list"><caption class="table_title">Disease</caption><html><thead></html>
 
<table class="enrichment_list"><caption class="table_title">Disease</caption><html><thead></html>
 
<tr><th>Ontology term</th><th>p-value</th><th>n</th></tr>
 
<tr><th>Ontology term</th><th>p-value</th><th>n</th></tr>
−
<html></thead><tbody></html><tr><td>
+
<html></thead><tbody></html>
 
{{#arraymap:{{{ontology_enrichment_disease_v019_2}}}|;|$
 
{{#arraymap:{{{ontology_enrichment_disease_v019_2}}}|;|$
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|{{#set:ffcp_ontology_enrichment_disease={{#replace:$|,|;}}}}[[{{#explode:$|,|0}}|{{#show:{{#explode:$|,|0}}|?name}}]]</td><td>{{#explode:$|,|1}}</td><td>{{#explode:$|,|2}}
+
|{{#set:ffcp_ontology_enrichment_disease={{#replace:$|,|;}}}}{{#ifexist:{{#explode:$|,|0}}|<tr><td>[[{{#explode:$|,|0}}|{{#show:{{#explode:$|,|0}}|?name}}]]</td><td>{{#explode:$|,|1}}</td><td>{{#explode:$|,|2}}</td></tr>| }}
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|</td></tr><tr><td>}}
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|}}
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<html></tbody></html></table>
 
<html></tbody></html></table>
 
</div>
 
</div>
 
}}
 
}}
 
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<!--
 
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{{#ifexpr: {{#expr: {{REVISIONTIMESTAMP}}-20120731160000 }} > 0  
 
|<html>
 
|<html>
 
|}}
 
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{{#arraymap:{{{short_description}}}|,|$|{{#set:short_description=$}}}}
 
{{#arraymap:{{{short_description}}}|,|$|{{#set:short_description=$}}}}
 
{{#arraymap:{{{description}}}|,|$|{{#set:description=$}}}}
 
{{#arraymap:{{{description}}}|,|$|{{#set:description=$}}}}
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{{#set:genomic_location_end={{#explode:{{#explode:{{PAGENAME}}|..|-1}}|,|0}}}}
 
{{#set:genomic_location_end={{#explode:{{#explode:{{PAGENAME}}|..|-1}}|,|0}}}}
 
{{#set:strand={{#explode:{{PAGENAME}}|,|-1}}}}
 
{{#set:strand={{#explode:{{PAGENAME}}|,|-1}}}}
 +
{{#set:dpi_dataset={{{DPIdataset}}}}}
 +
{{#set:TSS_like_by_RIKEN_classifier={{{TSSclassifier}}}}}
 +
<!--{{#set:GencodeV16b_All_Build2_RSEM10_CPAT_consensus={{{GencodeV16b_All_Build2_RSEM10_CPAT_consensus}}}}}-->{{#set:DHS_support={{{DHSsupport}}}}}
  
 
[[Category:FFCP]]
 
[[Category:FFCP]]

Latest revision as of 03:09, 22 September 2021

Short description:
Species:
DPI dataset: NA
TSS-like-by-RIKEN-classifier(Yes/No): NA
DHS support(Yes/No): NA
Description:
Coexpression cluster:
Association with transcript:
EntrezGene:{{{EntrezGene}}}
HGNC: NA
UniProt: NA


View on UCSC genome browser

Mouse over to see Genome browser image, Click image to go to Genome browser


CAGE Expression






  • Click each plot point to find sample in table


Ontology-based sample term enrichment analysis<b>Summary:</b>This analysis has been performed by utilizing wilcoxon rank sum test.When the number of associated cells/tissues are > n , randomly sampled n cells/tissues are used for P value calculation with rank sum test. this process are repeated several times, and the P values are averaged on the log space <br><b>Analyst:</b> Hideya Kawaji<br><br>link to source dataset<br>data

Cell type
Ontology termp-valuen


Uber anatomy
Ontology termp-valuen

Disease
Ontology termp-valuen






"FFCP" is not a number.

Property "Dpi dataset" (as page type) with input value "{{{DPIdataset}}}" contains invalid characters or is incomplete and therefore can cause unexpected results during a query or annotation process. Property "TSS like by RIKEN classifier" (as page type) with input value "{{{TSSclassifier}}}" contains invalid characters or is incomplete and therefore can cause unexpected results during a query or annotation process. Property "DHS support" (as page type) with input value "{{{DHSsupport}}}" contains invalid characters or is incomplete and therefore can cause unexpected results during a query or annotation process.

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