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 "/ | @import "/5/sstar/rb_js/datatables/media/css/jquery.dataTables.css"; | ||
@import "/ | @import "/5/sstar/rb_js/datatables/extras/TableTools/media/css/TableTools.css"; | ||
</style> | </style> | ||
<script type="text/javascript" src="/ | <script type="text/javascript" src="/5/sstar/rb_js/datatables/media/js/jquery.dataTables.min.js"></script> | ||
<script type="text/javascript" src="/ | <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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tmp_element = subclusters_content[i]; | tmp_element = subclusters_content[i]; | ||
var total_length =tmp_element.length; | var total_length =tmp_element.length; | ||
if(total_length> | if(total_length>1){ | ||
var first_occurrence = tmp_element.indexOf(":"); | var first_occurrence = tmp_element.indexOf(":"); | ||
necessary_part = tmp_element.substring(first_occurrence+1,total_length); | necessary_part = tmp_element.substring(first_occurrence+1,total_length); | ||
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}else{ | }else{ | ||
} | } | ||
if( necessary_part.length> | if( necessary_part.length>1 ){ | ||
subclusters = necessary_part.split("~"); | subclusters = necessary_part.split("~"); | ||
if(subclusters.length> | if(subclusters.length>0 ){ | ||
var tmp; | var tmp; | ||
for(j=0;j<subclusters.length;j++){ | for(j=0;j<subclusters.length;j++){ | ||
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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=/ | 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": "/ | 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 ); | $('#motif_export_tool').before( motif_table_tools.dom.container ); | ||
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var uri = decodeURIComponent(motif_id); | var uri = decodeURIComponent(motif_id); | ||
return '<a class=" | return '<a class="" href="/5/sstar/seqlogos/'+tmp+"/"+ uri + '.png"><img src="/5/sstar/seqlogos/'+tmp+"/"+ uri +'.png" width="80px" height="26px" border="0"/></a>'; | ||
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<div id ="wrap" style="background-color:White; {round corners}} padding: 0.5em 1em;"> | <div id ="wrap" style="background-color:White; {round corners}} padding: 0.5em 1em;"> | ||
<div id="left_col"> | <div id="left_col"> | ||
{{#info:<br>Analyst: Ivan Kulakovskiy <br> | {{#info:<br>Analyst: Ivan Kulakovskiy,Ilya Vorontsov, Vsevolod Makeev, Michiel de Hoon <br> | ||
208 clusters of known motifs | May 2013, Collection Name: Non-redundant known motifs<br> | ||
Analysis information: 208 clusters of known motifs were produced by MACRO-APE [http://autosome.ru/macroape/] using the general phase1 motif clustering procedure applied for known motif collections. | |||
<br>207 of 208 clusters had at least one member passing motif-promoter correlation procedure.For these clusters representative motifs were selected based on motif-promoter correlation values.For each cluster only motifs with an average distance to of ther members not greater than mean+SD were considered as representatives. | |||
}} | |||
<br> | <br> | ||
* Name :[[knownname::{{{name}}}]] | * Name :[[knownname::{{{name}}}]] | ||
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* Id :[[motifid::{{{representative_motif_id}}}]] | * Id :[[motifid::{{{representative_motif_id}}}]] | ||
* name :[[motifname::{{{representative_motif_name}}}]] | * name :[[motifname::{{{representative_motif_name}}}]] | ||
* score :[[motifscore::{{{score}}}]] | * score :[[motifscore::{{{score}}}]]<br> | ||
* | * External refs: {{#arraymap:{{{entrez_gene_id}}}|,|$| | ||
<span> | |||
:[http://www.ncbi.nlm.nih.gov/gene?term=$ EntrezGene:[[GeneID::$]]]<html><br></html>[http://www.uniprot.org/uniprot/?query=$ UniProt:$] | |||
</span> | |||
|}} | |||
* Internal refs: {{#arraymap:{{{entrez_gene_id}}}|,|$| | |||
<span> | |||
:[[EntrezGene:$]]<html><br></html> | |||
</span> | |||
|}} | |||
<!--{{#ifeq: {{{representative_motif_db}}} | JASPAR |[[JASPAR_motif:{{{representative_motif_id}}}|]] | not equal}}--> | <!--{{#ifeq: {{{representative_motif_db}}} | JASPAR |[[JASPAR_motif:{{{representative_motif_id}}}|]] | not equal}}--> | ||
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} | } | ||
var tmp ="/ | 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">' | ||
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| <table cellspacing="0" border="1"><tr><td>{{#replace:{{#replace:{{{PWM}}}|!|</td></tr><tr><td>}}|;|</td><td>}}</tr></table> | | <table cellspacing="0" border="1"><tr><td>{{#replace:{{#replace:{{{PWM}}}|!|</td></tr><tr><td>}}|;|</td><td>}}</tr></table> | ||
|} | |} | ||
== Sub Motif Members == | == Sub Motif Members == | ||
<span id = "motif_export_tool"></span> | <span id = "motif_export_tool"></span> | ||
<table cellpadding="0" cellspacing="0" border="0" class="display" id="example"></table> | <table cellpadding="0" cellspacing="0" border="0" class="display" id="example"></table> | ||
{{#set:EntrezGene={{{entrez_gene_id}}}}} | |||
[[Category:Motif]] | |||
[[Category:NonRedundantMotifCluster]] | |||
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:
- Internal refs:
- [[EntrezGene:{{{entrez_gene_id}}}]]
| Motif matrix | |
|---|---|
|
Sub Motif Members
