Template:F5samples: Difference between revisions
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<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> | <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> | ||
</table> | </table> | ||
<html> | |||
<style type="text/css" title="currentStyle"> | |||
@import "/resource_browser/rb_js/datatables/media/css/f5_rb_table.css"; | |||
</style> | |||
<script type="text/javascript" language="javascript" src="/resource_browser/rb_js/datatables/media/js/jquery.dataTables.js"></script> | |||
<!-- 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:Hg19::}} | |||
<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": "FCP Phase1","sWidth": "30px", | |||
"fnRender": function(obj) { | |||
var id = obj.aData[ obj.iDataColumn ].split("!"); | |||
return sReturn = "<a href=\"/resource_browser/"+id[0]+"\">"+id[1]+"</a>"; | |||
} | |||
}, | |||
{ "sTitle": "Enrichment Score","sWidth": "30px"}, | |||
{ "sTitle": "Expression (TPM)","sWidth": "30px"}, | |||
{ "sTitle": "TF(s)"} | |||
], | |||
"aaSorting": [[ 1, "desc" ],[ 2, "desc" ],[ 0, "asc" ]] | |||
} ); | |||
$("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--> | |||
<!-- 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","sWidth": "30px"}, | |||
], | |||
"aaSorting": [[ 1, "desc" ]] | |||
} ); | |||
$("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--> | |||
<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> | |||
</html> | |||
== Details == | == Details == |
Revision as of 09:54, 9 May 2012
Name: | {{{name}}} |
---|---|
Species: | {{{sample_species}}} |
Genomic View: | zenbu , UCSC |
Details
Transcriptome profiling
hCAGE | {{{profile_hcage}}} |
---|---|
RNA-seq | {{{profile_rnaseq}}} |
smallRNA seq | {{{profile_srnaseq}}} |
nanoCAGEscan | {{{profile_cagescan}}} |
Sample info
strain | {{{sample_strain}}} |
---|---|
tissue | {{{sample_tissue}}} |
dev_stage | {{{sample_dev_stage}}} |
sex | {{{sample_sex}}} |
age | {{{sample_age}}} |
ethnicity | {{{sample_ethnicity}}} |
cell_type | {{{sample_cell_type}}} |
cell_line | {{{sample_cell_line}}} |
collaboration | {{{sample_collaboration}}} |
Experimental condition | {{{sample_experimental_condition}}} |
disease | {{{sample_disease}}} |
cell_lot | {{{sample_cell_lot}}} |
cell_catalog | {{{sample_cell_catalog}}} |
company | {{{sample_company}}} |
donor(cell lot) | {{{sample_donor(cell lot)}}} |
Note | {{{sample_note}}} |
RNA info
sample_id | {{{sample_id}}} |
---|---|
tube_id | {{{rna_tube_id}}} |
box | {{{rna_box}}} |
position | {{{rna_position}}} |
lot_number | {{{rna_lot_number}}} |
catalog_number | {{{rna_catalog_number}}} |
RIN | {{{rna_rin}}} |
OD260/230 | {{{rna_od260/230}}} |
OD260/280 | {{{rna_od260/280}}} |
sample_type | {{{rna_sample_type}}} |
extraction_protocol | {{{rna_extraction_protocol}}} |
weight_ug | {{{rna_weight_ug}}} |
concentration | {{{rna_concentration}}} |
Parent ontology
is_a relathionship
{{{is_a}}}
part_of relathionship
{{{part_of}}}
has_quality relathionship
{{{has_quality}}}
Ancestors in FF ontology
Anatomy | Cell type | Disease |
---|---|---|
UBERON: |
CL: |
Property "Ancestors in disease facet" (as page type) with input value "{{{ancestors_in_disease_facet}}}" contains invalid characters or is incomplete and therefore can cause unexpected results during a query or annotation process.DOID: |