User:Hisa: Difference between revisions

Latest revision as of 18:50, 20 February 2014

FF ontology id	Name	Sample category	Datafreeze phase
10000-101A1	Clontech Human Universal Reference Total RNA, pool1	tissues	2
10001-101A3	Clontech Mouse Universal Reference Total RNA, pool1	tissues	2
10002-101A5	SABiosciences XpressRef Human Universal Total RNA, pool1	tissues	2
10003-101A7	SABiosciences XpressRef Mouse Universal Total RNA, pool1	tissues	2
10004-101A9	chicken embryo whole body, day10 (HH37)	tissues	-1
10005-101B1	{{{name}}}	{{{sample_category}}}	-1
10006-101B2	Universal RNA - Dog Normal Tissues Biochain, pool1	tissues	-1
10007-101B4	Universal RNA - Human Normal Tissues Biochain, pool1	tissues	2
10008-101B6	Universal RNA - Mouse Normal Tissues Biochain, pool1	tissues	2
10009-101B8	Universal RNA - Rat Normal Tissues Biochain, pool1	tissues	-1
10010-101C1	adipose tissue, adult, pool1	tissues	2
10011-101C2	bladder, adult, pool1	tissues	2
10012-101C3	brain, adult, pool1	tissues	2
10013-101C4	cervix, adult, pool1	tissues	2
10014-101C5	colon, adult, pool1	tissues	2
10015-101C6	esophagus, adult, pool1	tissues	2
10016-101C7	heart, adult, pool1	tissues	2
10017-101C8	kidney, adult, pool1	tissues	2
10018-101C9	liver, adult, pool1	tissues	2
10019-101D1	lung, adult, pool1	tissues	2

@@ Line 1: / Line 1: @@
-motif without matrices
-[[Swissregulon:SRY.p1]]
-[[Swissregulon:HOX(A,B,D)3.p1]]
-doubled top motif tables
-CNhs10855 & CNhs11062
-CNhs11245 & CNhs11183
-CNhs11248 & CNhs11185
-CNhs11772 & CNhs12996
-CNhs11781 & CNhs12997
-== enrichment analysis ==
 <html>
-<script type="text/javascript" language="javascript" src="/resource_browser/rb_js/datatables/media/js/jquery.dataTables.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>
 	<style type="text/css" title="currentStyle">
 		@import "/resource_browser/rb_js/datatables/media/css/jquery.dataTables.css";
 		@import "/resource_browser/rb_js/datatables/extras/TableTools/media/css/TableTools.css";
-.table_title{
-text-align:left;
-font-size:small;
-text-decoration:underline;
-color:darkgoldenrod;
-}
 	</style>
-<script type="text/javascript">
+                       <script>
 $(document).ready(function() {
+    var oTable =  $('.ff_sample_list').dataTable({
-var motifs = ["10-CGCGTGTTA,CNhs13235,BestGuess:AHR_ARNT_ARNT2.p2.SwissRegulon.nucfreq(0.731547557187781),T:1365.0(55.20%),B:19304.7(43.43%),P:1e-31","10-GCTTHCTCAT,CNhs13227,BestGuess:SPIB_f1_HM09(0.679182037171933),T:251.0(7.98%),B:1662.7(3.71%),P:1e-27","10-GGGAAGTGACG,CNhs13546,BestGuess:SPI1.p2.SwissRegulon.nucfreq(0.748115754357721),T:285.0(6.10%),B:880.7(1.99%),P:1e-58","10-GGTTTCTTTT,CNhs12311,BestGuess:STAT2_f1_HM09(0.738888127059946),T:856.0(19.39%),B:5883.4(13.38%),P:1e-28","10-GTAACHDC,CNhs12354,BestGuess:OVOL1_f1_HM09(0.671505012970234),T:1108.0(36.13%),B:12113.6(27.10%),P:1e-27","10-GTGATGTCACT,CNhs11999,BestGuess:CREM_f1_HM09(0.731019089758793),T:1647.0(42.96%),B:14369.6(33.04%),P:1e-36","10-GTTTCTACG,CNhs13237,BestGuess:RFX1_f1_HM09(0.675590669667085),T:710.0(25.47%),B:6908.9(15.69%),P:1e-39","10-TCCTCCGATT,CNhs13795,BestGuess:Znf263(Zf)/K562-Znf263-ChIP-Seq/Homer(0.671867263860539),T:1802.0(40.57%),B:14207.3(32.43%),P:1e-29","ZBTB4_si","ZBTB6_si","ZEP2_si","ZFP161","ZN219_f1","ZN333_f1","ZN350_f1","ZN384_f1","ZN423_f1","ZN589_f1","ZNF143","motif10","motif1026","motif103","motif1032","motif1044","motif1049","motif106","motif1068","motif1097","motif11","motif119","motif123","motif125","motif134","motif136","motif143","motif145","motif162","motif177","motif183","motif189","motif196","motif198","motif199","motif210","motif218","motif222","motif233","motif238","motif247","motif252","motif260","motif261","motif263","motif27","motif282","motif29","motif290","motif293","motif297","motif3","motif30","motif300","motif301","motif307","motif313","motif316","motif324","motif33","motif335","motif351","motif357","motif359","motif361","motif365","motif37","motif373","motif378","motif382","motif41","motif415","motif424","motif432","motif44","motif440","motif441","motif443","motif445","motif459","motif46","motif461","motif463","motif468","motif475","motif477","motif478","motif486","motif489","motif494","motif498","motif499","motif515","motif516","motif517","motif527","motif550","motif553","motif554","motif558","motif560","motif561","motif563","motif568","motif57","motif577","motif585","motif588","motif602","motif606","motif61","motif614","motif624","motif627","motif64","motif647","motif66","motif660","motif667","motif668","motif670","motif679","motif680","motif682","motif684","motif686","motif688","motif74","motif75","motif77","motif80","motif816","motif822","motif827","motif830","motif835","motif837","motif839","motif843","motif858","motif861","motif867","motif87","motif882","motif885","motif886","motif890","motif895","motif897","motif898","motif9","motif90","motif906","motif909","motif915","motif929","motif931","motif935","motif943","motif944","motif950","motif953","motif956","motif957","motif963","motif965","motif969","motif97","motif970","motif977","motif981","motif990","motif991","motif999","motif_AAGTCN","motif_ACAGTN","motif_ACNGGT","motif_ACTGGN","motif_AGGGCN","motif_AGNCGT","motif_AGNCTT","motif_ANAGCT","motif_ANCAGT","motif_ANCGCT","motif_ANCTGT","motif_ANGACT","motif_ANGCCT","motif_ANGTCT","motif_ANTGCT","motif_ATGNCT","motif_ATNGCT","motif_CAAGTNNCA","motif_CACNGT","motif_CAGNAT","motif_CAGNCT","motif_CAGNGT","motif_CAGTNT","motif_CANCTG","motif_CANGTT","motif_CANTTG","motif_CATGNT","motif_CCAGCN","motif_CCANGT","motif_CCANTG","motif_CCCTNA","motif_CCNAGT","motif_CCNGAT","motif_CCNGCA","motif_CCNGGA","motif_CGACNT","motif_CGANCT","motif_CGNTGA","motif_CNAATG","motif_CNACTG","motif_CNAGGT","motif_CNAGTCTC","motif_CNAGTT","motif_CNATGG","motif_CNCAGT","motif_CNCATG","motif_CNGAAT","motif_CNGACT","motif_CNGATG","motif_CNGATT","motif_CNGCAG","motif_CNGCAT","motif_CNGCCA","motif_CNGGAT","motif_CNGGTA","motif_CTAGNG","motif_CTAGNT","motif_CTANGG","motif_CTATGN","motif_CTCANG","motif_CTGGGN","motif_CTGGNG","motif_CTNAGT","motif_CTNATG","motif_CTNGAT","motif_CTNTAG","motif_CTTANG","motif_CTTNAG","motif_GAACNT","motif_GAAGNT","motif_GACNCT","motif_GACNGT","motif_GACNTG","motif_GAGNCT","motif_GANACT","motif_GANCAT","motif_GANGTC","motif_GANTCT","motif_GANTTC","motif_GATCTN","motif_GATNTC","motif_GCAANT","motif_GCAATN","motif_GCACNT","motif_GCANTG","motif_GCNACT","motif_GCNCAT","motif_GCNGAT","motif_GCTCANGG","motif_GCTNAT","motif_GGACTN","motif_GGAGCN","motif_GGANTC","motif_GGCANT","motif_GGCNAT","motif_GGCNCA","motif_GGGACN","motif_GGNATC","motif_GGNCAT","motif_GNAATC","motif_GNACAT","motif_GNACCT","motif_GNACTT","motif_GNATCC","motif_GNATCT","motif_GNATTC","motif_GNCAAT","motif_GNCATC","motif_GNCATG","motif_GNCATT","motif_GNCTAG","motif_GNGAGC","motif_GNGCTA","motif_GNTACC","motif_GNTACT","motif_GNTCAT","motif_GTAANC","motif_GTACTN","motif_GTANCT","motif_GTCANC","motif_GTCANG","motif_GTCATN","motif_GTCNAG","motif_GTNACC","motif_GTNACT","motif_GTNATC","motif_GTNCAT","motif_GTNGAC","motif_GTTNAC","motif_TAACNG","motif_TAANGC","motif_TACANG","motif_TACTGN","motif_TAGCNG","motif_TAGGNC","motif_TAGNCT","motif_TAGNGC","motif_TAGNTC","motif_TAGTNC","motif_TANAGC","motif_TCAANG","motif_TCACNG","motif_TCAGNT","motif_TCCNGC","motif_TCNAGT","motif_TCNGAG","motif_TCNGGA","motif_TCTNAG","motif_TGAANC","motif_TGACNC","motif_TGACNG","motif_TGANAC","motif_TGANCT","motif_TGCNAG","motif_TGCTAN","motif_TGGAGN","motif_TGNACC","motif_TGNACT","motif_TGNCAC","motif_TGNCAT","motif_TGNCCA","motif_TGNCTA","motif_TGNGAC","motif_TGNTCA","motif_TGTANC","motif_TGTNAC","motif_TNAAGC","motif_TNAGCA","motif_TNAGCC","motif_TNAGGC","motif_TNATGC","motif_TNCAAG","motif_TNCACG","motif_TNCAGA","motif_TNCAGT","motif_TNCATG","motif_TNCGCA","motif_TNCTAG","motif_TNCTGA","motif_TNGACA","motif_TNGGAC","motif_TNGGCA","motif_TNTAGC","motif_TNTGCA","motif_TTACNG","motif_TTCANG","motif_TTCNGA","motif_TTGACN","motif_TTGCAN","motif_TTGNCA","motif_TTNAGC","motif_TTNCAG"];
+});
-var pval = [1,1,1,1,6.13482e-09,1,1,1,1,1,0.999604,1,1,1,1,1,1,1,1,1,1,0.00708028,1,1,1,1,0.999946,1,1,1,1,1,0.997015,1,1,1,1,1,1,1,1,0.999984,1,1,1,0.00816367,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,0.0100364,1,1,0.96714,1,1,1,1,1,1,1,1,1,1,1,1,1,0.999993,1,1,1,1,1,1,1,1,1,1,5.89797e-08,0.999999,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,0.993238,1,1,1,1,1,1,1,1,0.0390238,1,1,0.343053,1,1,0.980803,1,1,1,0.999689,1,1,1,1,1,1,1,1,1,1,1,1,0.825871,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,0.997359,1,1,1,1,1,1,1,1,1,1,1,1,0.999947,1,1,0.998966,1,1,1,1,1,1,1,1,1,1,1,1,1,0.911901,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,0.999755,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,0.000493084,8.77295e-51,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,0.998598,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,0.999987,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,0.999974,1,1,1,1,1,1,1,1,1,1,1,1,0,1,1,1,1,1,1,1,0.991086,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,0.906871,1,0.994737,1,0.834479,1,0.997178,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,0.993321,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1.05417e-08,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,0.835013,1,9.23934e-10,1,1,1,1,1,1,1,1,1,1,1,1,1,0.997324,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,0.999999,0.938664,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,0.337207,1,1,1,1,1,1,0.999988,1,1,1,0.645058,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,0.999992,1.51362e-09,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,0.988897,1,0.99984,1,1,1,0.999998,1,1,0.989695,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,9.93892e-06,1,1,1,1,1,1,1,1,1,1,1,1,1,0.702219,1,1,1,1,1,1,1,1,1,1,1,1,6.60378e-15,1.49915e-09,1,1,1,7.26153e-12,1.56756e-07,1,1,0.560302,1,1,0.199247,1.76124e-05,0.99994,1,1,1,2.55112e-06,0.323866,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1.42689e-05,1,1,1,0.561362,1,1,1,0.0545097,1,5.60293e-08,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,0.003232,1,0.999999,1,1,1,1,1.86691e-11,1,1,1,1,0.879851,0.953685,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,0.606544,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,0.999975,1,1,1,0.999998,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,0.00434176,1,1,1,0.999999,1,1,1,1,1,1,1,0.999999,1,1,1,1,1,1,1,0.99999,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,0.999976,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,0.998762,1,0.303727,1,1,2.07678e-05,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,0.999991,1,2.07441e-34,1,0.957223,1,1,1,1,1,1,1,1,1,0.999946,1,1,1,0.999943,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1,1];
-var data = [];
-for(i1=0;i1<motifs.length;i1++){
-//data.push([motifs[i1],pval[i1]]);
-data.push([motifs[i1],""]);
-}
-    $('#tfbs_overexpression_table').dataTable({
-//"aaData": [["one", 1],["two", 3],["three", 0]],
-"aaData": data,
-"aoColumns": [{ "sTitle": "Motifs", "sWidth": "200pt", "fnRender": function(obj) {
-		return sReturn = (obj.aData[ obj.iDataColumn ].replace("BestGuess","<br>BestGuess")).replace("T","<br>T");
-		} },{ "sTitle": "p-value" }]
-});
 });
 </script>
-<table id="tfbs_overexpression_table"></table>
 </html>
+{{#ask:[[Concept:FF_samples_withname]]|[[Sample_species::Human (Homo sapiens)]]|mainlabel=FF ontology id|?Name|?Sample_category|?datafreeze_phase
+|format=ttable|class=ff_sample_list|limit=20|searchlabel=}}
-{{REVISIONTIMESTAMP}}
-{{#ifexpr: {{#expr: {{REVISIONTIMESTAMP}}-20120731160000 }} > 0 | yes }}
-{{CURRENTTIMESTAMP}}
-<!--
-{{#sparql:select * where { ?x ?y ?z . } LIMIT 100  |endpoint=http://localhost:8080/sparql/}}
-{{#ask:[[Category:FFCP]][[Coexpression_cluster_id::C297]]|?id|?Short_description|?Phase1_expression|format=template|template=Datatable_sampledata|sep=,|limit=20000}}
-{{#jstest:
-{{#ask:[[Category:FF Ontology]][[Sample_species::Mouse (Mus musculus)]]|?id|?Name|?sample_tissue|?sample_cell_line=|?sample_cell_type|?rna_sample_type|format=template|template=Datatable_sampledata|sep=,|limit=2000}}
-}}
--->
-{{#sparql:
-SELECT * WHERE { ?x ?y ?z FILTER regex(?z, "GO")
-} LIMIT 10
-|endpoint=http://go.bio2rdf.org/sparql/
-|footer=NO
-}}
-<!--
-{{#sparql:select * where { ?x ?y ?z . } LIMIT 10  |endpoint=http://localhost:8080/sparql/}}
-{{#sparql:
-PREFIX prop:<http://f5-webapp2/resource_browser/index.php/Special:URIResolver/Property-3A>
-PREFIX page:<http://f5-webapp2/resource_browser/index.php/Special:URIResolver/>
-SELECT ?x,?y WHERE {
-?x
-prop:Sample_species
-?y FILTER regex(?y, "OMO", "i" )
-} LIMIT 100
-|endpoint=http://localhost:8080/sparql/
-|headers=Page,Id
-|footer=NO
-}}
--->

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User:Hisa: Difference between revisions

From FANTOM5_SSTAR

Latest revision as of 18:50, 20 February 2014

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